dpkg-buildpackage -us -uc -ui -B dpkg-buildpackage: info: source package r-base dpkg-buildpackage: info: source version 3.6.0-1~bustercran.0 dpkg-buildpackage: info: source distribution buster-cran dpkg-buildpackage: info: source changed by Johannes Ranke dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean *** clean *** dh_testdir dh_testroot rm -f configure-stamp \ build-stamp build-indep-stamp build-arch-stamp \ make-stamp make-arch-stamp make-indep-stamp \ install-indep-stamp install-arch-stamp \ check-stamp [ ! -f Makefile ] || /usr/bin/make distclean rm -f `find . -name "*~"` rm -rf debian/tmp debian/files* core debian/substvars rm -f doc/html/function.html doc/html/packages.html rm -f modules/*.so src/unix/Rscript dh_clean debian/rules build-arch *** configure *** #automake #autoconf dh_testdir R_SHELL=/bin/bash \ mkdir_p="/bin/mkdir -p" \ MKDIR_P="/bin/mkdir -p" \ R_TEXI2DVICMD=emulation \ R_PAPERSIZE=letter \ R_BROWSER=xdg-open \ R_BZIPCMD=/bin/bzip2 \ R_GZIPCMD="/bin/gzip -n" \ PAGER=/usr/bin/pager \ PERL=/usr/bin/perl \ JAVA_HOME=/usr/lib/jvm/default-java \ R_UNZIPCMD=/usr/bin/unzip \ R_ZIPCMD=/usr/bin/zip \ R_PRINTCMD=/usr/bin/lpr \ TAR=/bin/tar \ LIBnn=lib \ AWK=/usr/bin/awk \ DD=/bin/dd \ GREP=/bin/grep \ FGREP="/bin/grep -F" \ EGREP="/bin/grep -E" \ SED=/bin/sed \ GETWD="/bin/pwd" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ FC=gfortran \ CFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ FFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong" \ CPPFLAGS= \ LDFLAGS="-Wl,-z,relro" \ FLIBS= \ rsharedir=/usr/share/R/share \ rincludedir=/usr/share/R/include \ rdocdir=/usr/share/R/doc \ ./configure --prefix=/usr \ --with-cairo \ --with-jpeglib \ --with-readline \ --with-tcltk \ --with-system-bzlib \ --with-system-pcre \ --with-system-zlib \ --mandir=/usr/share/man \ --infodir=/usr/share/info \ --datadir=/usr/share/R/share \ --includedir=/usr/share/R/include \ --with-blas \ --with-lapack \ --enable-R-profiling \ --enable-R-shlib \ --enable-memory-profiling \ --without-recommended-packages \ --build x86_64-linux-gnu configure: WARNING: unrecognized options: --with-system-bzlib, --with-system-pcre, --with-system-zlib checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu loading site script './config.site' loading build-specific script './config.site' checking for pwd... /bin/pwd checking whether builddir is srcdir... yes checking whether ln -s works... yes checking for ar... ar checking for a BSD-compatible install... /usr/bin/install -c checking for sed... /bin/sed checking for which... /usr/bin/which checking for /usr/bin/pager... /usr/bin/pager checking for /bin/tar... /bin/tar checking for tex... /usr/bin/tex checking for pdftex... /usr/bin/pdftex checking for pdflatex... /usr/bin/pdflatex checking for makeindex... /usr/bin/makeindex checking for texi2any... /usr/bin/texi2any checking whether texi2any version is at least 5.1... yes checking for ginstall-info... no checking for install-info... no checking for texi2dvi... /usr/bin/texi2dvi checking for kpsewhich... /usr/bin/kpsewhich checking for latex inconsolata package... found zi4.sty checking for unzip... /usr/bin/unzip checking for zip... /usr/bin/zip checking for gzip... /bin/gzip -n checking for bzip2... /bin/bzip2 using default browser ... xdg-open checking for acroread... no checking for acroread4... no checking for xdg-open... /usr/bin/xdg-open checking for working aclocal... found checking for working autoconf... found checking for working autoheader... found checking for bison... bison -y checking for notangle... false checking for realpath... /usr/bin/realpath checking for pkg-config... /usr/bin/pkg-config checking for gcc... gcc -std=gnu99 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc -std=gnu99 accepts -g... yes checking for gcc -std=gnu99 option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -std=gnu99 -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking whether gcc -std=gnu99 needs -traditional... no checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking minix/config.h usability... no checking minix/config.h presence... no checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking how to run the C preprocessor... gcc -std=gnu99 -E looking for a modern Fortran compiler checking whether we are using the GNU Fortran compiler... yes checking whether gfortran accepts -g... yes checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking whether g++ -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g can compile C++ code... yes checking how to run the C++ preprocessor... g++ -E checking whether __attribute__((visibility())) is supported... yes checking whether gcc -std=gnu99 accepts -fvisibility... yes checking whether g++ accepts -fvisibility... yes checking whether gfortran accepts -fvisibility... yes checking for gcc... gcc checking whether we are using the GNU Objective C compiler... no checking whether gcc accepts -g... no checking whether g++ can compile ObjC++... no checking whether can compile ObjC++... no checking for Objective C++ compiler... no working ObjC++ compiler found checking how to print strings... printf checking for a sed that does not truncate output... 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BSD nm checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking for gawk... /usr/bin/awk checking command to parse /usr/bin/nm -B output from gcc -std=gnu99 object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... mt checking if mt is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc -std=gnu99 supports -fno-rtti -fno-exceptions... no checking for gcc -std=gnu99 option to produce PIC... -fPIC -DPIC checking if gcc -std=gnu99 PIC flag -fPIC -DPIC works... yes checking if gcc -std=gnu99 static flag -static works... yes checking if gcc -std=gnu99 supports -c -o file.o... yes checking if gcc -std=gnu99 supports -c -o file.o... (cached) yes checking whether the gcc -std=gnu99 linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for gfortran option to produce PIC... -fPIC checking if gfortran PIC flag -fPIC works... yes checking if gfortran static flag -static works... yes checking if gfortran supports -c -o file.o... yes checking if gfortran supports -c -o file.o... (cached) yes checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for cos in -lm... yes checking for sin in -lm... yes checking for dlopen in -ldl... yes checking readline/history.h usability... yes checking readline/history.h presence... yes checking for readline/history.h... yes checking readline/readline.h usability... yes checking readline/readline.h presence... yes checking for readline/readline.h... yes checking for rl_callback_read_char in -lreadline... yes checking for history_truncate_file... yes checking whether rl_callback_sigcleanup exists and is declared... yes checking whether rl_completion_matches exists and is declared... yes checking whether rl_resize_terminal exists and is declared... yes checking whether rl_sort_completion_matches exists and is declared... yes checking for ANSI C header files... (cached) yes checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking for sys/wait.h that is POSIX.1 compatible... yes checking for dlfcn.h... (cached) yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking glob.h usability... yes checking glob.h presence... yes checking for glob.h... yes checking grp.h usability... yes checking grp.h presence... yes checking for grp.h... yes checking pwd.h usability... yes checking pwd.h presence... yes checking for pwd.h... yes checking sched.h usability... yes checking sched.h presence... yes checking for sched.h... yes checking for strings.h... 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(cached) yes checking utime.h usability... yes checking utime.h presence... yes checking for utime.h... yes checking arpa/inet.h usability... yes checking arpa/inet.h presence... yes checking for arpa/inet.h... yes checking elf.h usability... yes checking elf.h presence... yes checking for elf.h... yes checking features.h usability... yes checking features.h presence... yes checking for features.h... yes checking floatingpoint.h usability... no checking floatingpoint.h presence... no checking for floatingpoint.h... no checking langinfo.h usability... yes checking langinfo.h presence... yes checking for langinfo.h... yes checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking netinet/in.h usability... yes checking netinet/in.h presence... yes checking for netinet/in.h... yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking stdalign.h usability... yes checking stdalign.h presence... yes checking for stdalign.h... yes checking errno.h usability... yes checking errno.h presence... yes checking for errno.h... yes checking for inttypes.h... 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(cached) yes checking whether setjmp.h is POSIX.1 compatible... yes checking whether sigsetjmp is declared... yes checking whether siglongjmp is declared... yes checking for GNU C library with version >= 2... yes checking return type of signal handlers... void checking for uint64_t... yes checking for int64_t... yes checking for int_fast64_t... yes checking for pid_t... yes checking for size_t... yes checking whether SIZE_MAX is declared... yes checking for blkcnt_t... yes checking for type of socket length... socklen_t * checking for stack_t... yes checking for intptr_t... yes checking for uintptr_t... yes checking whether byte ordering is bigendian... no checking for an ANSI C-conforming const... yes checking for gcc -std=gnu99 option to accept ISO C99... none needed checking for gcc -std=gnu99 option to accept ISO Standard C... (cached) none needed checking for inline... inline checking size of int... 4 checking size of long... 8 checking size of long long... 8 checking size of double... 8 checking size of size_t... 8 checking size of long double... 16 checking whether we can compute C Make dependencies... yes, using $(CC) -MM checking whether gcc -std=gnu99 supports -c -o FILE.lo... yes checking for gcc -std=gnu99 option to support OpenMP... -fopenmp checking how to get verbose linking output from gfortran... -v checking for Fortran libraries of gfortran... -L/usr/lib/gcc/x86_64-linux-gnu/8 -L/usr/lib/gcc/x86_64-linux-gnu/8/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/8/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/8/../../.. -lgfortran -lm -lquadmath checking how to get verbose linking output from gcc -std=gnu99... -v checking for C libraries of gcc -std=gnu99... -L/usr/lib/gcc/x86_64-linux-gnu/8 -L/usr/lib/gcc/x86_64-linux-gnu/8/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/8/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/8/../../.. -lgcc_s checking for dummy main to link with Fortran libraries... none checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore checking whether gfortran appends underscores to external names... yes checking whether gfortran appends extra underscores to external names... no checking whether mixed C/Fortran code can be run... yes checking whether gfortran and gcc -std=gnu99 agree on int and double... yes checking whether gfortran and gcc -std=gnu99 agree on double complex... yes checking for gfortran option to support OpenMP... -fopenmp checking whether g++ accepts -M for generating dependencies... yes checking whether we can compute ObjC Make dependencies... no checking for xmkmf... no checking whether g++ supports C++98 features with -std=gnu++98... yes checking whether g++ supports C++11 features with -std=gnu++11... yes checking whether g++ supports C++14 features with -std=gnu++14... yes checking whether g++ supports C++17 features with -std=gnu++17... yes checking for g++ -std=gnu++11 option to support OpenMP... -fopenmp checking for option providing pthread_kill... none required checking whether POSIX threads are supported... yes checking for off_t... yes checking for working alloca.h... yes checking for alloca... yes checking whether alloca is declared... yes checking whether expm1 exists and is declared... yes checking whether hypot exists and is declared... yes checking whether log1p exists and is declared... yes checking whether log1pl exists and is declared... yes checking whether log2 exists and is declared... yes checking whether log10 exists and is declared... yes checking whether nearbyint exists and is declared... yes checking whether nearbyintl exists and is declared... yes checking whether powl exists and is declared... yes checking whether rintl exists and is declared... yes checking whether va_copy exists and is declared... yes checking for isblank... yes checking sunmath.h usability... no checking sunmath.h presence... no checking for sunmath.h... no checking for cospi in -lsunmath... no checking for atanpi... no checking for atan2pi... no checking for cospi... no checking for exp10... yes checking for pown... no checking for sinpi... no checking for tanpi... no checking for __cospi... no checking for __sinpi... no checking for __tanpi... no checking for fseeko... yes checking for ftello... yes checking for matherr... no checking whether fcntl exists and is declared... yes checking whether getgrgid exists and is declared... yes checking whether getpwuid exists and is declared... yes checking whether kill exists and is declared... yes checking whether sigaction exists and is declared... yes checking whether sigaltstack exists and is declared... yes checking whether sigemptyset exists and is declared... yes checking whether fdopen exists and is declared... yes checking whether popen exists and is declared... yes checking whether getline exists and is declared... yes checking whether select exists and is declared... yes checking whether setenv exists and is declared... yes checking whether unsetenv exists and is declared... yes checking whether getrlimit exists and is declared... yes checking whether setrlimit exists and is declared... yes checking whether getrusage exists and is declared... yes checking whether getpriority exists and is declared... yes checking whether chmod exists and is declared... yes checking whether mkfifo exists and is declared... yes checking whether stat exists and is declared... yes checking whether umask exists and is declared... yes checking whether gettimeofday exists and is declared... yes checking whether utimes exists and is declared... yes checking whether times exists and is declared... yes checking whether gmtime_r exists and is declared... yes checking whether localtime_r exists and is declared... yes checking whether nl_langinfo exists and is declared... yes checking whether access exists and is declared... yes checking whether chdir exists and is declared... yes checking whether execv exists and is declared... yes checking whether ftruncate exists and is declared... yes checking whether getcwd exists and is declared... yes checking whether geteuid exists and is declared... yes checking whether getuid exists and is declared... yes checking whether link exists and is declared... yes checking whether readlink exists and is declared... yes checking whether symlink exists and is declared... yes checking whether sysconf exists and is declared... yes checking whether sched_setaffinity exists and is declared... yes checking whether sched_getaffinity exists and is declared... yes checking whether utime exists and is declared... yes checking whether utimensat exists and is declared... yes checking for clock_gettime in -lrt... yes checking whether clock_gettime exists and is declared... yes checking whether timespec_get exists and is declared... yes checking for putenv... yes checking whether putenv is declared... yes checking for vasprintf... yes checking whether vasprintf is declared... yes checking for mempcpy... yes checking for realpath... yes checking whether realpath is declared... yes checking whether glob exists and is declared... yes checking for dladdr... yes checking for dlsym... yes checking whether dladdr is declared... yes checking whether dlsym is declared... yes checking whether RTLD_DEFAULT is declared... yes checking whether RTLD_NEXT is declared... yes checking thread.h usability... no checking thread.h presence... no checking for thread.h... no checking whether thr_stksegment exists and is declared... no checking for isnan... yes checking whether isfinite is declared... yes checking whether isnan is declared... yes checking whether you have IEEE 754 floating-point arithmetic... yes checking whether putenv("FOO") can unset an environment variable... yes checking whether putenv("FOO=") can unset an environment variable... no checking for nl_langinfo and CODESET... yes checking for mkdtemp... yes checking for strdup... yes checking for strncasecmp... yes checking whether mkdtemp is declared... yes checking whether strdup is declared... yes checking whether strncasecmp is declared... yes checking for library containing connect... none required checking for library containing gethostbyname... none required checking for library containing xdr_string... none required checking for working calloc... yes checking for working isfinite... yes checking for working log1p... yes checking whether ftell works correctly on files opened for append... yes checking for working sigaction... yes checking whether mktime sets errno... no checking whether mktime works correctly outside 1902-2037... yes checking complex.h usability... yes checking 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includes tm_zone... yes checking whether 'struct tm' includes tm_gmtoff... yes checking for dgemm_... no checking for sgemm_ in -lopenblas... no checking for ATL_xerbla in -latlas... no checking for dgemm_ in -lblas... yes checking for dgemm_ in -ldgemm... no checking for dgemm_ in -lblas... 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(cached) yes checking whether double complex BLAS can be used... yes checking whether the BLAS is complete... yes checking for dpstrf_... no checking for dpstrf_ in -llapack... yes checking iconv.h usability... yes checking iconv.h presence... yes checking for iconv.h... yes checking for iconv... yes checking whether iconv accepts "UTF-8", "latin1", "ASCII" and "UCS-*"... yes checking whether iconv accepts "CP1252"... yes checking for iconvlist... no checking for iconv... yes checking for iconv declaration... extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking wchar.h usability... yes checking wchar.h presence... yes checking for wchar.h... yes checking wctype.h usability... yes checking wctype.h presence... yes checking for wctype.h... yes checking whether mbrtowc exists and is declared... yes checking whether wcrtomb exists and is declared... yes checking whether wcscoll exists and is declared... yes checking whether wcsftime exists and is declared... yes checking whether wcstod exists and is declared... yes checking whether mbstowcs exists and is declared... yes checking whether wcstombs exists and is declared... yes checking whether wctrans exists and is declared... yes checking whether iswblank exists and is declared... yes checking whether wctype exists and is declared... yes checking whether iswctype exists and is declared... yes checking for wctrans_t... yes checking for mbstate_t... yes checking for ICU... yes checking for X... libraries , headers checking for gethostbyname... yes checking for connect... yes checking for remove... yes checking for shmat... yes checking for IceConnectionNumber in -lICE... yes checking X11/Intrinsic.h usability... yes checking X11/Intrinsic.h presence... yes checking for X11/Intrinsic.h... yes checking for XtToolkitInitialize in -lXt... yes using X11 ... yes checking for KeySym... yes checking X11/Xmu/Atoms.h usability... no checking X11/Xmu/Atoms.h presence... no checking for X11/Xmu/Atoms.h... no checking whether pkg-config knows about cairo and pango... yes checking whether cairo including pango is >= 1.2 and works... yes checking for tclConfig.sh... no checking for tclConfig.sh in library (sub)directories... /usr/lib/tcl8.6/tclConfig.sh checking for tkConfig.sh... no checking for tkConfig.sh in library (sub)directories... /usr/lib/tk8.6/tkConfig.sh checking tcl.h usability... yes checking tcl.h presence... yes checking for tcl.h... yes checking tk.h usability... yes checking tk.h presence... yes checking for tk.h... yes checking whether compiling/linking Tcl/Tk code works... yes checking for BSD networking... yes checking rpc/types.h usability... yes checking rpc/types.h presence... yes checking for rpc/types.h... yes checking for rpc/xdr.h... yes checking for XDR support... yes checking for inflateInit2_ in -lz... yes checking zlib.h usability... yes checking zlib.h presence... yes checking for zlib.h... yes checking if zlib version >= 1.2.5... yes checking whether zlib support suffices... yes checking mmap support for zlib... yes checking for BZ2_bzlibVersion in -lbz2... yes checking bzlib.h usability... yes checking bzlib.h presence... yes checking for bzlib.h... yes checking if bzip2 version >= 1.0.6... yes checking whether bzip2 support suffices... yes checking for lzma_version_number in -llzma... yes checking lzma.h usability... yes checking lzma.h presence... yes checking for lzma.h... yes checking if lzma version >= 5.0.3... yes checking for pcre_fullinfo in -lpcre... yes checking pcre.h usability... yes checking pcre.h presence... yes checking for pcre.h... yes checking pcre/pcre.h usability... no checking pcre/pcre.h presence... no checking for pcre/pcre.h... no checking if PCRE version >= 8.20, < 10.0 and has UTF-8 support... yes checking if PCRE version >= 8.32... yes checking whether PCRE support suffices... yes checking for pcre2-config... no checking for curl-config... /usr/bin/curl-config checking libcurl version ... 7.64.0 checking curl/curl.h usability... yes checking curl/curl.h presence... yes checking for curl/curl.h... yes checking if libcurl is version 7 and >= 7.22.0... yes checking if libcurl supports https... yes checking if jpeglib version >= 6b... yes checking for jpeg_destroy_compress in -ljpeg... yes checking if libpng version >= 1.2.7... yes checking for png_create_write_struct in -lpng... yes checking tiffio.h usability... yes checking tiffio.h presence... yes checking for tiffio.h... yes checking for TIFFOpen in -ltiff... yes checking whether leap seconds are treated according to POSIX... yes checking for inline... inline checking for sys/time.h... (cached) yes checking for stdlib.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... (cached) yes checking for struct stat.st_atim.tv_nsec... yes checking whether struct stat.st_atim is of type struct timespec... yes checking for setitimer... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for _LARGEFILE_SOURCE value needed for large files... no checking whether KERN_USRSTACK sysctl is supported... no checking for visible __lib_stack_end... yes checking for paperconf... /usr/bin/paperconf checking for Fortran flag to compile .f90 files... none checking for Fortran flag to compile .f95 files... none checking for gfortran option to support OpenMP... (cached) -fopenmp checking whether NLS is requested... yes Configuring src/extra/intl directory checking for a thread-safe mkdir -p... /bin/mkdir -p checking whether we are using the GNU C Library 2 or newer... yes checking for ranlib... (cached) ranlib checking for simple visibility declarations... yes checking for stdint.h... yes checking for getpagesize... yes checking for working mmap... yes checking whether integer division by zero raises SIGFPE... yes checking for inttypes.h... yes checking for unsigned long long int... yes checking for inttypes.h... (cached) yes checking whether the inttypes.h PRIxNN macros are broken... no checking for ld used by gcc -std=gnu99... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking for shared library run path origin... done checking whether imported symbols can be declared weak... yes checking for multithread API to use... none checking argz.h usability... yes checking argz.h presence... yes checking for argz.h... yes checking for inttypes.h... (cached) yes checking for limits.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... (cached) yes checking for getcwd... yes checking for getegid... yes checking for geteuid... yes checking for getgid... yes checking for getuid... yes checking for mempcpy... (cached) yes checking for munmap... yes checking for stpcpy... yes checking for strcasecmp... yes checking for strdup... (cached) yes checking for strtoul... yes checking for tsearch... yes checking for argz_count... yes checking for argz_stringify... yes checking for argz_next... yes checking for __fsetlocking... yes checking whether feof_unlocked is declared... yes checking whether fgets_unlocked is declared... yes checking for iconv... (cached) yes checking for iconv declaration... (cached) extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for NL_LOCALE_NAME macro... yes checking for bison... bison checking version of bison... 3.3.2, ok checking for long long int... yes checking for long double... yes checking for wchar_t... yes checking for wint_t... yes checking for intmax_t... yes checking whether printf() supports POSIX/XSI format strings... yes checking whether we are using the GNU C Library 2.1 or newer... yes checking for stdint.h... (cached) yes checking for SIZE_MAX... yes checking for stdint.h... (cached) yes checking for CFPreferencesCopyAppValue... no checking for CFLocaleCopyCurrent... no checking for ptrdiff_t... yes checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for asprintf... yes checking for fwprintf... yes checking for putenv... (cached) yes checking for setenv... yes checking for setlocale... yes checking for snprintf... yes checking for wcslen... yes checking whether _snprintf is declared... no checking whether _snwprintf is declared... no checking whether getc_unlocked is declared... yes checking for nl_langinfo and CODESET... (cached) yes checking for LC_MESSAGES... yes checking for CFPreferencesCopyAppValue... (cached) no checking for CFLocaleCopyCurrent... (cached) no checking whether included gettext is requested... no checking for GNU gettext in libc... yes checking whether to use NLS... yes checking where the gettext function comes from... libc Finished configuring src/extra/intl directory checking whether OpenMP SIMD reduction is supported... yes using as R_SHELL for scripts ... /bin/bash configure: creating ./config.status config.status: creating Makeconf config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/html/Makefile config.status: creating doc/manual/Makefile config.status: creating etc/Makefile config.status: creating etc/Makeconf config.status: creating etc/Renviron config.status: creating etc/javaconf config.status: creating etc/ldpaths config.status: creating m4/Makefile config.status: creating po/Makefile config.status: creating share/Makefile config.status: creating src/Makefile config.status: creating src/appl/Makefile config.status: creating src/extra/Makefile config.status: creating src/extra/blas/Makefile config.status: creating src/extra/intl/Makefile config.status: creating src/extra/tre/Makefile config.status: creating src/extra/tzone/Makefile config.status: creating src/extra/xdr/Makefile config.status: creating src/include/Makefile config.status: creating src/include/Rmath.h0 config.status: creating src/include/R_ext/Makefile config.status: creating src/library/Recommended/Makefile config.status: creating src/library/Makefile config.status: creating src/library/base/DESCRIPTION config.status: creating src/library/base/Makefile config.status: creating src/library/compiler/DESCRIPTION config.status: creating src/library/compiler/Makefile config.status: creating src/library/datasets/DESCRIPTION config.status: creating src/library/datasets/Makefile config.status: creating src/library/graphics/DESCRIPTION config.status: creating src/library/graphics/Makefile config.status: creating src/library/graphics/src/Makefile config.status: creating src/library/grDevices/DESCRIPTION config.status: creating src/library/grDevices/Makefile config.status: creating src/library/grDevices/src/Makefile config.status: creating src/library/grDevices/src/cairo/Makefile config.status: creating src/library/grid/DESCRIPTION config.status: creating src/library/grid/Makefile config.status: creating src/library/grid/src/Makefile config.status: creating src/library/methods/DESCRIPTION config.status: creating src/library/methods/Makefile config.status: creating src/library/methods/src/Makefile config.status: creating src/library/parallel/DESCRIPTION config.status: creating src/library/parallel/Makefile config.status: creating src/library/parallel/src/Makefile config.status: creating src/library/profile/Makefile config.status: creating src/library/stats/DESCRIPTION config.status: creating src/library/stats/Makefile config.status: creating src/library/stats/src/Makefile config.status: creating src/library/stats4/DESCRIPTION config.status: creating src/library/stats4/Makefile config.status: creating src/library/splines/DESCRIPTION config.status: creating src/library/splines/Makefile config.status: creating src/library/splines/src/Makefile config.status: creating src/library/tcltk/DESCRIPTION config.status: creating src/library/tcltk/Makefile config.status: creating src/library/tcltk/src/Makefile config.status: creating src/library/tools/DESCRIPTION config.status: creating src/library/tools/Makefile config.status: creating src/library/tools/src/Makefile config.status: creating src/library/translations/DESCRIPTION config.status: creating src/library/translations/Makefile config.status: creating src/library/utils/DESCRIPTION config.status: creating src/library/utils/Makefile config.status: creating src/library/utils/src/Makefile config.status: creating src/main/Makefile config.status: creating src/modules/Makefile config.status: creating src/modules/X11/Makefile config.status: creating src/modules/internet/Makefile config.status: creating src/modules/lapack/Makefile config.status: creating src/nmath/Makefile config.status: creating src/nmath/standalone/Makefile config.status: creating src/scripts/Makefile config.status: creating src/scripts/R.sh config.status: creating src/scripts/Rcmd config.status: creating src/scripts/javareconf config.status: creating src/scripts/mkinstalldirs config.status: creating src/scripts/pager config.status: creating src/scripts/rtags config.status: creating src/unix/Makefile config.status: creating tests/Makefile config.status: creating tests/Embedding/Makefile config.status: creating tests/Examples/Makefile config.status: creating tools/Makefile config.status: creating src/include/config.h config.status: executing libtool commands config.status: executing stamp-h commands configure: WARNING: unrecognized options: --with-system-bzlib, --with-system-pcre, --with-system-zlib R is now configured for x86_64-pc-linux-gnu Source directory: . Installation directory: /usr C compiler: gcc -std=gnu99 -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g Fortran fixed-form compiler: gfortran -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong Default C++ compiler: g++ -std=gnu++11 -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++98 compiler: g++ -std=gnu++98 -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++11 compiler: g++ -std=gnu++11 -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++14 compiler: g++ -std=gnu++14 -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++17 compiler: g++ -std=gnu++17 -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g Fortran free-form compiler: gfortran -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong Obj-C compiler: Interfaces supported: X11, tcltk External libraries: readline, BLAS(generic), LAPACK(generic), curl Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU Options enabled: shared R library, R profiling, memory profiling Capabilities skipped: Options not enabled: shared BLAS Recommended packages: no touch configure-stamp *** make-arch *** /usr/bin/make CFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ FFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ LDFLAGS="-Wl,-z,relro" \ PKG_BUILT_STAMP="""" \ R_GZIPCMD="/bin/gzip -n" \ R make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' creating src/scripts/R.fe make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' mkdir -p -- ../../bin make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' mkdir -p -- ../../include make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' making regcomp.d from regcomp.c making regerror.d from regerror.c making regexec.d from regexec.c making tre-ast.d from tre-ast.c making tre-compile.d from tre-compile.c making tre-match-approx.d from tre-match-approx.c making tre-match-backtrack.d from tre-match-backtrack.c making tre-match-parallel.d from tre-match-parallel.c making tre-mem.d from tre-mem.c making tre-parse.d from tre-parse.c making tre-stack.d from tre-stack.c making xmalloc.d from xmalloc.c make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c regcomp.c -o regcomp.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c regerror.c -o regerror.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c regexec.c -o regexec.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-ast.c -o tre-ast.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-compile.c -o tre-compile.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-match-approx.c -o tre-match-approx.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-match-backtrack.c -o tre-match-backtrack.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-match-parallel.c -o tre-match-parallel.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-mem.c -o tre-mem.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-parse.c -o tre-parse.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-stack.c -o tre-stack.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c xmalloc.c -o xmalloc.o ar -cr libtre.a regcomp.o regerror.o regexec.o tre-ast.o tre-compile.o tre-match-approx.o tre-match-backtrack.o tre-match-parallel.o tre-mem.o tre-parse.o tre-stack.o xmalloc.o ranlib libtre.a make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' making integrate.d from integrate.c making interv.d from interv.c making maxcol.d from maxcol.c making optim.d from optim.c making pretty.d from pretty.c making uncmin.d from uncmin.c make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c integrate.c -o integrate.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c interv.c -o interv.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c maxcol.c -o maxcol.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c optim.c -o optim.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pretty.c -o pretty.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c uncmin.c -o uncmin.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dchdc.f -o dchdc.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dpbfa.f -o dpbfa.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dpbsl.f -o dpbsl.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dpoco.f -o dpoco.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dpodi.f -o dpodi.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dpofa.f -o dpofa.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dposl.f -o dposl.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dqrdc.f -o dqrdc.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dqrdc2.f -o dqrdc2.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dqrls.f -o dqrls.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dqrsl.f -o dqrsl.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dqrutl.f -o dqrutl.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dsvdc.f -o dsvdc.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dtrco.f -o dtrco.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c dtrsl.f -o dtrsl.o ar -cr libappl.a integrate.o interv.o maxcol.o optim.o pretty.o uncmin.o dchdc.o dpbfa.o dpbsl.o dpoco.o dpodi.o dpofa.o dposl.o dqrdc.o dqrdc2.o dqrls.o dqrsl.o dqrutl.o dsvdc.o dtrco.o dtrsl.o ranlib libappl.a make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mlutils.c -o mlutils.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c d1mach.c -o d1mach.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c i1mach.c -o i1mach.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fmax2.c -o fmax2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fmin2.c -o fmin2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fprec.c -o fprec.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fround.c -o fround.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ftrunc.c -o ftrunc.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sign.c -o sign.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fsign.c -o fsign.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c imax2.c -o imax2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c imin2.c -o imin2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chebyshev.c -o chebyshev.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c log1p.c -o log1p.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lgammacor.c -o lgammacor.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gammalims.c -o gammalims.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stirlerr.c -o stirlerr.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bd0.c -o bd0.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gamma.c -o gamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lgamma.c -o lgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gamma_cody.c -o gamma_cody.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c beta.c -o beta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lbeta.c -o lbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c polygamma.c -o polygamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cospi.c -o cospi.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_i.c -o bessel_i.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_j.c -o bessel_j.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_k.c -o bessel_k.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_y.c -o bessel_y.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c choose.c -o choose.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c snorm.c -o snorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sexp.c -o sexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dgamma.c -o dgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pgamma.c -o pgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qgamma.c -o qgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rgamma.c -o rgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dbeta.c -o dbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pbeta.c -o pbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qbeta.c -o qbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rbeta.c -o rbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dunif.c -o dunif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c punif.c -o punif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qunif.c -o qunif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 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-o rt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnt.c -o dnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dchisq.c -o dchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pchisq.c -o pchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 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-O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qexp.c -o qexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rexp.c -o rexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dgeom.c -o dgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time 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-O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dpois.c -o dpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ppois.c -o ppois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qpois.c -o qpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rpois.c -o rpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dweibull.c -o dweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pweibull.c -o pweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qweibull.c -o qweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rweibull.c -o rweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dlogis.c -o dlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plogis.c -o plogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qlogis.c -o qlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlogis.c -o rlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnchisq.c -o dnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnchisq.c -o pnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnchisq.c -o qnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnbeta.c -o dnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnbeta.c -o pnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnbeta.c -o qnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnf.c -o pnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnt.c -o pnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnf.c -o qnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnt.c -o qnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ptukey.c -o ptukey.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qtukey.c -o qtukey.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c toms708.c -o toms708.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c wilcox.c -o wilcox.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c signrank.c -o signrank.o ar -cr libnmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o ranlib libnmath.a make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' config.status: creating src/unix/Makefile making Rembedded.d from Rembedded.c making dynload.d from dynload.c making system.d from system.c making sys-unix.d from sys-unix.c making sys-std.d from sys-std.c making X11.d from X11.c make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rembedded.c -o Rembedded.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dynload.c -o dynload.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c system.c -o system.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sys-unix.c -o sys-unix.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sys-std.c -o sys-std.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c X11.c -o X11.o ar -cr libunix.a Rembedded.o dynload.o system.o sys-unix.o sys-std.o X11.o ranlib libunix.a make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/home/jranke/git/r-backports/buster/r-base-3.6.0"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' config.status: creating src/main/Makefile making CommandLineArgs.d from CommandLineArgs.c making Rdynload.d from Rdynload.c making Renviron.d from Renviron.c making RNG.d from RNG.c making agrep.d from agrep.c making altclasses.d from altclasses.c making altrep.d from altrep.c making apply.d from apply.c making arithmetic.d from arithmetic.c making array.d from array.c making attrib.d from attrib.c making bind.d from bind.c making builtin.d from builtin.c making character.d from character.c making coerce.d from coerce.c making colors.d from colors.c making complex.d from complex.c making connections.d from connections.c making context.d from context.c making cum.d from cum.c making dcf.d from dcf.c making datetime.d from datetime.c making debug.d from debug.c making deparse.d from deparse.c making devices.d from devices.c making dotcode.d from dotcode.c making dounzip.d from dounzip.c making dstruct.d from dstruct.c making duplicate.d from duplicate.c making edit.d from edit.c making engine.d from engine.c making envir.d from envir.c making errors.d from errors.c making eval.d from eval.c making format.d from format.c making gevents.d from gevents.c making gram.d from gram.c making gram-ex.d from gram-ex.c making graphics.d from graphics.c making grep.d from grep.c making identical.d from identical.c making inlined.d from inlined.c making inspect.d from inspect.c making internet.d from internet.c making iosupport.d from iosupport.c making lapack.d from lapack.c making list.d from list.c making localecharset.d from localecharset.c making logic.d from logic.c making main.d from main.c making mapply.d from mapply.c making match.d from match.c making memory.d from memory.c making names.d from names.c making objects.d from objects.c making options.d from options.c making paste.d from paste.c making platform.d from platform.c making plot.d from plot.c making plot3d.d from plot3d.c making plotmath.d from plotmath.c making print.d from print.c making printarray.d from printarray.c making printvector.d from printvector.c making printutils.d from printutils.c making qsort.d from qsort.c making radixsort.d from radixsort.c making random.d from random.c making raw.d from raw.c making registration.d from registration.c making relop.d from relop.c making rlocale.d from rlocale.c making saveload.d from saveload.c making scan.d from scan.c making seq.d from seq.c making serialize.d from serialize.c making sort.d from sort.c making source.d from source.c making split.d from split.c making sprintf.d from sprintf.c making startup.d from startup.c making subassign.d from subassign.c making subscript.d from subscript.c making subset.d from subset.c making summary.d from summary.c making sysutils.d from sysutils.c making times.d from times.c making unique.d from unique.c making util.d from util.c making version.d from version.c making g_alab_her.d from g_alab_her.c making g_cntrlify.d from g_cntrlify.c making g_fontdb.d from g_fontdb.c making g_her_glyph.d from g_her_glyph.c making Rmain.d from Rmain.c making alloca.d from alloca.c making mkdtemp.d from mkdtemp.c making strdup.d from strdup.c making strncasecmp.d from strncasecmp.c make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c CommandLineArgs.c -o CommandLineArgs.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rdynload.c -o Rdynload.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Renviron.c -o Renviron.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RNG.c -o RNG.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c agrep.c -o agrep.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c altclasses.c -o altclasses.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c altrep.c -o altrep.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c apply.c -o apply.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c arithmetic.c -o arithmetic.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c array.c -o array.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c attrib.c -o attrib.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bind.c -o bind.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c builtin.c -o builtin.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c character.c -o character.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c coerce.c -o coerce.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c colors.c -o colors.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c complex.c -o complex.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 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-fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qsort.c -o qsort.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c radixsort.c -o radixsort.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c random.c -o random.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c raw.c -o raw.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c registration.c -o registration.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c relop.c -o relop.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlocale.c -o rlocale.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c saveload.c -o saveload.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c scan.c -o scan.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c seq.c -o seq.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c serialize.c -o serialize.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sort.c -o sort.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c source.c -o source.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c split.c -o split.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sprintf.c -o sprintf.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c startup.c -o startup.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subassign.c -o subassign.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subscript.c -o subscript.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subset.c -o subset.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c summary.c -o summary.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sysutils.c -o sysutils.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c times.c -o times.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unique.c -o unique.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c util.c -o util.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c version.c -o version.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_alab_her.c -o g_alab_her.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_cntrlify.c -o g_cntrlify.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_fontdb.c -o g_fontdb.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_her_glyph.c -o g_her_glyph.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c xxxpr.f -o xxxpr.o gcc -std=gnu99 -shared -fopenmp -Wl,-z,relro -o libR.so CommandLineArgs.o Rdynload.o Renviron.o RNG.o agrep.o altclasses.o altrep.o apply.o arithmetic.o array.o attrib.o bind.o builtin.o character.o coerce.o colors.o complex.o connections.o context.o cum.o dcf.o datetime.o debug.o deparse.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o edit.o engine.o envir.o errors.o eval.o format.o gevents.o gram.o gram-ex.o graphics.o grep.o identical.o inlined.o inspect.o internet.o iosupport.o lapack.o list.o localecharset.o logic.o main.o mapply.o match.o memory.o names.o objects.o options.o paste.o platform.o plot.o plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o qsort.o radixsort.o random.o raw.o registration.o relop.o rlocale.o saveload.o scan.o seq.o serialize.o sort.o source.o split.o sprintf.o startup.o subassign.o subscript.o subset.o summary.o sysutils.o times.o unique.o util.o version.o g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o xxxpr.o `ls ../unix/*.o ../appl/*.o ../nmath/*.o` ../extra/tre/libtre.a -lblas -lgfortran -lm -lquadmath -lreadline -lpcre -llzma -lbz2 -lz -lrt -ldl -lm -licuuc -licui18n make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/bin/exec mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/lib make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rmain.c -o Rmain.o gcc -std=gnu99 -Wl,--export-dynamic -fopenmp -L"../../lib" -Wl,-z,relro -o R.bin Rmain.o -lR make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' making Rhttpd.d from Rhttpd.c making Rsock.d from Rsock.c making internet.d from internet.c making libcurl.d from libcurl.c making nanoftp.d from nanoftp.c making nanohttp.d from nanohttp.c making sock.d from sock.c making sockconn.d from sockconn.c make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c internet.c -o internet.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c libcurl.c -o libcurl.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c nanoftp.c -o nanoftp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c nanohttp.c -o nanohttp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c sock.c -o sock.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-z,relro -o internet.so Rhttpd.o Rsock.o internet.o libcurl.o nanoftp.o nanohttp.o sock.o sockconn.o -lcurl -lR make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/modules make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' making Lapack.d from Lapack.c make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Lapack.c -o Lapack.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-z,relro -o lapack.so Lapack.o -lR -llapack -lblas -lgfortran -lm -lquadmath make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' making devX11.d from devX11.c making rotated.d from rotated.c making rbitmap.d from rbitmap.c make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' gcc -std=gnu99 -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devX11.c -o devX11.o gcc -std=gnu99 -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rotated.c -o rotated.o gcc -std=gnu99 -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rbitmap.c -o rbitmap.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-z,relro -o R_X11.so devX11.o rotated.o rbitmap.o -ltiff -ljpeg -lpng16 -lz -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lR -lm gcc -std=gnu99 -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dataentry.c -o dataentry.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-z,relro -o R_de.so dataentry.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lR -lm make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' mkdir -p -- ../../library make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' building package 'translations' mkdir -p -- ../../../library/translations make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' building package 'base' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' mkdir -p -- ../../../library/base/demo make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' mkdir -p -- ../../../library/tools/R make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' making text.d from text.c making init.d from init.c making Rmd5.d from Rmd5.c making md5.d from md5.c making signals.d from signals.c making install.d from install.c making getfmts.d from getfmts.c making http.d from http.c making gramLatex.d from gramLatex.c making gramRd.d from gramRd.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c text.c -o text.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rmd5.c -o Rmd5.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c md5.c -o md5.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c signals.c -o signals.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c install.c -o install.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c getfmts.c -o getfmts.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c http.c -o http.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gramLatex.c -o gramLatex.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gramRd.c -o gramRd.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o tools.so text.o init.o Rmd5.o md5.o signals.o install.o getfmts.o http.o gramLatex.o gramRd.o -L../../../../lib -lR make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' building package 'compiler' mkdir -p -- ../../../library/compiler make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' mkdir -p -- ../../../library/compiler/R make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' byte-compiling package 'compiler' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' byte-compiling package 'base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' byte-compiling package 'tools' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils mkdir -p -- ../../../library/utils/doc make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' mkdir -p -- ../../../library/utils/R mkdir -p -- ../../../library/utils/Sweave mkdir -p -- ../../../library/utils/misc make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' making init.d from init.c making io.d from io.c making size.d from size.c making sock.d from sock.c making stubs.d from stubs.c making utils.d from utils.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c io.c -o io.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c size.c -o size.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sock.c -o sock.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stubs.c -o stubs.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o utils.so init.o io.o size.o sock.o stubs.o utils.o -L../../../../lib -lR make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' mkdir -p -- ../../../../library/utils/libs make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' byte-compiling package 'utils' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' mkdir -p -- ../../../library/grDevices/R mkdir -p -- ../../../library/grDevices/afm mkdir -p -- ../../../library/grDevices/enc mkdir -p -- ../../../library/grDevices/icc make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' making axis_scales.d from axis_scales.c making chull.d from chull.c making devices.d from devices.c making init.d from init.c making stubs.d from stubs.c making colors.d from colors.c making devCairo.d from devCairo.c making devPicTeX.d from devPicTeX.c making devPS.d from devPS.c making devQuartz.d from devQuartz.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c axis_scales.c -o axis_scales.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chull.c -o chull.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devices.c -o devices.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stubs.c -o stubs.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c colors.c -o colors.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devCairo.c -o devCairo.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devPicTeX.c -o devPicTeX.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devPS.c -o devPS.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devQuartz.c -o devQuartz.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o grDevices.so axis_scales.o chull.o devices.o init.o stubs.o colors.o devCairo.o devPicTeX.o devPS.o devQuartz.o -lz -L../../../../lib -lR make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[8]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' making cairoBM.d from cairoBM.c make[9]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' gcc -std=gnu99 -I. -I../../../../../src/include -I../../../../../src/include -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../../../src/modules/X11 -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cairoBM.c -o cairoBM.o gcc -std=gnu99 -shared -L"../../../../../lib" -Wl,-z,relro -o cairo.so cairoBM.o ../../../../../src/modules/X11/rbitmap.o -ltiff -ljpeg -lpng16 -lz -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lpng16 -lz -lcairo -L"../../../../../lib" -lR -lm make[10]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' byte-compiling package 'grDevices' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' mkdir -p -- ../../../library/graphics/R make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' making init.d from init.c making base.d from base.c making graphics.d from graphics.c making par.d from par.c making plot.d from plot.c making plot3d.d from plot3d.c making stem.d from stem.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c base.c -o base.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c graphics.c -o graphics.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c par.c -o par.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot.c -o plot.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot3d.c -o plot3d.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stem.c -o stem.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o graphics.so init.o base.o graphics.o par.o plot.o plot3d.o stem.o -L../../../../lib -lR make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' mkdir -p -- ../../../../library/graphics/libs make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' byte-compiling package 'graphics' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' mkdir -p -- ../../../library/stats/R make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' making init.d from init.c making kmeans.d from kmeans.c making ansari.d from ansari.c making bandwidths.d from bandwidths.c making chisqsim.d from chisqsim.c making d2x2xk.d from d2x2xk.c making fexact.d from fexact.c making kendall.d from kendall.c making ks.d from ks.c making line.d from line.c making smooth.d from smooth.c making prho.d from prho.c making swilk.d from swilk.c making ksmooth.d from ksmooth.c making loessc.d from loessc.c making monoSpl.d from monoSpl.c making isoreg.d from isoreg.c making Srunmed.d from Srunmed.c making dblcen.d from dblcen.c making distance.d from distance.c making hclust-utils.d from hclust-utils.c making nls.d from nls.c making rWishart.d from rWishart.c making HoltWinters.d from HoltWinters.c making PPsum.d from PPsum.c making arima.d from arima.c making burg.d from burg.c making filter.d from filter.c making mAR.d from mAR.c making pacf.d from pacf.c making starma.d from starma.c making port.d from port.c making family.d from family.c making sbart.d from sbart.c making approx.d from approx.c making loglin.d from loglin.c making lowess.d from lowess.c making massdist.d from massdist.c making splines.d from splines.c making lm.d from lm.c making complete_cases.d from complete_cases.c making cov.d from cov.c making deriv.d from deriv.c making fft.d from fft.c making fourier.d from fourier.c making model.d from model.c making optim.d from optim.c making optimize.d from optimize.c making integrate.d from integrate.c making random.d from random.c making distn.d from distn.c making zeroin.d from zeroin.c making rcont.d from rcont.c making influence.d from influence.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c kmeans.c -o kmeans.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ansari.c -o ansari.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bandwidths.c -o bandwidths.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chisqsim.c -o chisqsim.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c d2x2xk.c -o d2x2xk.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fexact.c -o fexact.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c kendall.c -o kendall.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ks.c -o ks.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c line.c -o line.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c smooth.c -o smooth.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c prho.c -o prho.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c swilk.c -o swilk.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ksmooth.c -o ksmooth.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c loessc.c -o loessc.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c monoSpl.c -o monoSpl.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c isoreg.c -o isoreg.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Srunmed.c -o Srunmed.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dblcen.c -o dblcen.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c distance.c -o distance.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c hclust-utils.c -o hclust-utils.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c nls.c -o nls.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rWishart.c -o rWishart.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c HoltWinters.c -o HoltWinters.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c PPsum.c -o PPsum.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c arima.c -o arima.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c burg.c -o burg.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c filter.c -o filter.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mAR.c -o mAR.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pacf.c -o pacf.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c starma.c -o starma.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c port.c -o port.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c family.c -o family.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sbart.c -o sbart.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c approx.c -o approx.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c loglin.c -o loglin.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lowess.c -o lowess.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c massdist.c -o massdist.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c splines.c -o splines.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lm.c -o lm.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c complete_cases.c -o complete_cases.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cov.c -o cov.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c deriv.c -o deriv.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fft.c -o fft.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fourier.c -o fourier.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c model.c -o model.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c optim.c -o optim.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c optimize.c -o optimize.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c integrate.c -o integrate.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c random.c -o random.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c distn.c -o distn.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c zeroin.c -o zeroin.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rcont.c -o rcont.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c influence.c -o influence.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c bsplvd.f -o bsplvd.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c bvalue.f -o bvalue.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c bvalus.f -o bvalus.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c loessf.f -o loessf.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c ppr.f -o ppr.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c qsbart.f -o qsbart.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c sgram.f -o sgram.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c sinerp.f -o sinerp.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c sslvrg.f -o sslvrg.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c stxwx.f -o stxwx.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c hclust.f -o hclust.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c kmns.f -o kmns.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c eureka.f -o eureka.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c stl.f -o stl.o gfortran -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -msse2 -mfpmath=sse -c portsrc.f -o portsrc.o gfortran -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -c lminfl.f -o lminfl.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o stats.so init.o kmeans.o ansari.o bandwidths.o chisqsim.o d2x2xk.o fexact.o kendall.o ks.o line.o smooth.o prho.o swilk.o ksmooth.o loessc.o monoSpl.o isoreg.o Srunmed.o dblcen.o distance.o hclust-utils.o nls.o rWishart.o HoltWinters.o PPsum.o arima.o burg.o filter.o mAR.o pacf.o starma.o port.o family.o sbart.o approx.o loglin.o lowess.o massdist.o splines.o lm.o complete_cases.o cov.o deriv.o fft.o fourier.o model.o optim.o optimize.o integrate.o random.o distn.o zeroin.o rcont.o influence.o bsplvd.o bvalue.o bvalus.o loessf.o ppr.o qsbart.o sgram.o sinerp.o sslvrg.o stxwx.o hclust.o kmns.o eureka.o stl.o portsrc.o lminfl.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L../../../../lib -lR make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' byte-compiling package 'stats' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' mkdir -p -- ../../../library/datasets/data make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' mkdir -p -- ../../../library/methods/R make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' making do_substitute_direct.d from do_substitute_direct.c making init.d from init.c making methods_list_dispatch.d from methods_list_dispatch.c making slot.d from slot.c making class_support.d from class_support.c making tests.d from tests.c making utils.d from utils.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c do_substitute_direct.c -o do_substitute_direct.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slot.c -o slot.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c class_support.c -o class_support.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tests.c -o tests.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o methods.so do_substitute_direct.o init.o methods_list_dispatch.o slot.o class_support.o tests.o utils.o -L../../../../lib -lR make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' byte-compiling 'methods' initializing class and method definitions ... done make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid mkdir -p -- ../../../library/grid/doc make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' mkdir -p -- ../../../library/grid/R make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' making gpar.d from gpar.c making grid.d from grid.c making just.d from just.c making layout.d from layout.c making matrix.d from matrix.c making register.d from register.c making state.d from state.c making unit.d from unit.c making util.d from util.c making viewport.d from viewport.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gpar.c -o gpar.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c grid.c -o grid.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c just.c -o just.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c layout.c -o layout.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c matrix.c -o matrix.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c register.c -o register.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c state.c -o state.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unit.c -o unit.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c util.c -o util.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c viewport.c -o viewport.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o grid.so gpar.o grid.o just.o layout.o matrix.o register.o state.o unit.o util.o viewport.o -L../../../../lib -lR make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' byte-compiling package 'grid' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' mkdir -p -- ../../../library/splines/R make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' making splines.d from splines.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c splines.c -o splines.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o splines.so splines.o -L../../../../lib -lR make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' byte-compiling package 'splines' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' mkdir -p -- ../../../library/stats4/R make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' byte-compiling package 'stats4' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' mkdir -p -- ../../../library/tcltk/exec make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' making init.d from init.c making tcltk.d from tcltk.c making tcltk_unix.d from tcltk_unix.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tcltk.c -o tcltk.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tcltk_unix.c -o tcltk_unix.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o tcltk.so init.o tcltk.o tcltk_unix.o -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -L/usr/lib/x86_64-linux-gnu -ltk8.6 -lX11 -lXss -lXext -lm -L../../../../lib -lR make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' byte-compiling package 'tcltk' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' building package 'parallel' mkdir -p -- ../../../library/parallel mkdir -p -- ../../../library/parallel/doc make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' mkdir -p -- ../../../library/parallel/R make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' making init.d from init.c making rngstream.d from rngstream.c making fork.d from fork.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rngstream.c -o rngstream.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fork.c -o fork.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' mkdir -p -- ../../../../library/parallel/libs make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' byte-compiling package 'parallel' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' you should 'make docs' now ... make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' (cd src/nmath/standalone; \ /usr/bin/make CFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ FFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -D_REENTRANT" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ R_GZIPCMD="/bin/gzip -n" \ libRmath_la_LDFLAGS=-Wl,-soname,libRmath.so.1 \ shared static ) make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' (cd ../../include; /usr/bin/make Rmath.h) make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' Copying source files make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c making std_unif.d from std_unif.c make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c mlutils.c -o mlutils.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c d1mach.c -o d1mach.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c i1mach.c -o i1mach.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmax2.c -o fmax2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmin2.c -o fmin2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fprec.c -o fprec.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fround.c -o fround.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ftrunc.c -o ftrunc.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sign.c -o sign.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fsign.c -o fsign.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imax2.c -o imax2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imin2.c -o imin2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c chebyshev.c -o chebyshev.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c log1p.c -o log1p.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgammacor.c -o lgammacor.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gammalims.c -o gammalims.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c stirlerr.c -o stirlerr.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bd0.c -o bd0.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma.c -o gamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgamma.c -o lgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma_cody.c -o gamma_cody.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c beta.c -o beta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lbeta.c -o lbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c polygamma.c -o polygamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c cospi.c -o cospi.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_i.c -o bessel_i.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_j.c -o bessel_j.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_k.c -o bessel_k.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_y.c -o bessel_y.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c choose.c -o choose.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c snorm.c -o snorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sexp.c -o sexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgamma.c -o dgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgamma.c -o pgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgamma.c -o qgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgamma.c -o rgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbeta.c -o dbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbeta.c -o pbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbeta.c -o qbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbeta.c -o rbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dunif.c -o dunif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c punif.c -o punif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qunif.c -o qunif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c runif.c -o runif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnorm.c -o dnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnorm.c -o pnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnorm.c -o qnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnorm.c -o rnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlnorm.c -o dlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plnorm.c -o plnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlnorm.c -o qlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlnorm.c -o rlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c df.c -o df.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pf.c -o pf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qf.c -o qf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rf.c -o rf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnf.c -o dnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dt.c -o dt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pt.c -o pt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qt.c -o qt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rt.c -o rt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnt.c -o dnt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dchisq.c -o dchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pchisq.c -o pchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qchisq.c -o qchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rchisq.c -o rchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnchisq.c -o rnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbinom.c -o dbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbinom.c -o pbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbinom.c -o qbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbinom.c -o rbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rmultinom.c -o rmultinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dcauchy.c -o dcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pcauchy.c -o pcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qcauchy.c -o qcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rcauchy.c -o rcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dexp.c -o dexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pexp.c -o pexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qexp.c -o qexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rexp.c -o rexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgeom.c -o dgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgeom.c -o pgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgeom.c -o qgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgeom.c -o rgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dhyper.c -o dhyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c phyper.c -o phyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qhyper.c -o qhyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rhyper.c -o rhyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbinom.c -o dnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnbinom.c -o pnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbinom.c -o qnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnbinom.c -o rnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dpois.c -o dpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ppois.c -o ppois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qpois.c -o qpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rpois.c -o rpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dweibull.c -o dweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pweibull.c -o pweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qweibull.c -o qweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rweibull.c -o rweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlogis.c -o dlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plogis.c -o plogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlogis.c -o qlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlogis.c -o rlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnchisq.c -o dnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnchisq.c -o pnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnchisq.c -o qnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbeta.c -o dnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnbeta.c -o pnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbeta.c -o qnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnf.c -o pnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnt.c -o pnt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnf.c -o qnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnt.c -o qnt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ptukey.c -o ptukey.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qtukey.c -o qtukey.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c toms708.c -o toms708.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c wilcox.c -o wilcox.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c signrank.c -o signrank.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c std_unif.c -o std_unif.lo gcc -std=gnu99 -shared -fopenmp -Wl,-z,relro -o libRmath.so -Wl,-soname,libRmath.so.1 mlutils.lo d1mach.lo i1mach.lo fmax2.lo fmin2.lo fprec.lo fround.lo ftrunc.lo sign.lo fsign.lo imax2.lo imin2.lo chebyshev.lo log1p.lo lgammacor.lo gammalims.lo stirlerr.lo bd0.lo gamma.lo lgamma.lo gamma_cody.lo beta.lo lbeta.lo polygamma.lo cospi.lo bessel_i.lo bessel_j.lo bessel_k.lo bessel_y.lo choose.lo snorm.lo sexp.lo dgamma.lo pgamma.lo qgamma.lo rgamma.lo dbeta.lo pbeta.lo qbeta.lo rbeta.lo dunif.lo punif.lo qunif.lo runif.lo dnorm.lo pnorm.lo qnorm.lo rnorm.lo dlnorm.lo plnorm.lo qlnorm.lo rlnorm.lo df.lo pf.lo qf.lo rf.lo dnf.lo dt.lo pt.lo qt.lo rt.lo dnt.lo dchisq.lo pchisq.lo qchisq.lo rchisq.lo rnchisq.lo dbinom.lo pbinom.lo qbinom.lo rbinom.lo rmultinom.lo dcauchy.lo pcauchy.lo qcauchy.lo rcauchy.lo dexp.lo pexp.lo qexp.lo rexp.lo dgeom.lo pgeom.lo qgeom.lo rgeom.lo dhyper.lo phyper.lo qhyper.lo rhyper.lo dnbinom.lo pnbinom.lo qnbinom.lo rnbinom.lo dpois.lo ppois.lo qpois.lo rpois.lo dweibull.lo pweibull.lo qweibull.lo rweibull.lo dlogis.lo plogis.lo qlogis.lo rlogis.lo dnchisq.lo pnchisq.lo qnchisq.lo dnbeta.lo pnbeta.lo qnbeta.lo pnf.lo pnt.lo qnf.lo qnt.lo ptukey.lo qtukey.lo toms708.lo wilcox.lo signrank.lo std_unif.lo -lm make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c mlutils.c -o mlutils.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c d1mach.c -o d1mach.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c i1mach.c -o i1mach.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmax2.c -o fmax2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmin2.c -o fmin2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fprec.c -o fprec.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fround.c -o fround.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ftrunc.c -o ftrunc.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sign.c -o sign.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fsign.c -o fsign.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imax2.c -o imax2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imin2.c -o imin2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c chebyshev.c -o chebyshev.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c log1p.c -o log1p.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgammacor.c -o lgammacor.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gammalims.c -o gammalims.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c stirlerr.c -o stirlerr.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bd0.c -o bd0.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma.c -o gamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgamma.c -o lgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma_cody.c -o gamma_cody.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c beta.c -o beta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lbeta.c -o lbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c polygamma.c -o polygamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c cospi.c -o cospi.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_i.c -o bessel_i.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_j.c -o bessel_j.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_k.c -o bessel_k.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_y.c -o bessel_y.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c choose.c -o choose.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c snorm.c -o snorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sexp.c -o sexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgamma.c -o dgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgamma.c -o pgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgamma.c -o qgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgamma.c -o rgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbeta.c -o dbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbeta.c -o pbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbeta.c -o qbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbeta.c -o rbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dunif.c -o dunif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c punif.c -o punif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qunif.c -o qunif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c runif.c -o runif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnorm.c -o dnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnorm.c -o pnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnorm.c -o qnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnorm.c -o rnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlnorm.c -o dlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plnorm.c -o plnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlnorm.c -o qlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlnorm.c -o rlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c df.c -o df.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pf.c -o pf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qf.c -o qf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rf.c -o rf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnf.c -o dnf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dt.c -o dt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pt.c -o pt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qt.c -o qt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rt.c -o rt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnt.c -o dnt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dchisq.c -o dchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pchisq.c -o pchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qchisq.c -o qchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rchisq.c -o rchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnchisq.c -o rnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbinom.c -o dbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbinom.c -o pbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbinom.c -o qbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbinom.c -o rbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rmultinom.c -o rmultinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dcauchy.c -o dcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pcauchy.c -o pcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qcauchy.c -o qcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rcauchy.c -o rcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dexp.c -o dexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pexp.c -o pexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qexp.c -o qexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rexp.c -o rexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgeom.c -o dgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgeom.c -o pgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgeom.c -o qgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgeom.c -o rgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dhyper.c -o dhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c phyper.c -o phyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qhyper.c -o qhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rhyper.c -o rhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbinom.c -o dnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnbinom.c -o pnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbinom.c -o qnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnbinom.c -o rnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dpois.c -o dpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ppois.c -o ppois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qpois.c -o qpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rpois.c -o rpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dweibull.c -o dweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pweibull.c -o pweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qweibull.c -o qweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rweibull.c -o rweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlogis.c -o dlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plogis.c -o plogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 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-fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnchisq.c -o pnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnchisq.c -o qnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbeta.c -o dnbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 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-fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c wilcox.c -o wilcox.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c signrank.c -o signrank.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c std_unif.c -o std_unif.o ar -cr libRmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o std_unif.o ranlib libRmath.a make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' R_GZIPCMD="/bin/gzip -n" \ /usr/bin/make docs R_CMD_BUILD_HELP_OPTS="--txt --example" make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/home/jranke/git/r-backports/buster/r-base-3.6.0"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' /home/jranke/git/r-backports/buster/r-base-3.6.0/lib/libR.so is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' /home/jranke/git/r-backports/buster/r-base-3.6.0/bin/exec/R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' /home/jranke/git/r-backports/buster/r-base-3.6.0/modules/R_X11.so is unchanged /home/jranke/git/r-backports/buster/r-base-3.6.0/modules/R_de.so is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' building system startup profile make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' building package 'translations' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' building package 'base' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' building package 'tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' building package 'compiler' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' building package 'utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[9]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' building package 'graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' building package 'stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' building package 'datasets' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' building package 'methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' building package 'grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' building package 'splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' building package 'stats4' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' building package 'parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' you should 'make docs' now ... make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' creating doc/NEWS creating doc/NEWS.pdf make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' creating doc/manual/R-FAQ.html creating doc/manual/version.texi creating doc/manual/R-admin.html creating doc/manual/R-data.html creating doc/manual/R-exts.html creating doc/manual/R-intro.html creating doc/manual/R-ints.html creating doc/manual/R-lang.html make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' installing parsed Rd make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' building/updating package metadata ... make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' writing package indices make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' /usr/bin/make javaconf make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/home/jranke/git/r-backports/buster/r-base-3.6.0"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' /home/jranke/git/r-backports/buster/r-base-3.6.0/lib/libR.so is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' /home/jranke/git/r-backports/buster/r-base-3.6.0/bin/exec/R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' /home/jranke/git/r-backports/buster/r-base-3.6.0/modules/R_X11.so is unchanged /home/jranke/git/r-backports/buster/r-base-3.6.0/modules/R_de.so is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' building system startup profile make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' building package 'translations' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' building package 'base' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' building package 'tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' building package 'compiler' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' building package 'utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[9]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' building package 'graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' building package 'stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' building package 'datasets' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' building package 'methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' building package 'grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' building package 'splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' building package 'stats4' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' building package 'parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' configuring Java ... Java interpreter : /usr/lib/jvm/default-java/bin/java Java version : 11.0.3 Java home path : /usr/lib/jvm/default-java Java compiler : /usr/lib/jvm/default-java/bin/javac Java headers gen.: Java archive tool: /usr/lib/jvm/default-java/bin/jar trying to compile and link a JNI program detected JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux detected JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm make[3]: Entering directory '/tmp/Rjavareconf.Yea9p1' gcc -std=gnu99 -I"/home/jranke/git/r-backports/buster/r-base-3.6.0/include" -DNDEBUG -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c conftest.c -o conftest.o gcc -std=gnu99 -shared -L/home/jranke/git/r-backports/buster/r-base-3.6.0/lib -Wl,-z,relro -o conftest.so conftest.o -L/usr/lib/jvm/default-java/lib/server -ljvm -L/home/jranke/git/r-backports/buster/r-base-3.6.0/lib -lR make[3]: Leaving directory '/tmp/Rjavareconf.Yea9p1' JAVA_HOME : /usr/lib/jvm/default-java Java library path: $(JAVA_HOME)/lib/server JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm Updating Java configuration in /home/jranke/git/r-backports/buster/r-base-3.6.0 Done. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' touch make-arch-stamp *** make-indep *** /usr/bin/make -k docs make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/home/jranke/git/r-backports/buster/r-base-3.6.0"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' /home/jranke/git/r-backports/buster/r-base-3.6.0/lib/libR.so is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' /home/jranke/git/r-backports/buster/r-base-3.6.0/bin/exec/R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' /home/jranke/git/r-backports/buster/r-base-3.6.0/modules/R_X11.so is unchanged /home/jranke/git/r-backports/buster/r-base-3.6.0/modules/R_de.so is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' building system startup profile make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' building package 'translations' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' building package 'base' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' building package 'tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' building package 'compiler' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' building package 'utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[9]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' building package 'graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' building package 'stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' building package 'datasets' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' building package 'methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' building package 'grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' building package 'splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' building package 'stats4' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' building package 'parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' installing parsed Rd make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' building/updating package metadata ... make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' writing package indices make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' (cd doc/manual && /usr/bin/make html) make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' /usr/bin/make info make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-FAQ.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-admin.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-data.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-exts.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-intro.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-ints.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-lang.texi make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' (cd doc/manual && \ /usr/bin/make refman.pdf R-admin.pdf R-data.pdf R-exts.pdf \ R-FAQ.pdf R-intro.pdf R-ints.pdf R-lang.pdf) make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' creating doc/manual/version.tex collecting LaTeX docs for package 'base' ... Converting parsed Rd's to LaTeX ........................................... collecting LaTeX docs for package 'tools' ... Converting parsed Rd's to LaTeX ...... collecting LaTeX docs for package 'utils' ... Converting parsed Rd's to LaTeX ............... collecting LaTeX docs for package 'grDevices' ... Converting parsed Rd's to LaTeX ....... collecting LaTeX docs for package 'graphics' ... Converting parsed Rd's to LaTeX ....... collecting LaTeX docs for package 'stats' ... Converting parsed Rd's to LaTeX .............................. collecting LaTeX docs for package 'datasets' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'methods' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'grid' ... Converting parsed Rd's to LaTeX ......... collecting LaTeX docs for package 'splines' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'stats4' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'tcltk' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'compiler' ... Converting parsed Rd's to LaTeX collecting LaTeX docs for package 'parallel' ... Converting parsed Rd's to LaTeX . PDF/LaTeX documentation: reference index ... This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./refman.tex LaTeX2e <2018-12-01> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2018/09/03 v1.4i Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/zi4.sty `inconsolata-zi4' v1.112, 2017/01/04 Text macros for Inconsolata (msharpe) (/usr/share/texlive/texmf-dist/tex/latex/xkeyval/xkeyval.sty (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkeyval.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkvutils.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/keyval.tex))))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 377. 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(/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [1] [2] (./base-pkg.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] Underfull \hbox (badness 6995) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 -x != 1\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1/pt m/m/n/10 if \T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.rounding \T1/ptm/m/n/10 is 0; oth- er-wise, it is \T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2\T1/ptm/m/n/10 . Nor-mally \T1/zi4/m /n/10 1.110223e-16\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.neg.ulp.digits \T1/ptm/m/n/10 is bounded be-low by \T1/zi 4/m/n/10 -(double.digits + 3)\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1178--1181 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1953--1953 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] [34] [35] [36] [37] Underfull \hbox (badness 10000) in paragraph at lines 2389--2391 []\T1/ptm/m/n/10 The val-ues of the splits can also be ob-tained (less ef-fi-ci ently) by Underfull \hbox (badness 10000) in paragraph at lines 2392--2397 [][][]\T1/zi4/m/n/10 apply[][][] \T1/ptm/m/n/10 al-ways sim-pli-fies com-mon le ngth re-sults, so at-tempt-ing to split via Underfull \hbox (badness 1102) in paragraph at lines 2392--2397 \T1/zi4/m/n/10 apply(x,MARGIN,identity) \T1/ptm/m/n/10 does not work (as it sim -ply gives \T1/zi4/m/n/10 x\T1/ptm/m/n/10 ). By chain-ing \T1/zi4/m/n/10 asplit [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 10000) in paragraph at lines 3771--3773 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [60] [61] [62] Overfull \hbox (6.42029pt too wide) in paragraph at lines 4012--4012 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] Underfull \hbox (badness 2521) in paragraph at lines 5019--5021 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6175--6175 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [97] [98] [99] [100] [101] [102] Overfull \hbox (46.35893pt too wide) in paragraph at lines 6584--6586 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult","internal","wininet","libcurl")\T1/ptm/m/n/10 : [103] [104] Underfull \hbox (badness 10000) in paragraph at lines 6732--6735 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [105] [106] Underfull \hbox (badness 6063) in paragraph at lines 6914--6920 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- Underfull \hbox (badness 2343) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 move a Byte Or-der Mark if present (which it of-ten is for files and web-pages gen-er- Underfull \hbox (badness 1708) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 ated by Mi-crosoft ap-pli-ca-tions). If a BOM is re-quired (it i s not rec-om-mended) when Underfull \hbox (badness 1831) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 writ-ing it should be writ-ten ex-plic-itly, e.g. by \T1/zi4/m/n /10 writeChar("\ufeff",con,eos = NULL) \T1/ptm/m/n/10 or [107] Underfull \hbox (badness 3568) in paragraph at lines 6976--6983 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [108] [109] Underfull \vbox (badness 10000) has occurred while \output is active [110] Underfull \vbox (badness 10000) has occurred while \output is active [111] [112] Underfull \hbox (badness 1077) in paragraph at lines 7293--7299 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7293--7299 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [113] [114] [115] [116] [117] [118] Underfull \hbox (badness 2096) in paragraph at lines 7634--7638 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [119] [120] Underfull \hbox (badness 2351) in paragraph at lines 7752--7755 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [121] [122] [123] [124] [125] Underfull \hbox (badness 4479) in paragraph at lines 8078--8088 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 1629) in paragraph at lines 8525--8537 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 1609) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 there is a prob-lem in the POSIX/C99 stan-dard with \T1/zi4/m/n/ 10 "1969-12-31 23:59:59 UTC"\T1/ptm/m/n/10 , which Underfull \hbox (badness 2426) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 is \T1/zi4/m/n/10 -1 \T1/ptm/m/n/10 in cal-en-dar time and that value is on those OSes also used as an er-ror code. [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] Underfull \hbox (badness 1178) in paragraph at lines 9260--9264 []\T1/ptm/m/n/10 If true, [][]\T1/zi4/m/n/10 list[][][]\T1/ptm/m/n/10 s and ato mic vec-tors with non-[][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 names (see [][ ]\T1/zi4/m/n/10 names[][][]\T1/ptm/m/n/10 ) are de- [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] Underfull \hbox (badness 1735) in paragraph at lines 10408--10412 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [161] [162] [163] [164] [165] [166] [167] Underfull \hbox (badness 6396) in paragraph at lines 10847--10855 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 1946) in paragraph at lines 10847--10855 \T1/zi4/m/n/10 duplicated \T1/ptm/m/n/10 and \T1/zi4/m/n/10 anyDuplicated\T1/pt m/m/n/10 , \T1/zi4/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al- ized'' short-cut for [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] Underfull \hbox (badness 4569) in paragraph at lines 11963--11967 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11963--11967 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] Underfull \hbox (badness 2253) in paragraph at lines 13626--13628 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [210] Underfull \hbox (badness 1565) in paragraph at lines 13697--13701 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [211] Underfull \hbox (badness 4927) in paragraph at lines 13741--13743 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with \T1/zi4 /m/n/10 fsep = [212] Underfull \hbox (badness 3148) in paragraph at lines 13834--13839 [][][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[ ][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 help[][][]\T1/ptm/m/n/10 ; [][]\T1/zi4 /m/n/10 RShowDoc[][][] \T1/ptm/m/n/10 call \T1/zi4/m/n/10 file.show() \T1/ptm/m /n/10 for \T1/zi4/m/n/10 type = "text"\T1/ptm/m/n/10 . Con-sider [213] Underfull \hbox (badness 1466) in paragraph at lines 13881--13884 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 14000--14004 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14011--14014 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [216] [217] [218] [219] Underfull \hbox (badness 3965) in paragraph at lines 14301--14305 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] [230] [231] [232] Underfull \hbox (badness 4429) in paragraph at lines 15076--15079 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [233] [234] Underfull \hbox (badness 10000) in paragraph at lines 15198--15202 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so Underfull \hbox (badness 2426) in paragraph at lines 15198--15202 \T1/zi4/m/n/10 formatC(c(6.11,13.1),digits = 2,format = "fg") \T1/ptm/m/n/10 gi ves \T1/zi4/m/n/10 c("6.1"," 13")\T1/ptm/m/n/10 . If you want Underfull \hbox (badness 2035) in paragraph at lines 15237--15241 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use within [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] Underfull \hbox (badness 2452) in paragraph at lines 15829--15833 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15829--15833 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [245] [246] [247] Underfull \hbox (badness 1092) in paragraph at lines 16002--16007 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [248] [249] [250] Underfull \hbox (badness 6741) in paragraph at lines 16252--16256 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [251] [252] [253] [254] [255] [256] [257] [258] [259] Underfull \vbox (badness 3803) has occurred while \output is active [260] Underfull \vbox (badness 10000) has occurred while \output is active [261] [262] [263] [264] [265] [266] [267] [268] [269] [270] Underfull \hbox (badness 1478) in paragraph at lines 17541--17544 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [271] [272] [273] [274] Underfull \hbox (badness 10000) in paragraph at lines 17796--17798 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [275] [276] [277] [278] [279] [280] [281] [282] [283] Underfull \hbox (badness 1442) in paragraph at lines 18396--18398 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [284] Underfull \hbox (badness 2452) in paragraph at lines 18488--18504 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [285] [286] [287] [288] [289] [290] [291] Underfull \hbox (badness 1248) in paragraph at lines 18907--18910 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [292] [293] [294] [295] Underfull \hbox (badness 4739) in paragraph at lines 19165--19167 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [296] [297] [298] [299] [300] [301] Underfull \hbox (badness 1596) in paragraph at lines 19584--19589 \T1/ptm/m/n/10 trix or, if \T1/zi4/m/n/10 simplify = "array"\T1/ptm/m/n/10 , an ar-ray if ap-pro-pri-ate, by ap-ply-ing \T1/zi4/m/n/10 simplify2array()\T1/ptm /m/n/10 . [302] [303] [304] [305] [306] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 2469) in paragraph at lines 20188--20193 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 20202--20209 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [313] Underfull \hbox (badness 10000) in paragraph at lines 20276--20280 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20276--20280 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [314] [315] Underfull \hbox (badness 1014) in paragraph at lines 20446--20451 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [316] [317] [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] Underfull \hbox (badness 1264) in paragraph at lines 21235--21240 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [328] Underfull \hbox (badness 4441) in paragraph at lines 21264--21267 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] Underfull \hbox (badness 6047) in paragraph at lines 22011--22013 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that \T1/zi4/m/n/10 make.unique(c(A,B)) == [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] [354] [355] [356] Underfull \hbox (badness 1077) in paragraph at lines 23052--23058 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [357] [358] [359] [360] [361] [362] [363] [364] [365] Underfull \hbox (badness 2790) in paragraph at lines 23548--23551 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23548--23551 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [366] [367] [368] [369] Underfull \hbox (badness 1194) in paragraph at lines 23830--23833 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [370] [371] [372] Underfull \hbox (badness 2368) in paragraph at lines 24036--24042 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing list, i.e., Underfull \hbox (badness 4981) in paragraph at lines 24036--24042 \T1/zi4/m/n/10 names(as.list(env,all.names = TRUE)) \T1/ptm/m/n/10 which are al so given by [][]\T1/zi4/m/n/10 ls[][][](env,all.names = [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 10000) in paragraph at lines 24418--24421 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [379] [380] [381] [382] [383] [384] [385] [386] [387] Underfull \hbox (badness 10000) in paragraph at lines 25023--25025 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than \T1/zi4/m/n/10 pkg %in% [388] [389] [390] [391] [392] [393] [394] [395] [396] [397] [398] [399] [400] Underfull \hbox (badness 1038) in paragraph at lines 25863--25871 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 1735) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set from value of the en-vi-ron-ment vari-able \T1/zi4/m/n/10 R_ DEFAULT_PACKAGES\T1/ptm/m/n/10 , or if that is un- Underfull \hbox (badness 1292) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set to \T1/zi4/m/n/10 c("datasets","utils","grDevices","graphics ","stats","methods")\T1/ptm/m/n/10 . (Set Underfull \hbox (badness 1881) in paragraph at lines 25872--25875 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25891--25893 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [401] [402] Underfull \hbox (badness 2142) in paragraph at lines 26032--26036 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 26082--26087 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 26383--26386 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 26409--26411 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 26444--26449 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 in-di-rectly [][]\T1/zi4/m/n/10 update.packages[][][]\T1/ptm/m/n /10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi4/m /n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use and [407] Underfull \hbox (badness 7203) in paragraph at lines 26462--26465 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 26486--26491 []\T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN ma -cOS build), Underfull \hbox (badness 2057) in paragraph at lines 26486--26491 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 10000) in paragraph at lines 27004--27007 []\T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 str2lang(s ) \T1/ptm/m/n/10 re-turn spe-cial ver-sions of [416] Underfull \hbox (badness 7925) in paragraph at lines 27083--27087 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 vec-to r \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n /10 cor-re-sponds to Underfull \hbox (badness 1622) in paragraph at lines 27083--27087 [][]\T1/zi4/m/n/10 parse[][][](text = s,keep.source=FALSE)\T1/ptm/m/n/10 , whic h is al-ways of type ([][]\T1/zi4/m/n/10 typeof[][][]\T1/ptm/m/n/10 ) and [][]\ T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 6125) in paragraph at lines 27088--27097 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 string \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2lang(s) \T1/ptm/m/n/10 cor -re-sponds to [][]\T1/zi4/m/n/10 parse[][][](text = [417] [418] [419] [420] [421] [422] [423] [424] [425] [426] [427] Underfull \hbox (badness 2726) in paragraph at lines 27809--27812 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] Underfull \vbox (badness 3803) has occurred while \output is active [446] [447] [448] [449] [450] [451] [452] [453] Underfull \hbox (badness 1533) in paragraph at lines 29500--29503 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [454] [455] [456] Underfull \hbox (badness 1163) in paragraph at lines 29663--29674 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] Underfull \hbox (badness 10000) in paragraph at lines 31209--31213 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 31209--31213 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. Underfull \hbox (badness 6188) in paragraph at lines 31231--31233 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [481] [482] [483] [484] [485] [486] [487] [488] [489] Underfull \hbox (badness 1655) in paragraph at lines 31787--31789 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] [504] [505] [506] Underfull \hbox (badness 2261) in paragraph at lines 32906--32911 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [507] Underfull \hbox (badness 10000) in paragraph at lines 32933--32939 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1484) in paragraph at lines 32933--32939 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions like [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] [550] [551] [552] [553] [554] [555] Underfull \hbox (badness 1072) in paragraph at lines 36075--36079 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 36080--36084 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 36120--36127 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [556] [557] [558] [559] [560] [561] Underfull \hbox (badness 1142) in paragraph at lines 36473--36479 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is \T1/zi4/m/n/10 "%Y-%m-%d [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] Underfull \hbox (badness 1565) in paragraph at lines 37746--37748 []\T1/ptm/m/n/10 integer code used in \T1/zi4/m/n/10 quantile(*,type=quantile.t ype) \T1/ptm/m/n/10 for the de-fault [582] [583] [584] [585] [586] [587] [588] [589] [590] [591] Underfull \hbox (badness 4967) in paragraph at lines 38345--38350 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [592] [593] Underfull \hbox (badness 1616) in paragraph at lines 38458--38463 \T1/zi4/m/n/10 system("id") \T1/ptm/m/n/10 is much more portable on Unix-alikes , pro-vided only the POSIX op-tions [594] [595] [596] [597] Underfull \vbox (badness 10000) has occurred while \output is active [598] [599] [600] [601] [602] Underfull \hbox (badness 1472) in paragraph at lines 38984--38987 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [603] [604] [605] [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] Underfull \vbox (badness 3803) has occurred while \output is active [616] Underfull \hbox (badness 10000) in paragraph at lines 39898--39902 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., \T1/zi4/m/n/10 length(bin) > [617] [618] [619] [620] Underfull \hbox (badness 10000) in paragraph at lines 40149--40152 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [621] [622] [623] Underfull \hbox (badness 10000) in paragraph at lines 40333--40337 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [624] [625] [626] [627] [628] [629] [630] [631] [632] Underfull \hbox (badness 10000) in paragraph at lines 40946--40949 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [633] [634] [635] [636] [637] [638] Underfull \vbox (badness 10000) has occurred while \output is active [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 1990) in paragraph at lines 41849--41857 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41849--41857 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [647] [648] [649] [650] [651] [652] [653] [654] Underfull \hbox (badness 1917) in paragraph at lines 42355--42362 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 3668) in paragraph at lines 43084--43086 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [666] [667] Underfull \hbox (badness 2401) in paragraph at lines 43212--43216 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [668] [669] [670] Underfull \hbox (badness 2111) in paragraph at lines 43401--43406 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 10000) in paragraph at lines 43422--43427 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [671] [672] [673] [674] [675] [676] [677] [678] [679] Underfull \hbox (badness 5417) in paragraph at lines 44004--44008 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [680] Underfull \hbox (badness 10000) in paragraph at lines 44065--44069 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [681] [682]) (./compiler-pkg.tex Chapter 2. [683] [684] [685] [686]) (./datasets-pkg.tex Chapter 3. [687] [688] [689] [690] [691] [692] [693] [694] [695] [696] [697] [698] [699] [700] [701] [702] [703] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] Underfull \vbox (badness 1448) has occurred while \output is active [727] [728] [729] [730] [731] [732] [733] [734] [735] [736] [737] [738] Overfull \vbox (19.74611pt too high) has occurred while \output is active [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] Underfull \vbox (badness 10000) has occurred while \output is active [755] [756] [757] [758] Underfull \vbox (badness 10000) has occurred while \output is active [759] [760] [761] [762] [763] [764] Overfull \vbox (18.9959pt too high) has occurred while \output is active [765] [766] [767]) (./grDevices-pkg.tex [768] Chapter 4. [769] [770] [771] [772] [773] Underfull \hbox (badness 3158) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, \T1/zi4/m/n/10 c(mi,ma,n.)\T1/ptm /m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][]\T1/zi4/m/n/10 axisTicks[][][]() \T1/ptm/ m/n/10 just calls the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/ptm/m/n/1 0 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \hbox (badness 5175) in paragraph at lines 1120--1122 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [787] [788] [789] [790] Underfull \hbox (badness 1852) in paragraph at lines 1322--1325 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [791] [792] [793] Underfull \hbox (badness 1490) in paragraph at lines 1528--1533 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [794] [795] [796] [797] [798] [799] Underfull \hbox (badness 1325) in paragraph at lines 1934--1944 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [800] [801] Underfull \hbox (badness 10000) in paragraph at lines 2046--2048 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [802] [803] [804] Underfull \hbox (badness 6758) in paragraph at lines 2224--2227 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] Underfull \hbox (badness 10000) in paragraph at lines 2828--2829 [815] [816] [817] [818] [819] [820] [821] [822] [823] Underfull \hbox (badness 10000) in paragraph at lines 3384--3389 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [824] [825] [826] [827] [828] Underfull \vbox (badness 10000) has occurred while \output is active [829] Underfull \hbox (badness 10000) in paragraph at lines 3785--3788 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as [830] [831] [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 10000) in paragraph at lines 4514--4519 [][][]$\T1/zi4/m/n/10 https : / / www . adobe . com / content / dam / acom / en / devnet / actionscript / articles / PLRM . pdf$[][] Underfull \hbox (badness 4181) in paragraph at lines 4514--4519 \T1/ptm/m/n/10 or PDF [][]$\T1/zi4/m/n/10 https : / / www . adobe . com / devne t / acrobat / pdfs / pdf _ reference _ 1-[]7 . pdf$[][] \T1/ptm/m/n/10 and in [841] Underfull \vbox (badness 10000) has occurred while \output is active [842] [843] Underfull \hbox (badness 1067) in paragraph at lines 4668--4675 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [844] [845] [846] [847] Underfull \hbox (badness 1377) in paragraph at lines 4971--4976 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [848] Underfull \hbox (badness 1418) in paragraph at lines 5047--5054 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 1755) in paragraph at lines 5065--5067 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [849] [850] Underfull \hbox (badness 1377) in paragraph at lines 5176--5181 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [851] Underfull \hbox (badness 7344) in paragraph at lines 5245--5247 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [852] [853] Underfull \hbox (badness 2035) in paragraph at lines 5380--5389 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [854] Underfull \hbox (badness 10000) in paragraph at lines 5448--5455 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5448--5455 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [855] [856] [857] Underfull \hbox (badness 1546) in paragraph at lines 5590--5598 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [858] [859] [860] [861] [862] [863] [864] [865] Underfull \hbox (badness 10000) in paragraph at lines 6125--6128 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \hbox (badness 1189) in paragraph at lines 6947--6949 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [879] Underfull \hbox (badness 10000) in paragraph at lines 7045--7047 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [880] [881] [882] [883] [884] Underfull \hbox (badness 3780) in paragraph at lines 7345--7351 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [885] [886] [887] Underfull \hbox (badness 2680) in paragraph at lines 7546--7548 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [888] [889] [890]) (./graphics-pkg.tex Chapter 5. [891] [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] Underfull \hbox (badness 4634) in paragraph at lines 1349--1352 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] Underfull \hbox (badness 1009) in paragraph at lines 2388--2395 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] [945] [946] [947] [948] [949] [950] [951] [952] Underfull \vbox (badness 10000) has occurred while \output is active [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 3229) in paragraph at lines 4532--4537 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [966] [967] [968] [969] [970] Underfull \hbox (badness 10000) in paragraph at lines 4889--4895 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width,height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4889--4895 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [971] Underfull \hbox (badness 10000) in paragraph at lines 5020--5023 [972] Underfull \hbox (badness 10000) in paragraph at lines 5081--5083 [973 ] [974 ] [975] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [976] Underfull \vbox (badness 3803) has occurred while \output is active [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6749--6750 [][] [999] [1000 ] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] Underfull \hbox (badness 2012) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i],y0[i]) \T1/ptm/m/n/10 and the poi nt [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] Underfull \hbox (badness 10000) in paragraph at lines 8834--8836 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8836--8838 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1034]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8916 \HeaderA{units}{Graphical Units}{units} [1035] [1036] [1037] [1038]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] Underfull \hbox (badness 2680) in paragraph at lines 483--486 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Underfull \hbox (badness 4279) in paragraph at lines 1064--1073 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] Underfull \vbox (badness 10000) has occurred while \output is active [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 1067) in paragraph at lines 4486--4489 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1115] [1116] [1117] [1118] Underfull \hbox (badness 7256) in paragraph at lines 4731--4733 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] Underfull \hbox (badness 1824) in paragraph at lines 6535--6538 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like \T1/zi4/m/n/10 depth [1150] [1151] [1152] [1153]) (./methods-pkg.tex [1154] Chapter 7. [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] Underfull \vbox (badness 3803) has occurred while \output is active [1163] Underfull \vbox (badness 10000) has occurred while \output is active [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] Underfull \hbox (badness 2181) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x,"refClass") \T1/ptm/m/n/10 tests [1182] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1183] [1184] [1185] Underfull \hbox (badness 2213) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1191] [1192] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1193] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1194] [1195] [1196] [1197] [1198] [1199] [1200] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1201] [1202] [1203] [1204] [1205] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1206] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1207] Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <-setClass("Pos",slots = c(latitude = "numeric",longitude = "numeric",altitude [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] Underfull \vbox (badness 10000) has occurred while \output is active [1229] [1230] [1231] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1232] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1233] [1234] [1235] [1236] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1245] [1246] [1247] [1248] Underfull \vbox (badness 10000) has occurred while \output is active [1249] [1250] [1251] [1252]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1253] [1254] [1255]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1256] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1257] [1258] [1259] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \vbox (badness 10000) has occurred while \output is active [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] Underfull \hbox (badness 1137) in paragraph at lines 10011--10019 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form \T1/zi4/m/n/10 ne w("signature",functionDef,...)\T1/ptm/m/n/10 . The [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1302] [1303] [1304] [1305]) (./parallel-pkg.tex [1306] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] Underfull \hbox (badness 3386) in paragraph at lines 1365--1368 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1328] [1329] [1330]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346]) (./stats-pkg.tex Chapter 10. [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 1412) in paragraph at lines 875--877 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] Underfull \hbox (badness 2503) in paragraph at lines 1356--1359 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1369] [1370] [1371] Underfull \hbox (badness 10000) in paragraph at lines 1536--1540 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov","lm") \T1/ptm/m/n/1 0 or for mul-ti-ple re-sponses of class [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] [1401] Underfull \hbox (badness 2503) in paragraph at lines 3435--3438 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] Underfull \hbox (badness 1127) in paragraph at lines 4349--4352 []\T1/ptm/m/n/10 standardized resid-u-als, \T1/zi4/m/n/10 (observed -expected) / sqrt(V)\T1/ptm/m/n/10 , where \T1/zi4/m/n/10 V \T1/ptm/m/n/10 is the [1417] [1418] [1419] [1420] [1421] Underfull \hbox (badness 3989) in paragraph at lines 4679--4686 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] Underfull \hbox (badness 2556) in paragraph at lines 5315--5318 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5332--5334 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1432] [1433] [1434] [1435] [1436] [1437] [1438] Underfull \hbox (badness 2503) in paragraph at lines 5724--5728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] Underfull \hbox (badness 7081) in paragraph at lines 6518--6521 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6522--6524 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1452] [1453] [1454] [1455] [1456] Underfull \vbox (badness 3803) has occurred while \output is active [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 10000) in paragraph at lines 7367--7370 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \vbox (badness 10000) has occurred while \output is active [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2626) in paragraph at lines 9044--9047 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 9151--9155 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] Underfull \hbox (badness 4518) in paragraph at lines 10461--10466 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 2142) in paragraph at lines 10821--10824 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10840--10843 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1519] Underfull \hbox (badness 1708) in paragraph at lines 10902--10906 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1520] [1521] [1522] [1523] [1524] [1525] Underfull \hbox (badness 1694) in paragraph at lines 11298--11301 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1526] [1527] [1528] [1529] [1530] [1531] Underfull \hbox (badness 10000) in paragraph at lines 11625--11628 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of Underfull \hbox (badness 1281) in paragraph at lines 11625--11628 \T1/zi4/m/n/10 qhyper(runif(nn),m,n,k) \T1/ptm/m/n/10 is used, when a bi-no-mia l ap-prox-i-ma-tion may be con-sid-er-ably [1532] [1533]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.hat}) has been already used, duplicate ignored \relax l.11779 \aliasA{hat}{influence.measures}{hat} [1534] [1535] Underfull \hbox (badness 1484) in paragraph at lines 11914--11916 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1536] [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] Underfull \hbox (badness 10000) in paragraph at lines 12507--12509 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when \T1/zi4/m/n/10 SSinit = [1546] [1547] [1548] [1549] [1550] [1551] Underfull \hbox (badness 2894) in paragraph at lines 12843--12847 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] Underfull \hbox (badness 4518) in paragraph at lines 13593--13598 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] Underfull \hbox (badness 4518) in paragraph at lines 14245--14250 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1574] [1575] Underfull \hbox (badness 8151) in paragraph at lines 14383--14387 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = "interp olate",statistics = Underfull \hbox (badness 1199) in paragraph at lines 14390--14392 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] Underfull \hbox (badness 2503) in paragraph at lines 15461--15465 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 4621) in paragraph at lines 15973--15979 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(,"offset") \T1/ ptm/m/n/10 and [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] Underfull \vbox (badness 10000) has occurred while \output is active [1630] Underfull \vbox (badness 10000) has occurred while \output is active [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] Underfull \hbox (badness 1377) in paragraph at lines 18567--18572 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18572--18575 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on [1644] Underfull \hbox (badness 2343) in paragraph at lines 18585--18589 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18585--18589 \T1/ptm/m/n/10 the value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18593--18597 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1645] [1646] [1647] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18818--18818 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18821--18821 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] Underfull \vbox (badness 10000) has occurred while \output is active [1648] [1649] [1650] [1651] [1652] [1653] [1654] Underfull \hbox (badness 1337) in paragraph at lines 19243--19246 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] Underfull \hbox (badness 3049) in paragraph at lines 19739--19743 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1664] [1665] [1666] [1667] Underfull \hbox (badness 1194) in paragraph at lines 19997--20000 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1668] [1669] [1670] [1671] [1672] [1673] [1674] Underfull \hbox (badness 2503) in paragraph at lines 20372--20375 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 20399--20401 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or \T1/zi4/m/n/10 "Comparison of Poisson [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] [1691] [1692] Underfull \hbox (badness 10000) in paragraph at lines 21476--21482 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] Underfull \hbox (badness 1337) in paragraph at lines 22823--22829 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23388--23388 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 10000) in paragraph at lines 23639--23642 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 4205) in paragraph at lines 23639--23642 \T1/zi4/m/n/10 cutree(hclust.obj,k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1729] [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] Underfull \hbox (badness 10000) in paragraph at lines 24224--24227 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x,k) \T1/ptm/m/n/10 sim-ply has \T1/zi4/m/n/10 y[j] = [1738] Underfull \hbox (badness 3690) in paragraph at lines 24276--24280 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] Underfull \hbox (badness 2165) in paragraph at lines 24753--24758 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1747] [1748] [1749] [1750] Underfull \hbox (badness 1867) in paragraph at lines 24958--24960 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24971--24975 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <-[][]nobs[][][](object,use.fallback = u se.fallback) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 PP [1751] [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \vbox (badness 3803) has occurred while \output is active [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] Underfull \vbox (badness 10000) has occurred while \output is active [1774] [1775] Underfull \hbox (badness 3514) in paragraph at lines 26510--26515 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1776] [1777] [1778] [1779] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26744--26744 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 26780--26786 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1780] [1781] [1782] [1783] Underfull \hbox (badness 3514) in paragraph at lines 26994--26999 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1784] [1785] Underfull \hbox (badness 3514) in paragraph at lines 27081--27086 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1786] Underfull \hbox (badness 3514) in paragraph at lines 27146--27151 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1787] [1788] Underfull \hbox (badness 3514) in paragraph at lines 27240--27245 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1789] Underfull \hbox (badness 6691) in paragraph at lines 27332--27337 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 4024) in paragraph at lines 27862--27865 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 5431) in paragraph at lines 28468--28470 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1809] [1810] [1811] Underfull \hbox (badness 5431) in paragraph at lines 28678--28681 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1812] [1813] [1814] [1815] [1816] [1817] Underfull \hbox (badness 1337) in paragraph at lines 28992--28996 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1818] [1819] [1820] [1821] [1822] Underfull \hbox (badness 1616) in paragraph at lines 29294--29297 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] [1840] [1841] Underfull \hbox (badness 3557) in paragraph at lines 30424--30428 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect \T1/zi4 /m/n/10 interval = [1842] [1843] [1844] Underfull \vbox (badness 10000) has occurred while \output is active [1845] [1846] [1847] Underfull \hbox (badness 1337) in paragraph at lines 30788--30792 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1848] [1849] [1850] [1851] [1852] [1853] [1854] [1855] [1856] Underfull \hbox (badness 1337) in paragraph at lines 31315--31319 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866]) (./stats4-pkg.tex Chapter 11. [1867] [1868] [1869] [1870] [1871] [1872]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1873] [1874] [1875]) (./tcltk-pkg.tex [1876] Chapter 12. [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] Underfull \vbox (badness 10000) has occurred while \output is active [1885] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1886] [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897]) (./tools-pkg.tex [1898] Chapter 13. [1899] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1900] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1901] [1902] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1903] [1904] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1905] [1906] [1907] [1908] [1909] [1910] [1911] [1912] [1913] [1914] [1915] [1916] Underfull \hbox (badness 4441) in paragraph at lines 1139--1149 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1917] Underfull \hbox (badness 1014) in paragraph at lines 1163--1165 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1169--1171 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1918] Underfull \hbox (badness 10000) in paragraph at lines 1206--1209 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1206--1209 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1919] [1920] [1921] [1922] [1923] Underfull \hbox (badness 2293) in paragraph at lines 1558--1560 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1924] [1925] Underfull \hbox (badness 7981) in paragraph at lines 1696--1701 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1703--1705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1926] [1927] [1928] [1929]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1900 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1930] [1931] [1932] [1933] [1934] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2202--2202 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1935] [1936] [1937] Underfull \hbox (badness 7981) in paragraph at lines 2371--2377 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1938] [1939] [1940] [1941] [1942] [1943] [1944] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2837. [1945] [1946] [1947] [1948] Underfull \hbox (badness 1424) in paragraph at lines 3119--3121 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1949] [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] Underfull \hbox (badness 10000) in paragraph at lines 3823--3825 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1961] [1962] Underfull \hbox (badness 10000) in paragraph at lines 3962--3965 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1963] [1964] Underfull \hbox (badness 1137) in paragraph at lines 4064--4066 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1965] [1966] [1967] [1968] [1969] Underfull \hbox (badness 1796) in paragraph at lines 4372--4377 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over \T 1/zi4/m/sl/10 write_PACKAGES \T1/ptm/m/n/10 in the \T1/zi4/m/sl/10 type == [1970] Underfull \hbox (badness 1838) in paragraph at lines 4446--4452 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4446--4452 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1971] [1972] [1973] Underfull \hbox (badness 2197) in paragraph at lines 4662--4672 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : [1974] Underfull \hbox (badness 1571) in paragraph at lines 4725--4729 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1975] [1976] [1977]) (./utils-pkg.tex [1978] Chapter 14. [1979] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1980] [1981] [1982] [1983] [1984] Underfull \hbox (badness 10000) in paragraph at lines 376--381 \T1/zi4/m/sl/10 c("vertical","horizontal","cascade","minimize","restore") \T1/p tm/m/n/10 with [1985] [1986] [1987] [1988] [1989] Underfull \hbox (badness 10000) in paragraph at lines 717--723 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 717--723 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1990] [1991] Underfull \hbox (badness 5847) in paragraph at lines 850--856 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 850--856 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1992] Underfull \hbox (badness 3861) in paragraph at lines 918--923 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1993] [1994] Underfull \hbox (badness 3323) in paragraph at lines 1089--1097 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use \T1/zi4/m/sl/1 0 bibtex = T|F \T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m$\T1 /ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 3735) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x",1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by [1995] Underfull \hbox (badness 10000) in paragraph at lines 1101--1103 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1996] [1997] Underfull \vbox (badness 3803) has occurred while \output is active [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1371) in paragraph at lines 1606--1608 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2003] [2004] [2005] [2006] [2007] [2008] [2009] [2010] [2011] [2012] Underfull \hbox (badness 2057) in paragraph at lines 2215--2217 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [2013] [2014] [2015] [2016] [2017] [2018]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2566 ... the Clipboard in MS Windows}{clipboard} [2019] [2020] Underfull \hbox (badness 1748) in paragraph at lines 2733--2736 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [2021] [2022] [2023] [2024] [2025] [2026] [2027] Underfull \hbox (badness 5388) in paragraph at lines 3142--3146 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[][][](...,header = Underfull \hbox (badness 2285) in paragraph at lines 3147--3150 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](...,header = TRUE,sep = [2028] [2029] [2030] [2031] [2032] [2033] [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1430) in paragraph at lines 3906--3914 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2039] Underfull \hbox (badness 1231) in paragraph at lines 3983--3995 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2040] [2041] Underfull \hbox (badness 10000) in paragraph at lines 4143--4145 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2042] [2043] [2044] [2045] [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1622) in paragraph at lines 5360--5364 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] Underfull \hbox (badness 1371) in paragraph at lines 5996--5998 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2072] Underfull \hbox (badness 1502) in paragraph at lines 6085--6090 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6085--6090 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 6258--6267 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2076] Underfull \hbox (badness 2150) in paragraph at lines 6322--6325 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2077] [2078] Underfull \hbox (badness 3118) in paragraph at lines 6460--6462 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2079] [2080] [2081] Underfull \hbox (badness 1325) in paragraph at lines 6632--6636 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able Underfull \hbox (badness 4726) in paragraph at lines 6644--6650 \T1/ptm/m/n/10 used if \T1/zi4/m/sl/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of [2082] Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 \T1/ptm/m/n/10 passed to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g., [2083] Underfull \hbox (badness 3219) in paragraph at lines 6792--6799 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 6792--6799 [][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")\T1/ ptm/m/n/10 . \T1/zi4/m/sl/10 type = "both" \T1/ptm/m/n/10 will be silently Underfull \hbox (badness 2932) in paragraph at lines 6800--6803 []\T1/ptm/m/n/10 Using pack-ages with \T1/zi4/m/sl/10 type = "source" \T1/ptm/m /n/10 al-ways works pro-vided the pack-age con-tains no [2084] Underfull \hbox (badness 10000) in paragraph at lines 6934--6939 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2085] [2086] [2087] [2088] [2089] [2090] [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 8434--8436 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 2310) in paragraph at lines 8456--8461 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2110] [2111] [2112] [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1248) in paragraph at lines 8980--8984 []\T1/zi4/m/sl/10 R CMD build \T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/m/ n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2118] Underfull \hbox (badness 1789) in paragraph at lines 9058--9060 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] Underfull \vbox (badness 10000) has occurred while \output is active [2129] [2130] [2131] Underfull \hbox (badness 1097) in paragraph at lines 9895--9898 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2132] [2133] Underfull \hbox (badness 3000) in paragraph at lines 10031--10036 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2134] [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 2134) in paragraph at lines 10614--10619 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 \T1/zi4/m/sl/10 HKEY_LOCAL_MACHINE\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 HKEY_CLASSES _ROOT\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 HKEY_CURRENT_USER\T1/ptm/m/n/10 , [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] Underfull \hbox (badness 2469) in paragraph at lines 11163--11167 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11163--11167 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2152] [2153] [2154] [2155] [2156] Underfull \hbox (badness 4060) in paragraph at lines 11494--11497 []\T1/ptm/m/n/10 If `\T1/zi4/m/sl/10 --default-packages\T1/ptm/m/n/10 ' is not used, then \T1/zi4/m/sl/10 Rscript \T1/ptm/m/n/10 checks the en-vi-ron-ment var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 11517--11517 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2157] [2158] [2159] [2160] Underfull \hbox (badness 2150) in paragraph at lines 11756--11758 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2161] [2162] [2163] [2164] Underfull \hbox (badness 10000) in paragraph at lines 11975--11979 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12006--12012 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2165] [2166] [2167] Underfull \hbox (badness 1009) in paragraph at lines 12200--12212 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12237--12239 []\T1/ptm/m/n/10 The file `\T1/zi4/m/sl/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI (\T1/zi4/m/sl/10 Rgui\T1/ptm/m/n/10 ) con-sole un-der MS Win-dows a nd [2168] Underfull \hbox (badness 1077) in paragraph at lines 12267--12274 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2169] [2170] [2171] [2172] [2173] [2174] Underfull \hbox (badness 3780) in paragraph at lines 12668--12672 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][]\T1 /zi4/m/sl/10 options[][][]("BioC_mirror")\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 12684--12687 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2175] [2176] [2177] [2178] Underfull \hbox (badness 2302) in paragraph at lines 12889--12891 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2179] [2180] [2181] [2182] Underfull \hbox (badness 10000) in paragraph at lines 13185--13190 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/sl/10 TRUE \T1/ptm/m/n/10 (de-fault), [] []\T1/zi4/m/sl/10 deparse[][][](control = ) \T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 13194--13197 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2183] [2184] Underfull \vbox (badness 10000) has occurred while \output is active [2185] [2186] [2187] [2188] [2189] Underfull \hbox (badness 2932) in paragraph at lines 13614--13621 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 13614--13621 \T1/ptm/m/n/10 and se-lected if their \T1/zi4/m/sl/10 extension \T1/ptm/m/n/10 com-po-nent matches (as a reg-exp) the file name. Ob- [2190] [2191] [2192] [2193] [2194] Underfull \hbox (badness 6510) in paragraph at lines 13923--13927 []\T1/ptm/m/n/10 When ar-gu-ment \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 is set to t he com-mand \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-a ble Underfull \hbox (badness 10000) in paragraph at lines 13930--13933 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 13930--13933 \T1/zi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2195] [2196] [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] Underfull \hbox (badness 10000) in paragraph at lines 14594--14599 []\T1/ptm/m/n/10 Arguments such as \T1/zi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/zi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 14594--14599 [][]\T1/zi4/m/sl/10 install.packages[][][] \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 i gnore_repo_cache\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 max_repo_cache_age \T1/ptm/m/n /10 and Underfull \hbox (badness 1052) in paragraph at lines 14600--14602 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See [2205] Underfull \hbox (badness 10000) in paragraph at lines 14659--14662 [][][]\T1/zi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [2206] [2207] [2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] Underfull \hbox (badness 10000) in paragraph at lines 15432--15434 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion e.g. \T1/zi4/m/sl/10 file = [2218] [2219] [2220] [2221]) [2222] No file refman.ind. (./refman.aux) Package rerunfilecheck Warning: File `refman.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning 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[1] [2] Underfull \hbox (badness 6995) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 -x != 1\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1/pt m/m/n/10 if \T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.rounding \T1/ptm/m/n/10 is 0; oth- er-wise, it is \T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2\T1/ptm/m/n/10 . Nor-mally \T1/zi4/m /n/10 1.110223e-16\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.neg.ulp.digits \T1/ptm/m/n/10 is bounded be-low by \T1/zi 4/m/n/10 -(double.digits + 3)\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1178--1181 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1953--1953 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] [34] [35] [36] [37] Underfull \hbox (badness 10000) in paragraph at lines 2389--2391 []\T1/ptm/m/n/10 The val-ues of the splits can also be ob-tained (less ef-fi-ci ently) by Underfull \hbox (badness 10000) in paragraph at lines 2392--2397 [][][]\T1/zi4/m/n/10 apply[][][] \T1/ptm/m/n/10 al-ways sim-pli-fies com-mon le ngth re-sults, so at-tempt-ing to split via Underfull \hbox (badness 1102) in paragraph at lines 2392--2397 \T1/zi4/m/n/10 apply(x,MARGIN,identity) \T1/ptm/m/n/10 does not work (as it sim -ply gives \T1/zi4/m/n/10 x\T1/ptm/m/n/10 ). By chain-ing \T1/zi4/m/n/10 asplit [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 10000) in paragraph at lines 3771--3773 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [60] [61] [62] Overfull \hbox (6.42029pt too wide) in paragraph at lines 4012--4012 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] Underfull \hbox (badness 2521) in paragraph at lines 5019--5021 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6175--6175 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [97] [98] [99] [100] [101] [102] Overfull \hbox (46.35893pt too wide) in paragraph at lines 6584--6586 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult","internal","wininet","libcurl")\T1/ptm/m/n/10 : [103] [104] Underfull \hbox (badness 10000) in paragraph at lines 6732--6735 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [105] [106] Underfull \hbox (badness 6063) in paragraph at lines 6914--6920 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- Underfull \hbox (badness 2343) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 move a Byte Or-der Mark if present (which it of-ten is for files and web-pages gen-er- Underfull \hbox (badness 1708) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 ated by Mi-crosoft ap-pli-ca-tions). If a BOM is re-quired (it i s not rec-om-mended) when Underfull \hbox (badness 1831) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 writ-ing it should be writ-ten ex-plic-itly, e.g. by \T1/zi4/m/n /10 writeChar("\ufeff",con,eos = NULL) \T1/ptm/m/n/10 or [107] Underfull \hbox (badness 3568) in paragraph at lines 6976--6983 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [108] [109] Underfull \vbox (badness 10000) has occurred while \output is active [110] Underfull \vbox (badness 10000) has occurred while \output is active [111] [112] Underfull \hbox (badness 1077) in paragraph at lines 7293--7299 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7293--7299 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [113] [114] [115] [116] [117] [118] Underfull \hbox (badness 2096) in paragraph at lines 7634--7638 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [119] [120] Underfull \hbox (badness 2351) in paragraph at lines 7752--7755 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [121] [122] [123] [124] [125] Underfull \hbox (badness 4479) in paragraph at lines 8078--8088 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 1629) in paragraph at lines 8525--8537 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 1609) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 there is a prob-lem in the POSIX/C99 stan-dard with \T1/zi4/m/n/ 10 "1969-12-31 23:59:59 UTC"\T1/ptm/m/n/10 , which Underfull \hbox (badness 2426) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 is \T1/zi4/m/n/10 -1 \T1/ptm/m/n/10 in cal-en-dar time and that value is on those OSes also used as an er-ror code. [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] Underfull \hbox (badness 1178) in paragraph at lines 9260--9264 []\T1/ptm/m/n/10 If true, [][]\T1/zi4/m/n/10 list[][][]\T1/ptm/m/n/10 s and ato mic vec-tors with non-[][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 names (see [][ ]\T1/zi4/m/n/10 names[][][]\T1/ptm/m/n/10 ) are de- [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] Underfull \hbox (badness 1735) in paragraph at lines 10408--10412 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [161] [162] [163] [164] [165] [166] [167] Underfull \hbox (badness 6396) in paragraph at lines 10847--10855 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 1946) in paragraph at lines 10847--10855 \T1/zi4/m/n/10 duplicated \T1/ptm/m/n/10 and \T1/zi4/m/n/10 anyDuplicated\T1/pt m/m/n/10 , \T1/zi4/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al- ized'' short-cut for [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] Underfull \hbox (badness 4569) in paragraph at lines 11963--11967 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11963--11967 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] Underfull \hbox (badness 2253) in paragraph at lines 13626--13628 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [210] Underfull \hbox (badness 1565) in paragraph at lines 13697--13701 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [211] Underfull \hbox (badness 4927) in paragraph at lines 13741--13743 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with \T1/zi4 /m/n/10 fsep = [212] Underfull \hbox (badness 3148) in paragraph at lines 13834--13839 [][][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[ ][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 help[][][]\T1/ptm/m/n/10 ; [][]\T1/zi4 /m/n/10 RShowDoc[][][] \T1/ptm/m/n/10 call \T1/zi4/m/n/10 file.show() \T1/ptm/m /n/10 for \T1/zi4/m/n/10 type = "text"\T1/ptm/m/n/10 . Con-sider [213] Underfull \hbox (badness 1466) in paragraph at lines 13881--13884 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 14000--14004 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14011--14014 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [216] [217] [218] [219] Underfull \hbox (badness 3965) in paragraph at lines 14301--14305 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] [230] [231] [232] Underfull \hbox (badness 4429) in paragraph at lines 15076--15079 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [233] [234] Underfull \hbox (badness 10000) in paragraph at lines 15198--15202 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so Underfull \hbox (badness 2426) in paragraph at lines 15198--15202 \T1/zi4/m/n/10 formatC(c(6.11,13.1),digits = 2,format = "fg") \T1/ptm/m/n/10 gi ves \T1/zi4/m/n/10 c("6.1"," 13")\T1/ptm/m/n/10 . If you want Underfull \hbox (badness 2035) in paragraph at lines 15237--15241 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use within [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] Underfull \hbox (badness 2452) in paragraph at lines 15829--15833 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15829--15833 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [245] [246] [247] Underfull \hbox (badness 1092) in paragraph at lines 16002--16007 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [248] [249] [250] Underfull \hbox (badness 6741) in paragraph at lines 16252--16256 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [251] [252] [253] [254] [255] [256] [257] [258] [259] Underfull \vbox (badness 3803) has occurred while \output is active [260] Underfull \vbox (badness 10000) has occurred while \output is active [261] [262] [263] [264] [265] [266] [267] [268] [269] [270] Underfull \hbox (badness 1478) in paragraph at lines 17541--17544 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [271] [272] [273] [274] Underfull \hbox (badness 10000) in paragraph at lines 17796--17798 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [275] [276] [277] [278] [279] [280] [281] [282] [283] Underfull \hbox (badness 1442) in paragraph at lines 18396--18398 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [284] Underfull \hbox (badness 2452) in paragraph at lines 18488--18504 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [285] [286] [287] [288] [289] [290] [291] Underfull \hbox (badness 1248) in paragraph at lines 18907--18910 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [292] [293] [294] [295] Underfull \hbox (badness 4739) in paragraph at lines 19165--19167 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [296] [297] [298] [299] [300] [301] Underfull \hbox (badness 1596) in paragraph at lines 19584--19589 \T1/ptm/m/n/10 trix or, if \T1/zi4/m/n/10 simplify = "array"\T1/ptm/m/n/10 , an ar-ray if ap-pro-pri-ate, by ap-ply-ing \T1/zi4/m/n/10 simplify2array()\T1/ptm /m/n/10 . [302] [303] [304] [305] [306] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 2469) in paragraph at lines 20188--20193 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 20202--20209 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [313] Underfull \hbox (badness 10000) in paragraph at lines 20276--20280 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20276--20280 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [314] [315] Underfull \hbox (badness 1014) in paragraph at lines 20446--20451 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [316] [317] [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] Underfull \hbox (badness 1264) in paragraph at lines 21235--21240 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [328] Underfull \hbox (badness 4441) in paragraph at lines 21264--21267 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] Underfull \hbox (badness 6047) in paragraph at lines 22011--22013 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that \T1/zi4/m/n/10 make.unique(c(A,B)) == [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] [354] [355] [356] Underfull \hbox (badness 1077) in paragraph at lines 23052--23058 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [357] [358] [359] [360] [361] [362] [363] [364] [365] Underfull \hbox (badness 2790) in paragraph at lines 23548--23551 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23548--23551 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [366] [367] [368] [369] Underfull \hbox (badness 1194) in paragraph at lines 23830--23833 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [370] [371] [372] Underfull \hbox (badness 2368) in paragraph at lines 24036--24042 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing list, i.e., Underfull \hbox (badness 4981) in paragraph at lines 24036--24042 \T1/zi4/m/n/10 names(as.list(env,all.names = TRUE)) \T1/ptm/m/n/10 which are al so given by [][]\T1/zi4/m/n/10 ls[][][](env,all.names = [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 10000) in paragraph at lines 24418--24421 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [379] [380] [381] [382] [383] [384] [385] [386] [387] Underfull \hbox (badness 10000) in paragraph at lines 25023--25025 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than \T1/zi4/m/n/10 pkg %in% [388] [389] [390] [391] [392] [393] [394] [395] [396] [397] [398] [399] [400] Underfull \hbox (badness 1038) in paragraph at lines 25863--25871 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 1735) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set from value of the en-vi-ron-ment vari-able \T1/zi4/m/n/10 R_ DEFAULT_PACKAGES\T1/ptm/m/n/10 , or if that is un- Underfull \hbox (badness 1292) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set to \T1/zi4/m/n/10 c("datasets","utils","grDevices","graphics ","stats","methods")\T1/ptm/m/n/10 . (Set Underfull \hbox (badness 1881) in paragraph at lines 25872--25875 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25891--25893 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [401] [402] Underfull \hbox (badness 2142) in paragraph at lines 26032--26036 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 26082--26087 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 26383--26386 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 26409--26411 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 26444--26449 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 in-di-rectly [][]\T1/zi4/m/n/10 update.packages[][][]\T1/ptm/m/n /10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi4/m /n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use and [407] Underfull \hbox (badness 7203) in paragraph at lines 26462--26465 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 26486--26491 []\T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN ma -cOS build), Underfull \hbox (badness 2057) in paragraph at lines 26486--26491 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 10000) in paragraph at lines 27004--27007 []\T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 str2lang(s ) \T1/ptm/m/n/10 re-turn spe-cial ver-sions of [416] Underfull \hbox (badness 7925) in paragraph at lines 27083--27087 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 vec-to r \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n /10 cor-re-sponds to Underfull \hbox (badness 1622) in paragraph at lines 27083--27087 [][]\T1/zi4/m/n/10 parse[][][](text = s,keep.source=FALSE)\T1/ptm/m/n/10 , whic h is al-ways of type ([][]\T1/zi4/m/n/10 typeof[][][]\T1/ptm/m/n/10 ) and [][]\ T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 6125) in paragraph at lines 27088--27097 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 string \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2lang(s) \T1/ptm/m/n/10 cor -re-sponds to [][]\T1/zi4/m/n/10 parse[][][](text = [417] [418] [419] [420] [421] [422] [423] [424] [425] [426] [427] Underfull \hbox (badness 2726) in paragraph at lines 27809--27812 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] Underfull \vbox (badness 3803) has occurred while \output is active [446] [447] [448] [449] [450] [451] [452] [453] Underfull \hbox (badness 1533) in paragraph at lines 29500--29503 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [454] [455] [456] Underfull \hbox (badness 1163) in paragraph at lines 29663--29674 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] Underfull \hbox (badness 10000) in paragraph at lines 31209--31213 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 31209--31213 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. Underfull \hbox (badness 6188) in paragraph at lines 31231--31233 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [481] [482] [483] [484] [485] [486] [487] [488] [489] Underfull \hbox (badness 1655) in paragraph at lines 31787--31789 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] [504] [505] [506] Underfull \hbox (badness 2261) in paragraph at lines 32906--32911 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [507] Underfull \hbox (badness 10000) in paragraph at lines 32933--32939 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1484) in paragraph at lines 32933--32939 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions like [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] [550] [551] [552] [553] [554] [555] Underfull \hbox (badness 1072) in paragraph at lines 36075--36079 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 36080--36084 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 36120--36127 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [556] [557] [558] [559] [560] [561] Underfull \hbox (badness 1142) in paragraph at lines 36473--36479 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is \T1/zi4/m/n/10 "%Y-%m-%d [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] Underfull \hbox (badness 1565) in paragraph at lines 37746--37748 []\T1/ptm/m/n/10 integer code used in \T1/zi4/m/n/10 quantile(*,type=quantile.t ype) \T1/ptm/m/n/10 for the de-fault [582] [583] [584] [585] [586] [587] [588] [589] [590] [591] Underfull \hbox (badness 4967) in paragraph at lines 38345--38350 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [592] [593] Underfull \hbox (badness 1616) in paragraph at lines 38458--38463 \T1/zi4/m/n/10 system("id") \T1/ptm/m/n/10 is much more portable on Unix-alikes , pro-vided only the POSIX op-tions [594] [595] [596] [597] Underfull \vbox (badness 10000) has occurred while \output is active [598] [599] [600] [601] [602] Underfull \hbox (badness 1472) in paragraph at lines 38984--38987 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [603] [604] [605] [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] Underfull \vbox (badness 3803) has occurred while \output is active [616] Underfull \hbox (badness 10000) in paragraph at lines 39898--39902 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., \T1/zi4/m/n/10 length(bin) > [617] [618] [619] [620] Underfull \hbox (badness 10000) in paragraph at lines 40149--40152 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [621] [622] [623] Underfull \hbox (badness 10000) in paragraph at lines 40333--40337 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [624] [625] [626] [627] [628] [629] [630] [631] [632] Underfull \hbox (badness 10000) in paragraph at lines 40946--40949 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [633] [634] [635] [636] [637] [638] Underfull \vbox (badness 10000) has occurred while \output is active [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 1990) in paragraph at lines 41849--41857 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41849--41857 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [647] [648] [649] [650] [651] [652] [653] [654] Underfull \hbox (badness 1917) in paragraph at lines 42355--42362 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 3668) in paragraph at lines 43084--43086 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [666] [667] Underfull \hbox (badness 2401) in paragraph at lines 43212--43216 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [668] [669] [670] Underfull \hbox (badness 2111) in paragraph at lines 43401--43406 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 10000) in paragraph at lines 43422--43427 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [671] [672] [673] [674] [675] [676] [677] [678] [679] Underfull \hbox (badness 5417) in paragraph at lines 44004--44008 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [680] Underfull \hbox (badness 10000) in paragraph at lines 44065--44069 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [681] [682]) (./compiler-pkg.tex Chapter 2. [683] [684] [685] [686]) (./datasets-pkg.tex Chapter 3. [687] [688] [689] [690] [691] [692] [693] [694] [695] [696] [697] [698] [699] [700] [701] [702] [703] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] Underfull \vbox (badness 1448) has occurred while \output is active [727] [728] [729] [730] [731] [732] [733] [734] [735] [736] [737] [738] Overfull \vbox (19.74611pt too high) has occurred while \output is active [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] Underfull \vbox (badness 10000) has occurred while \output is active [755] [756] [757] [758] Underfull \vbox (badness 10000) has occurred while \output is active [759] [760] [761] [762] [763] [764] Overfull \vbox (18.9959pt too high) has occurred while \output is active [765] [766] [767]) (./grDevices-pkg.tex [768] Chapter 4. [769] [770] [771] [772] [773] Underfull \hbox (badness 3158) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, \T1/zi4/m/n/10 c(mi,ma,n.)\T1/ptm /m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][]\T1/zi4/m/n/10 axisTicks[][][]() \T1/ptm/ m/n/10 just calls the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/ptm/m/n/1 0 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \hbox (badness 5175) in paragraph at lines 1120--1122 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [787] [788] [789] [790] Underfull \hbox (badness 1852) in paragraph at lines 1322--1325 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [791] [792] [793] Underfull \hbox (badness 1490) in paragraph at lines 1528--1533 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [794] [795] [796] [797] [798] [799] Underfull \hbox (badness 1325) in paragraph at lines 1934--1944 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [800] [801] Underfull \hbox (badness 10000) in paragraph at lines 2046--2048 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [802] [803] [804] Underfull \hbox (badness 6758) in paragraph at lines 2224--2227 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] Underfull \hbox (badness 10000) in paragraph at lines 2828--2829 [815] [816] [817] [818] [819] [820] [821] [822] [823] Underfull \hbox (badness 10000) in paragraph at lines 3384--3389 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [824] [825] [826] [827] [828] Underfull \vbox (badness 10000) has occurred while \output is active [829] Underfull \hbox (badness 10000) in paragraph at lines 3785--3788 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as [830] [831] [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 10000) in paragraph at lines 4514--4519 [][][]$\T1/zi4/m/n/10 https : / / www . adobe . com / content / dam / acom / en / devnet / actionscript / articles / PLRM . pdf$[][] Underfull \hbox (badness 4181) in paragraph at lines 4514--4519 \T1/ptm/m/n/10 or PDF [][]$\T1/zi4/m/n/10 https : / / www . adobe . com / devne t / acrobat / pdfs / pdf _ reference _ 1-[]7 . pdf$[][] \T1/ptm/m/n/10 and in [841] Underfull \vbox (badness 10000) has occurred while \output is active [842] [843] Underfull \hbox (badness 1067) in paragraph at lines 4668--4675 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [844] [845] [846] [847] Underfull \hbox (badness 1377) in paragraph at lines 4971--4976 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [848] Underfull \hbox (badness 1418) in paragraph at lines 5047--5054 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 1755) in paragraph at lines 5065--5067 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [849] [850] Underfull \hbox (badness 1377) in paragraph at lines 5176--5181 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [851] Underfull \hbox (badness 7344) in paragraph at lines 5245--5247 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [852] [853] Underfull \hbox (badness 2035) in paragraph at lines 5380--5389 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [854] Underfull \hbox (badness 10000) in paragraph at lines 5448--5455 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5448--5455 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [855] [856] [857] Underfull \hbox (badness 1546) in paragraph at lines 5590--5598 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [858] [859] [860] [861] [862] [863] [864] [865] Underfull \hbox (badness 10000) in paragraph at lines 6125--6128 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \hbox (badness 1189) in paragraph at lines 6947--6949 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [879] Underfull \hbox (badness 10000) in paragraph at lines 7045--7047 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [880] [881] [882] [883] [884] Underfull \hbox (badness 3780) in paragraph at lines 7345--7351 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [885] [886] [887] Underfull \hbox (badness 2680) in paragraph at lines 7546--7548 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [888] [889] [890]) (./graphics-pkg.tex Chapter 5. [891] [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] Underfull \hbox (badness 4634) in paragraph at lines 1349--1352 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] Underfull \hbox (badness 1009) in paragraph at lines 2388--2395 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] [945] [946] [947] [948] [949] [950] [951] [952] Underfull \vbox (badness 10000) has occurred while \output is active [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 3229) in paragraph at lines 4532--4537 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [966] [967] [968] [969] [970] Underfull \hbox (badness 10000) in paragraph at lines 4889--4895 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width,height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4889--4895 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [971] Underfull \hbox (badness 10000) in paragraph at lines 5020--5023 [972] Underfull \hbox (badness 10000) in paragraph at lines 5081--5083 [973 ] [974 ] [975] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [976] Underfull \vbox (badness 3803) has occurred while \output is active [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6749--6750 [][] [999] [1000 ] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] Underfull \hbox (badness 2012) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i],y0[i]) \T1/ptm/m/n/10 and the poi nt [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] Underfull \hbox (badness 10000) in paragraph at lines 8834--8836 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8836--8838 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1034]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8916 \HeaderA{units}{Graphical Units}{units} [1035] [1036] [1037] [1038]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] Underfull \hbox (badness 2680) in paragraph at lines 483--486 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Underfull \hbox (badness 4279) in paragraph at lines 1064--1073 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] Underfull \vbox (badness 10000) has occurred while \output is active [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 1067) in paragraph at lines 4486--4489 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1115] [1116] [1117] [1118] Underfull \hbox (badness 7256) in paragraph at lines 4731--4733 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] Underfull \hbox (badness 1824) in paragraph at lines 6535--6538 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like \T1/zi4/m/n/10 depth [1150] [1151] [1152] [1153]) (./methods-pkg.tex [1154] Chapter 7. [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] Underfull \vbox (badness 3803) has occurred while \output is active [1163] Underfull \vbox (badness 10000) has occurred while \output is active [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] Underfull \hbox (badness 2181) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x,"refClass") \T1/ptm/m/n/10 tests [1182] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1183] [1184] [1185] Underfull \hbox (badness 2213) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1191] [1192] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1193] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1194] [1195] [1196] [1197] [1198] [1199] [1200] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1201] [1202] [1203] [1204] [1205] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1206] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1207] Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <-setClass("Pos",slots = c(latitude = "numeric",longitude = "numeric",altitude [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] Underfull \vbox (badness 10000) has occurred while \output is active [1229] [1230] [1231] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1232] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1233] [1234] [1235] [1236] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1245] [1246] [1247] [1248] Underfull \vbox (badness 10000) has occurred while \output is active [1249] [1250] [1251] [1252]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1253] [1254] [1255]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1256] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1257] [1258] [1259] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \vbox (badness 10000) has occurred while \output is active [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] Underfull \hbox (badness 1137) in paragraph at lines 10011--10019 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form \T1/zi4/m/n/10 ne w("signature",functionDef,...)\T1/ptm/m/n/10 . The [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1302] [1303] [1304] [1305]) (./parallel-pkg.tex [1306] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] Underfull \hbox (badness 3386) in paragraph at lines 1365--1368 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1328] [1329] [1330]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346]) (./stats-pkg.tex Chapter 10. [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 1412) in paragraph at lines 875--877 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] Underfull \hbox (badness 2503) in paragraph at lines 1356--1359 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1369] [1370] [1371] Underfull \hbox (badness 10000) in paragraph at lines 1536--1540 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov","lm") \T1/ptm/m/n/1 0 or for mul-ti-ple re-sponses of class [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] [1401] Underfull \hbox (badness 2503) in paragraph at lines 3435--3438 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] Underfull \hbox (badness 1127) in paragraph at lines 4349--4352 []\T1/ptm/m/n/10 standardized resid-u-als, \T1/zi4/m/n/10 (observed -expected) / sqrt(V)\T1/ptm/m/n/10 , where \T1/zi4/m/n/10 V \T1/ptm/m/n/10 is the [1417] [1418] [1419] [1420] [1421] Underfull \hbox (badness 3989) in paragraph at lines 4679--4686 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] Underfull \hbox (badness 2556) in paragraph at lines 5315--5318 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5332--5334 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1432] [1433] [1434] [1435] [1436] [1437] [1438] Underfull \hbox (badness 2503) in paragraph at lines 5724--5728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] Underfull \hbox (badness 7081) in paragraph at lines 6518--6521 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6522--6524 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1452] [1453] [1454] [1455] [1456] Underfull \vbox (badness 3803) has occurred while \output is active [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 10000) in paragraph at lines 7367--7370 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \vbox (badness 10000) has occurred while \output is active [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2626) in paragraph at lines 9044--9047 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 9151--9155 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] Underfull \hbox (badness 4518) in paragraph at lines 10461--10466 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 2142) in paragraph at lines 10821--10824 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10840--10843 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1519] Underfull \hbox (badness 1708) in paragraph at lines 10902--10906 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1520] [1521] [1522] [1523] [1524] [1525] Underfull \hbox (badness 1694) in paragraph at lines 11298--11301 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1526] [1527] [1528] [1529] [1530] [1531] Underfull \hbox (badness 10000) in paragraph at lines 11625--11628 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of Underfull \hbox (badness 1281) in paragraph at lines 11625--11628 \T1/zi4/m/n/10 qhyper(runif(nn),m,n,k) \T1/ptm/m/n/10 is used, when a bi-no-mia l ap-prox-i-ma-tion may be con-sid-er-ably [1532] [1533]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.hat}) has been already used, duplicate ignored \relax l.11779 \aliasA{hat}{influence.measures}{hat} [1534] [1535] Underfull \hbox (badness 1484) in paragraph at lines 11914--11916 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1536] [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] Underfull \hbox (badness 10000) in paragraph at lines 12507--12509 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when \T1/zi4/m/n/10 SSinit = [1546] [1547] [1548] [1549] [1550] [1551] Underfull \hbox (badness 2894) in paragraph at lines 12843--12847 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] Underfull \hbox (badness 4518) in paragraph at lines 13593--13598 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] Underfull \hbox (badness 4518) in paragraph at lines 14245--14250 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1574] [1575] Underfull \hbox (badness 8151) in paragraph at lines 14383--14387 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = "interp olate",statistics = Underfull \hbox (badness 1199) in paragraph at lines 14390--14392 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] Underfull \hbox (badness 2503) in paragraph at lines 15461--15465 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 4621) in paragraph at lines 15973--15979 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(,"offset") \T1/ ptm/m/n/10 and [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] Underfull \vbox (badness 10000) has occurred while \output is active [1630] Underfull \vbox (badness 10000) has occurred while \output is active [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] Underfull \hbox (badness 1377) in paragraph at lines 18567--18572 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18572--18575 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on [1644] Underfull \hbox (badness 2343) in paragraph at lines 18585--18589 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18585--18589 \T1/ptm/m/n/10 the value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18593--18597 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1645] [1646] [1647] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18818--18818 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18821--18821 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] Underfull \vbox (badness 10000) has occurred while \output is active [1648] [1649] [1650] [1651] [1652] [1653] [1654] Underfull \hbox (badness 1337) in paragraph at lines 19243--19246 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] Underfull \hbox (badness 3049) in paragraph at lines 19739--19743 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1664] [1665] [1666] [1667] Underfull \hbox (badness 1194) in paragraph at lines 19997--20000 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1668] [1669] [1670] [1671] [1672] [1673] [1674] Underfull \hbox (badness 2503) in paragraph at lines 20372--20375 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 20399--20401 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or \T1/zi4/m/n/10 "Comparison of Poisson [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] [1691] [1692] Underfull \hbox (badness 10000) in paragraph at lines 21476--21482 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] Underfull \hbox (badness 1337) in paragraph at lines 22823--22829 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23388--23388 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 10000) in paragraph at lines 23639--23642 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 4205) in paragraph at lines 23639--23642 \T1/zi4/m/n/10 cutree(hclust.obj,k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1729] [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] Underfull \hbox (badness 10000) in paragraph at lines 24224--24227 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x,k) \T1/ptm/m/n/10 sim-ply has \T1/zi4/m/n/10 y[j] = [1738] Underfull \hbox (badness 3690) in paragraph at lines 24276--24280 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] Underfull \hbox (badness 2165) in paragraph at lines 24753--24758 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1747] [1748] [1749] [1750] Underfull \hbox (badness 1867) in paragraph at lines 24958--24960 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24971--24975 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <-[][]nobs[][][](object,use.fallback = u se.fallback) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 PP [1751] [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \vbox (badness 3803) has occurred while \output is active [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] Underfull \vbox (badness 10000) has occurred while \output is active [1774] [1775] Underfull \hbox (badness 3514) in paragraph at lines 26510--26515 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1776] [1777] [1778] [1779] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26744--26744 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 26780--26786 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1780] [1781] [1782] [1783] Underfull \hbox (badness 3514) in paragraph at lines 26994--26999 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1784] [1785] Underfull \hbox (badness 3514) in paragraph at lines 27081--27086 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1786] Underfull \hbox (badness 3514) in paragraph at lines 27146--27151 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1787] [1788] Underfull \hbox (badness 3514) in paragraph at lines 27240--27245 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1789] Underfull \hbox (badness 6691) in paragraph at lines 27332--27337 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 4024) in paragraph at lines 27862--27865 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 5431) in paragraph at lines 28468--28470 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1809] [1810] [1811] Underfull \hbox (badness 5431) in paragraph at lines 28678--28681 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1812] [1813] [1814] [1815] [1816] [1817] Underfull \hbox (badness 1337) in paragraph at lines 28992--28996 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1818] [1819] [1820] [1821] [1822] Underfull \hbox (badness 1616) in paragraph at lines 29294--29297 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] [1840] [1841] Underfull \hbox (badness 3557) in paragraph at lines 30424--30428 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect \T1/zi4 /m/n/10 interval = [1842] [1843] [1844] Underfull \vbox (badness 10000) has occurred while \output is active [1845] [1846] [1847] Underfull \hbox (badness 1337) in paragraph at lines 30788--30792 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1848] [1849] [1850] [1851] [1852] [1853] [1854] [1855] [1856] Underfull \hbox (badness 1337) in paragraph at lines 31315--31319 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866]) (./stats4-pkg.tex Chapter 11. [1867] [1868] [1869] [1870] [1871] [1872]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1873] [1874] [1875]) (./tcltk-pkg.tex [1876] Chapter 12. [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] Underfull \vbox (badness 10000) has occurred while \output is active [1885] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1886] [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897]) (./tools-pkg.tex [1898] Chapter 13. [1899] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1900] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1901] [1902] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1903] [1904] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1905] [1906] [1907] [1908] [1909] [1910] [1911] [1912] [1913] [1914] [1915] [1916] Underfull \hbox (badness 4441) in paragraph at lines 1139--1149 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1917] Underfull \hbox (badness 1014) in paragraph at lines 1163--1165 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1169--1171 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1918] Underfull \hbox (badness 10000) in paragraph at lines 1206--1209 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1206--1209 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1919] [1920] [1921] [1922] [1923] Underfull \hbox (badness 2293) in paragraph at lines 1558--1560 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1924] [1925] Underfull \hbox (badness 7981) in paragraph at lines 1696--1701 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1703--1705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1926] [1927] [1928] [1929]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1900 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1930] [1931] [1932] [1933] [1934] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2202--2202 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1935] [1936] [1937] Underfull \hbox (badness 7981) in paragraph at lines 2371--2377 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1938] [1939] [1940] [1941] [1942] [1943] [1944] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2837. [1945] [1946] [1947] [1948] Underfull \hbox (badness 1424) in paragraph at lines 3119--3121 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1949] [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] Underfull \hbox (badness 10000) in paragraph at lines 3823--3825 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1961] [1962] Underfull \hbox (badness 10000) in paragraph at lines 3962--3965 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1963] [1964] Underfull \hbox (badness 1137) in paragraph at lines 4064--4066 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1965] [1966] [1967] [1968] [1969] Underfull \hbox (badness 1796) in paragraph at lines 4372--4377 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over \T 1/zi4/m/sl/10 write_PACKAGES \T1/ptm/m/n/10 in the \T1/zi4/m/sl/10 type == [1970] Underfull \hbox (badness 1838) in paragraph at lines 4446--4452 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4446--4452 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1971] [1972] [1973] Underfull \hbox (badness 2197) in paragraph at lines 4662--4672 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : [1974] Underfull \hbox (badness 1571) in paragraph at lines 4725--4729 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1975] [1976] [1977]) (./utils-pkg.tex [1978] Chapter 14. [1979] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1980] [1981] [1982] [1983] [1984] Underfull \hbox (badness 10000) in paragraph at lines 376--381 \T1/zi4/m/sl/10 c("vertical","horizontal","cascade","minimize","restore") \T1/p tm/m/n/10 with [1985] [1986] [1987] [1988] [1989] Underfull \hbox (badness 10000) in paragraph at lines 717--723 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 717--723 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1990] [1991] Underfull \hbox (badness 5847) in paragraph at lines 850--856 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 850--856 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1992] Underfull \hbox (badness 3861) in paragraph at lines 918--923 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1993] [1994] Underfull \hbox (badness 3323) in paragraph at lines 1089--1097 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use \T1/zi4/m/sl/1 0 bibtex = T|F \T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m$\T1 /ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 3735) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x",1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by [1995] Underfull \hbox (badness 10000) in paragraph at lines 1101--1103 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1996] [1997] Underfull \vbox (badness 3803) has occurred while \output is active [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1371) in paragraph at lines 1606--1608 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2003] [2004] [2005] [2006] [2007] [2008] [2009] [2010] [2011] [2012] Underfull \hbox (badness 2057) in paragraph at lines 2215--2217 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [2013] [2014] [2015] [2016] [2017] [2018]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2566 ... the Clipboard in MS Windows}{clipboard} [2019] [2020] Underfull \hbox (badness 1748) in paragraph at lines 2733--2736 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [2021] [2022] [2023] [2024] [2025] [2026] [2027] Underfull \hbox (badness 5388) in paragraph at lines 3142--3146 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[][][](...,header = Underfull \hbox (badness 2285) in paragraph at lines 3147--3150 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](...,header = TRUE,sep = [2028] [2029] [2030] [2031] [2032] [2033] [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1430) in paragraph at lines 3906--3914 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2039] Underfull \hbox (badness 1231) in paragraph at lines 3983--3995 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2040] [2041] Underfull \hbox (badness 10000) in paragraph at lines 4143--4145 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2042] [2043] [2044] [2045] [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1622) in paragraph at lines 5360--5364 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] Underfull \hbox (badness 1371) in paragraph at lines 5996--5998 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2072] Underfull \hbox (badness 1502) in paragraph at lines 6085--6090 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6085--6090 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 6258--6267 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2076] Underfull \hbox (badness 2150) in paragraph at lines 6322--6325 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2077] [2078] Underfull \hbox (badness 3118) in paragraph at lines 6460--6462 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2079] [2080] [2081] Underfull \hbox (badness 1325) in paragraph at lines 6632--6636 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able Underfull \hbox (badness 4726) in paragraph at lines 6644--6650 \T1/ptm/m/n/10 used if \T1/zi4/m/sl/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of [2082] Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 \T1/ptm/m/n/10 passed to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g., [2083] Underfull \hbox (badness 3219) in paragraph at lines 6792--6799 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 6792--6799 [][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")\T1/ ptm/m/n/10 . \T1/zi4/m/sl/10 type = "both" \T1/ptm/m/n/10 will be silently Underfull \hbox (badness 2932) in paragraph at lines 6800--6803 []\T1/ptm/m/n/10 Using pack-ages with \T1/zi4/m/sl/10 type = "source" \T1/ptm/m /n/10 al-ways works pro-vided the pack-age con-tains no [2084] Underfull \hbox (badness 10000) in paragraph at lines 6934--6939 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2085] [2086] [2087] [2088] [2089] [2090] [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 8434--8436 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 2310) in paragraph at lines 8456--8461 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2110] [2111] [2112] [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1248) in paragraph at lines 8980--8984 []\T1/zi4/m/sl/10 R CMD build \T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/m/ n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2118] Underfull \hbox (badness 1789) in paragraph at lines 9058--9060 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] Underfull \vbox (badness 10000) has occurred while \output is active [2129] [2130] [2131] Underfull \hbox (badness 1097) in paragraph at lines 9895--9898 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2132] [2133] Underfull \hbox (badness 3000) in paragraph at lines 10031--10036 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2134] [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 2134) in paragraph at lines 10614--10619 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 \T1/zi4/m/sl/10 HKEY_LOCAL_MACHINE\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 HKEY_CLASSES _ROOT\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 HKEY_CURRENT_USER\T1/ptm/m/n/10 , [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] Underfull \hbox (badness 2469) in paragraph at lines 11163--11167 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11163--11167 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . 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As Underfull \hbox (badness 4995) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.neg.ulp.digits \T1/ptm/m/n/10 is bounded be-low by \T1/zi 4/m/n/10 -(double.digits + 3)\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1178--1181 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1953--1953 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] [34] [35] [36] [37] Underfull \hbox (badness 10000) in paragraph at lines 2389--2391 []\T1/ptm/m/n/10 The val-ues of the splits can also be ob-tained (less ef-fi-ci ently) by Underfull \hbox (badness 10000) in paragraph at lines 2392--2397 [][][]\T1/zi4/m/n/10 apply[][][] \T1/ptm/m/n/10 al-ways sim-pli-fies com-mon le ngth re-sults, so at-tempt-ing to split via Underfull \hbox (badness 1102) in paragraph at lines 2392--2397 \T1/zi4/m/n/10 apply(x,MARGIN,identity) \T1/ptm/m/n/10 does not work (as it sim -ply gives \T1/zi4/m/n/10 x\T1/ptm/m/n/10 ). By chain-ing \T1/zi4/m/n/10 asplit [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 10000) in paragraph at lines 3771--3773 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [60] [61] [62] Overfull \hbox (6.42029pt too wide) in paragraph at lines 4012--4012 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] Underfull \hbox (badness 2521) in paragraph at lines 5019--5021 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6175--6175 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [97] [98] [99] [100] [101] [102] Overfull \hbox (46.35893pt too wide) in paragraph at lines 6584--6586 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult","internal","wininet","libcurl")\T1/ptm/m/n/10 : [103] [104] Underfull \hbox (badness 10000) in paragraph at lines 6732--6735 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [105] [106] Underfull \hbox (badness 6063) in paragraph at lines 6914--6920 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- Underfull \hbox (badness 2343) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 move a Byte Or-der Mark if present (which it of-ten is for files and web-pages gen-er- Underfull \hbox (badness 1708) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 ated by Mi-crosoft ap-pli-ca-tions). If a BOM is re-quired (it i s not rec-om-mended) when Underfull \hbox (badness 1831) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 writ-ing it should be writ-ten ex-plic-itly, e.g. by \T1/zi4/m/n /10 writeChar("\ufeff",con,eos = NULL) \T1/ptm/m/n/10 or [107] Underfull \hbox (badness 3568) in paragraph at lines 6976--6983 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [108] [109] Underfull \vbox (badness 10000) has occurred while \output is active [110] Underfull \vbox (badness 10000) has occurred while \output is active [111] [112] Underfull \hbox (badness 1077) in paragraph at lines 7293--7299 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7293--7299 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [113] [114] [115] [116] [117] [118] Underfull \hbox (badness 2096) in paragraph at lines 7634--7638 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [119] [120] Underfull \hbox (badness 2351) in paragraph at lines 7752--7755 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [121] [122] [123] [124] [125] Underfull \hbox (badness 4479) in paragraph at lines 8078--8088 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 1629) in paragraph at lines 8525--8537 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 1609) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 there is a prob-lem in the POSIX/C99 stan-dard with \T1/zi4/m/n/ 10 "1969-12-31 23:59:59 UTC"\T1/ptm/m/n/10 , which Underfull \hbox (badness 2426) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 is \T1/zi4/m/n/10 -1 \T1/ptm/m/n/10 in cal-en-dar time and that value is on those OSes also used as an er-ror code. [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] Underfull \hbox (badness 1178) in paragraph at lines 9260--9264 []\T1/ptm/m/n/10 If true, [][]\T1/zi4/m/n/10 list[][][]\T1/ptm/m/n/10 s and ato mic vec-tors with non-[][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 names (see [][ ]\T1/zi4/m/n/10 names[][][]\T1/ptm/m/n/10 ) are de- [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] Underfull \hbox (badness 1735) in paragraph at lines 10408--10412 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [161] [162] [163] [164] [165] [166] [167] Underfull \hbox (badness 6396) in paragraph at lines 10847--10855 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 1946) in paragraph at lines 10847--10855 \T1/zi4/m/n/10 duplicated \T1/ptm/m/n/10 and \T1/zi4/m/n/10 anyDuplicated\T1/pt m/m/n/10 , \T1/zi4/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al- ized'' short-cut for [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] Underfull \hbox (badness 4569) in paragraph at lines 11963--11967 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11963--11967 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] Underfull \hbox (badness 2253) in paragraph at lines 13626--13628 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [210] Underfull \hbox (badness 1565) in paragraph at lines 13697--13701 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [211] Underfull \hbox (badness 4927) in paragraph at lines 13741--13743 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with \T1/zi4 /m/n/10 fsep = [212] Underfull \hbox (badness 3148) in paragraph at lines 13834--13839 [][][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[ ][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 help[][][]\T1/ptm/m/n/10 ; [][]\T1/zi4 /m/n/10 RShowDoc[][][] \T1/ptm/m/n/10 call \T1/zi4/m/n/10 file.show() \T1/ptm/m /n/10 for \T1/zi4/m/n/10 type = "text"\T1/ptm/m/n/10 . Con-sider [213] Underfull \hbox (badness 1466) in paragraph at lines 13881--13884 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 14000--14004 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14011--14014 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [216] [217] [218] [219] Underfull \hbox (badness 3965) in paragraph at lines 14301--14305 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] [230] [231] [232] Underfull \hbox (badness 4429) in paragraph at lines 15076--15079 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [233] [234] Underfull \hbox (badness 10000) in paragraph at lines 15198--15202 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so Underfull \hbox (badness 2426) in paragraph at lines 15198--15202 \T1/zi4/m/n/10 formatC(c(6.11,13.1),digits = 2,format = "fg") \T1/ptm/m/n/10 gi ves \T1/zi4/m/n/10 c("6.1"," 13")\T1/ptm/m/n/10 . If you want Underfull \hbox (badness 2035) in paragraph at lines 15237--15241 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use within [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] Underfull \hbox (badness 2452) in paragraph at lines 15829--15833 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15829--15833 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [245] [246] [247] Underfull \hbox (badness 1092) in paragraph at lines 16002--16007 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [248] [249] [250] Underfull \hbox (badness 6741) in paragraph at lines 16252--16256 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [251] [252] [253] [254] [255] [256] [257] [258] [259] Underfull \vbox (badness 3803) has occurred while \output is active [260] Underfull \vbox (badness 10000) has occurred while \output is active [261] [262] [263] [264] [265] [266] [267] [268] [269] [270] Underfull \hbox (badness 1478) in paragraph at lines 17541--17544 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [271] [272] [273] [274] Underfull \hbox (badness 10000) in paragraph at lines 17796--17798 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [275] [276] [277] [278] [279] [280] [281] [282] [283] Underfull \hbox (badness 1442) in paragraph at lines 18396--18398 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [284] Underfull \hbox (badness 2452) in paragraph at lines 18488--18504 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [285] [286] [287] [288] [289] [290] [291] Underfull \hbox (badness 1248) in paragraph at lines 18907--18910 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [292] [293] [294] [295] Underfull \hbox (badness 4739) in paragraph at lines 19165--19167 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [296] [297] [298] [299] [300] [301] Underfull \hbox (badness 1596) in paragraph at lines 19584--19589 \T1/ptm/m/n/10 trix or, if \T1/zi4/m/n/10 simplify = "array"\T1/ptm/m/n/10 , an ar-ray if ap-pro-pri-ate, by ap-ply-ing \T1/zi4/m/n/10 simplify2array()\T1/ptm /m/n/10 . [302] [303] [304] [305] [306] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 2469) in paragraph at lines 20188--20193 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 20202--20209 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [313] Underfull \hbox (badness 10000) in paragraph at lines 20276--20280 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20276--20280 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [314] [315] Underfull \hbox (badness 1014) in paragraph at lines 20446--20451 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [316] [317] [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] Underfull \hbox (badness 1264) in paragraph at lines 21235--21240 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [328] Underfull \hbox (badness 4441) in paragraph at lines 21264--21267 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] Underfull \hbox (badness 6047) in paragraph at lines 22011--22013 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that \T1/zi4/m/n/10 make.unique(c(A,B)) == [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] [354] [355] [356] Underfull \hbox (badness 1077) in paragraph at lines 23052--23058 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [357] [358] [359] [360] [361] [362] [363] [364] [365] Underfull \hbox (badness 2790) in paragraph at lines 23548--23551 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23548--23551 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [366] [367] [368] [369] Underfull \hbox (badness 1194) in paragraph at lines 23830--23833 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [370] [371] [372] Underfull \hbox (badness 2368) in paragraph at lines 24036--24042 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing list, i.e., Underfull \hbox (badness 4981) in paragraph at lines 24036--24042 \T1/zi4/m/n/10 names(as.list(env,all.names = TRUE)) \T1/ptm/m/n/10 which are al so given by [][]\T1/zi4/m/n/10 ls[][][](env,all.names = [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 10000) in paragraph at lines 24418--24421 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [379] [380] [381] [382] [383] [384] [385] [386] [387] Underfull \hbox (badness 10000) in paragraph at lines 25023--25025 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than \T1/zi4/m/n/10 pkg %in% [388] [389] [390] [391] [392] [393] [394] [395] [396] [397] [398] [399] [400] Underfull \hbox (badness 1038) in paragraph at lines 25863--25871 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 1735) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set from value of the en-vi-ron-ment vari-able \T1/zi4/m/n/10 R_ DEFAULT_PACKAGES\T1/ptm/m/n/10 , or if that is un- Underfull \hbox (badness 1292) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set to \T1/zi4/m/n/10 c("datasets","utils","grDevices","graphics ","stats","methods")\T1/ptm/m/n/10 . (Set Underfull \hbox (badness 1881) in paragraph at lines 25872--25875 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25891--25893 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [401] [402] Underfull \hbox (badness 2142) in paragraph at lines 26032--26036 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 26082--26087 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 26383--26386 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 26409--26411 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 26444--26449 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 in-di-rectly [][]\T1/zi4/m/n/10 update.packages[][][]\T1/ptm/m/n /10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi4/m /n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use and [407] Underfull \hbox (badness 7203) in paragraph at lines 26462--26465 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 26486--26491 []\T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN ma -cOS build), Underfull \hbox (badness 2057) in paragraph at lines 26486--26491 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 10000) in paragraph at lines 27004--27007 []\T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 str2lang(s ) \T1/ptm/m/n/10 re-turn spe-cial ver-sions of [416] Underfull \hbox (badness 7925) in paragraph at lines 27083--27087 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 vec-to r \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n /10 cor-re-sponds to Underfull \hbox (badness 1622) in paragraph at lines 27083--27087 [][]\T1/zi4/m/n/10 parse[][][](text = s,keep.source=FALSE)\T1/ptm/m/n/10 , whic h is al-ways of type ([][]\T1/zi4/m/n/10 typeof[][][]\T1/ptm/m/n/10 ) and [][]\ T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 6125) in paragraph at lines 27088--27097 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 string \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2lang(s) \T1/ptm/m/n/10 cor -re-sponds to [][]\T1/zi4/m/n/10 parse[][][](text = [417] [418] [419] [420] [421] [422] [423] [424] [425] [426] [427] Underfull \hbox (badness 2726) in paragraph at lines 27809--27812 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] Underfull \vbox (badness 3803) has occurred while \output is active [446] [447] [448] [449] [450] [451] [452] [453] Underfull \hbox (badness 1533) in paragraph at lines 29500--29503 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [454] [455] [456] Underfull \hbox (badness 1163) in paragraph at lines 29663--29674 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] Underfull \hbox (badness 10000) in paragraph at lines 31209--31213 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 31209--31213 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. Underfull \hbox (badness 6188) in paragraph at lines 31231--31233 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [481] [482] [483] [484] [485] [486] [487] [488] [489] Underfull \hbox (badness 1655) in paragraph at lines 31787--31789 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] [504] [505] [506] Underfull \hbox (badness 2261) in paragraph at lines 32906--32911 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [507] Underfull \hbox (badness 10000) in paragraph at lines 32933--32939 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1484) in paragraph at lines 32933--32939 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions like [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] [550] [551] [552] [553] [554] [555] Underfull \hbox (badness 1072) in paragraph at lines 36075--36079 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 36080--36084 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 36120--36127 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [556] [557] [558] [559] [560] [561] Underfull \hbox (badness 1142) in paragraph at lines 36473--36479 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is \T1/zi4/m/n/10 "%Y-%m-%d [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] Underfull \hbox (badness 1565) in paragraph at lines 37746--37748 []\T1/ptm/m/n/10 integer code used in \T1/zi4/m/n/10 quantile(*,type=quantile.t ype) \T1/ptm/m/n/10 for the de-fault [582] [583] [584] [585] [586] [587] [588] [589] [590] [591] Underfull \hbox (badness 4967) in paragraph at lines 38345--38350 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [592] [593] Underfull \hbox (badness 1616) in paragraph at lines 38458--38463 \T1/zi4/m/n/10 system("id") \T1/ptm/m/n/10 is much more portable on Unix-alikes , pro-vided only the POSIX op-tions [594] [595] [596] [597] Underfull \vbox (badness 10000) has occurred while \output is active [598] [599] [600] [601] [602] Underfull \hbox (badness 1472) in paragraph at lines 38984--38987 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [603] [604] [605] [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] Underfull \vbox (badness 3803) has occurred while \output is active [616] Underfull \hbox (badness 10000) in paragraph at lines 39898--39902 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., \T1/zi4/m/n/10 length(bin) > [617] [618] [619] [620] Underfull \hbox (badness 10000) in paragraph at lines 40149--40152 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [621] [622] [623] Underfull \hbox (badness 10000) in paragraph at lines 40333--40337 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [624] [625] [626] [627] [628] [629] [630] [631] [632] Underfull \hbox (badness 10000) in paragraph at lines 40946--40949 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [633] [634] [635] [636] [637] [638] Underfull \vbox (badness 10000) has occurred while \output is active [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 1990) in paragraph at lines 41849--41857 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41849--41857 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [647] [648] [649] [650] [651] [652] [653] [654] Underfull \hbox (badness 1917) in paragraph at lines 42355--42362 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 3668) in paragraph at lines 43084--43086 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [666] [667] Underfull \hbox (badness 2401) in paragraph at lines 43212--43216 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [668] [669] [670] Underfull \hbox (badness 2111) in paragraph at lines 43401--43406 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 10000) in paragraph at lines 43422--43427 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [671] [672] [673] [674] [675] [676] [677] [678] [679] Underfull \hbox (badness 5417) in paragraph at lines 44004--44008 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [680] Underfull \hbox (badness 10000) in paragraph at lines 44065--44069 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [681] [682]) (./compiler-pkg.tex Chapter 2. [683] [684] [685] [686]) (./datasets-pkg.tex Chapter 3. [687] [688] [689] [690] [691] [692] [693] [694] [695] [696] [697] [698] [699] [700] [701] [702] [703] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] Underfull \vbox (badness 1448) has occurred while \output is active [727] [728] [729] [730] [731] [732] [733] [734] [735] [736] [737] [738] Overfull \vbox (19.74611pt too high) has occurred while \output is active [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] Underfull \vbox (badness 10000) has occurred while \output is active [755] [756] [757] [758] Underfull \vbox (badness 10000) has occurred while \output is active [759] [760] [761] [762] [763] [764] Overfull \vbox (18.9959pt too high) has occurred while \output is active [765] [766] [767]) (./grDevices-pkg.tex [768] Chapter 4. [769] [770] [771] [772] [773] Underfull \hbox (badness 3158) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, \T1/zi4/m/n/10 c(mi,ma,n.)\T1/ptm /m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][]\T1/zi4/m/n/10 axisTicks[][][]() \T1/ptm/ m/n/10 just calls the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/ptm/m/n/1 0 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \hbox (badness 5175) in paragraph at lines 1120--1122 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [787] [788] [789] [790] Underfull \hbox (badness 1852) in paragraph at lines 1322--1325 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [791] [792] [793] Underfull \hbox (badness 1490) in paragraph at lines 1528--1533 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [794] [795] [796] [797] [798] [799] Underfull \hbox (badness 1325) in paragraph at lines 1934--1944 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [800] [801] Underfull \hbox (badness 10000) in paragraph at lines 2046--2048 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [802] [803] [804] Underfull \hbox (badness 6758) in paragraph at lines 2224--2227 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] Underfull \hbox (badness 10000) in paragraph at lines 2828--2829 [815] [816] [817] [818] [819] [820] [821] [822] [823] Underfull \hbox (badness 10000) in paragraph at lines 3384--3389 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [824] [825] [826] [827] [828] Underfull \vbox (badness 10000) has occurred while \output is active [829] Underfull \hbox (badness 10000) in paragraph at lines 3785--3788 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as [830] [831] [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 10000) in paragraph at lines 4514--4519 [][][]$\T1/zi4/m/n/10 https : / / www . adobe . com / content / dam / acom / en / devnet / actionscript / articles / PLRM . pdf$[][] Underfull \hbox (badness 4181) in paragraph at lines 4514--4519 \T1/ptm/m/n/10 or PDF [][]$\T1/zi4/m/n/10 https : / / www . adobe . com / devne t / acrobat / pdfs / pdf _ reference _ 1-[]7 . pdf$[][] \T1/ptm/m/n/10 and in [841] Underfull \vbox (badness 10000) has occurred while \output is active [842] [843] Underfull \hbox (badness 1067) in paragraph at lines 4668--4675 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [844] [845] [846] [847] Underfull \hbox (badness 1377) in paragraph at lines 4971--4976 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [848] Underfull \hbox (badness 1418) in paragraph at lines 5047--5054 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 1755) in paragraph at lines 5065--5067 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [849] [850] Underfull \hbox (badness 1377) in paragraph at lines 5176--5181 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [851] Underfull \hbox (badness 7344) in paragraph at lines 5245--5247 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [852] [853] Underfull \hbox (badness 2035) in paragraph at lines 5380--5389 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [854] Underfull \hbox (badness 10000) in paragraph at lines 5448--5455 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5448--5455 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [855] [856] [857] Underfull \hbox (badness 1546) in paragraph at lines 5590--5598 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [858] [859] [860] [861] [862] [863] [864] [865] Underfull \hbox (badness 10000) in paragraph at lines 6125--6128 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \hbox (badness 1189) in paragraph at lines 6947--6949 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [879] Underfull \hbox (badness 10000) in paragraph at lines 7045--7047 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [880] [881] [882] [883] [884] Underfull \hbox (badness 3780) in paragraph at lines 7345--7351 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [885] [886] [887] Underfull \hbox (badness 2680) in paragraph at lines 7546--7548 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [888] [889] [890]) (./graphics-pkg.tex Chapter 5. [891] [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] Underfull \hbox (badness 4634) in paragraph at lines 1349--1352 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] Underfull \hbox (badness 1009) in paragraph at lines 2388--2395 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] [945] [946] [947] [948] [949] [950] [951] [952] Underfull \vbox (badness 10000) has occurred while \output is active [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 3229) in paragraph at lines 4532--4537 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [966] [967] [968] [969] [970] Underfull \hbox (badness 10000) in paragraph at lines 4889--4895 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width,height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4889--4895 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [971] Underfull \hbox (badness 10000) in paragraph at lines 5020--5023 [972] Underfull \hbox (badness 10000) in paragraph at lines 5081--5083 [973 ] [974 ] [975] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [976] Underfull \vbox (badness 3803) has occurred while \output is active [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6749--6750 [][] [999] [1000 ] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] Underfull \hbox (badness 2012) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i],y0[i]) \T1/ptm/m/n/10 and the poi nt [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] Underfull \hbox (badness 10000) in paragraph at lines 8834--8836 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8836--8838 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1034]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8916 \HeaderA{units}{Graphical Units}{units} [1035] [1036] [1037] [1038]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] Underfull \hbox (badness 2680) in paragraph at lines 483--486 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Underfull \hbox (badness 4279) in paragraph at lines 1064--1073 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] Underfull \vbox (badness 10000) has occurred while \output is active [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 1067) in paragraph at lines 4486--4489 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1115] [1116] [1117] [1118] Underfull \hbox (badness 7256) in paragraph at lines 4731--4733 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] Underfull \hbox (badness 1824) in paragraph at lines 6535--6538 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like \T1/zi4/m/n/10 depth [1150] [1151] [1152] [1153]) (./methods-pkg.tex [1154] Chapter 7. [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] Underfull \vbox (badness 3803) has occurred while \output is active [1163] Underfull \vbox (badness 10000) has occurred while \output is active [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] Underfull \hbox (badness 2181) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x,"refClass") \T1/ptm/m/n/10 tests [1182] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1183] [1184] [1185] Underfull \hbox (badness 2213) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1191] [1192] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1193] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1194] [1195] [1196] [1197] [1198] [1199] [1200] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1201] [1202] [1203] [1204] [1205] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1206] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1207] Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <-setClass("Pos",slots = c(latitude = "numeric",longitude = "numeric",altitude [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] Underfull \vbox (badness 10000) has occurred while \output is active [1229] [1230] [1231] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1232] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1233] [1234] [1235] [1236] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1245] [1246] [1247] [1248] Underfull \vbox (badness 10000) has occurred while \output is active [1249] [1250] [1251] [1252]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1253] [1254] [1255]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1256] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1257] [1258] [1259] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \vbox (badness 10000) has occurred while \output is active [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] Underfull \hbox (badness 1137) in paragraph at lines 10011--10019 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form \T1/zi4/m/n/10 ne w("signature",functionDef,...)\T1/ptm/m/n/10 . The [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1302] [1303] [1304] [1305]) (./parallel-pkg.tex [1306] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] Underfull \hbox (badness 3386) in paragraph at lines 1365--1368 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1328] [1329] [1330]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346]) (./stats-pkg.tex Chapter 10. [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 1412) in paragraph at lines 875--877 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] Underfull \hbox (badness 2503) in paragraph at lines 1356--1359 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1369] [1370] [1371] Underfull \hbox (badness 10000) in paragraph at lines 1536--1540 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov","lm") \T1/ptm/m/n/1 0 or for mul-ti-ple re-sponses of class [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] [1401] Underfull \hbox (badness 2503) in paragraph at lines 3435--3438 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] Underfull \hbox (badness 1127) in paragraph at lines 4349--4352 []\T1/ptm/m/n/10 standardized resid-u-als, \T1/zi4/m/n/10 (observed -expected) / sqrt(V)\T1/ptm/m/n/10 , where \T1/zi4/m/n/10 V \T1/ptm/m/n/10 is the [1417] [1418] [1419] [1420] [1421] Underfull \hbox (badness 3989) in paragraph at lines 4679--4686 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] Underfull \hbox (badness 2556) in paragraph at lines 5315--5318 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5332--5334 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1432] [1433] [1434] [1435] [1436] [1437] [1438] Underfull \hbox (badness 2503) in paragraph at lines 5724--5728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] Underfull \hbox (badness 7081) in paragraph at lines 6518--6521 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6522--6524 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1452] [1453] [1454] [1455] [1456] Underfull \vbox (badness 3803) has occurred while \output is active [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 10000) in paragraph at lines 7367--7370 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \vbox (badness 10000) has occurred while \output is active [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2626) in paragraph at lines 9044--9047 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 9151--9155 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] Underfull \hbox (badness 4518) in paragraph at lines 10461--10466 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 2142) in paragraph at lines 10821--10824 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10840--10843 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1519] Underfull \hbox (badness 1708) in paragraph at lines 10902--10906 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1520] [1521] [1522] [1523] [1524] [1525] Underfull \hbox (badness 1694) in paragraph at lines 11298--11301 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1526] [1527] [1528] [1529] [1530] [1531] Underfull \hbox (badness 10000) in paragraph at lines 11625--11628 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of Underfull \hbox (badness 1281) in paragraph at lines 11625--11628 \T1/zi4/m/n/10 qhyper(runif(nn),m,n,k) \T1/ptm/m/n/10 is used, when a bi-no-mia l ap-prox-i-ma-tion may be con-sid-er-ably [1532] [1533]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.hat}) has been already used, duplicate ignored \relax l.11779 \aliasA{hat}{influence.measures}{hat} [1534] [1535] Underfull \hbox (badness 1484) in paragraph at lines 11914--11916 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1536] [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] Underfull \hbox (badness 10000) in paragraph at lines 12507--12509 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when \T1/zi4/m/n/10 SSinit = [1546] [1547] [1548] [1549] [1550] [1551] Underfull \hbox (badness 2894) in paragraph at lines 12843--12847 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] Underfull \hbox (badness 4518) in paragraph at lines 13593--13598 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] Underfull \hbox (badness 4518) in paragraph at lines 14245--14250 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1574] [1575] Underfull \hbox (badness 8151) in paragraph at lines 14383--14387 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = "interp olate",statistics = Underfull \hbox (badness 1199) in paragraph at lines 14390--14392 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] Underfull \hbox (badness 2503) in paragraph at lines 15461--15465 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 4621) in paragraph at lines 15973--15979 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(,"offset") \T1/ ptm/m/n/10 and [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] Underfull \vbox (badness 10000) has occurred while \output is active [1630] Underfull \vbox (badness 10000) has occurred while \output is active [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] Underfull \hbox (badness 1377) in paragraph at lines 18567--18572 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18572--18575 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on [1644] Underfull \hbox (badness 2343) in paragraph at lines 18585--18589 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18585--18589 \T1/ptm/m/n/10 the value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18593--18597 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1645] [1646] [1647] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18818--18818 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18821--18821 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] Underfull \vbox (badness 10000) has occurred while \output is active [1648] [1649] [1650] [1651] [1652] [1653] [1654] Underfull \hbox (badness 1337) in paragraph at lines 19243--19246 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] Underfull \hbox (badness 3049) in paragraph at lines 19739--19743 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1664] [1665] [1666] [1667] Underfull \hbox (badness 1194) in paragraph at lines 19997--20000 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1668] [1669] [1670] [1671] [1672] [1673] [1674] Underfull \hbox (badness 2503) in paragraph at lines 20372--20375 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 20399--20401 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or \T1/zi4/m/n/10 "Comparison of Poisson [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] [1691] [1692] Underfull \hbox (badness 10000) in paragraph at lines 21476--21482 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] Underfull \hbox (badness 1337) in paragraph at lines 22823--22829 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23388--23388 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 10000) in paragraph at lines 23639--23642 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 4205) in paragraph at lines 23639--23642 \T1/zi4/m/n/10 cutree(hclust.obj,k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1729] [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] Underfull \hbox (badness 10000) in paragraph at lines 24224--24227 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x,k) \T1/ptm/m/n/10 sim-ply has \T1/zi4/m/n/10 y[j] = [1738] Underfull \hbox (badness 3690) in paragraph at lines 24276--24280 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] Underfull \hbox (badness 2165) in paragraph at lines 24753--24758 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1747] [1748] [1749] [1750] Underfull \hbox (badness 1867) in paragraph at lines 24958--24960 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24971--24975 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <-[][]nobs[][][](object,use.fallback = u se.fallback) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 PP [1751] [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \vbox (badness 3803) has occurred while \output is active [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] Underfull \vbox (badness 10000) has occurred while \output is active [1774] [1775] Underfull \hbox (badness 3514) in paragraph at lines 26510--26515 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1776] [1777] [1778] [1779] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26744--26744 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 26780--26786 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1780] [1781] [1782] [1783] Underfull \hbox (badness 3514) in paragraph at lines 26994--26999 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1784] [1785] Underfull \hbox (badness 3514) in paragraph at lines 27081--27086 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1786] Underfull \hbox (badness 3514) in paragraph at lines 27146--27151 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1787] [1788] Underfull \hbox (badness 3514) in paragraph at lines 27240--27245 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1789] Underfull \hbox (badness 6691) in paragraph at lines 27332--27337 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 4024) in paragraph at lines 27862--27865 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 5431) in paragraph at lines 28468--28470 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1809] [1810] [1811] Underfull \hbox (badness 5431) in paragraph at lines 28678--28681 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1812] [1813] [1814] [1815] [1816] [1817] Underfull \hbox (badness 1337) in paragraph at lines 28992--28996 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1818] [1819] [1820] [1821] [1822] Underfull \hbox (badness 1616) in paragraph at lines 29294--29297 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] [1840] [1841] Underfull \hbox (badness 3557) in paragraph at lines 30424--30428 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect \T1/zi4 /m/n/10 interval = [1842] [1843] [1844] Underfull \vbox (badness 10000) has occurred while \output is active [1845] [1846] [1847] Underfull \hbox (badness 1337) in paragraph at lines 30788--30792 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1848] [1849] [1850] [1851] [1852] [1853] [1854] [1855] [1856] Underfull \hbox (badness 1337) in paragraph at lines 31315--31319 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866]) (./stats4-pkg.tex Chapter 11. [1867] [1868] [1869] [1870] [1871] [1872]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1873] [1874] [1875]) (./tcltk-pkg.tex [1876] Chapter 12. [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] Underfull \vbox (badness 10000) has occurred while \output is active [1885] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1886] [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897]) (./tools-pkg.tex [1898] Chapter 13. [1899] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1900] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1901] [1902] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1903] [1904] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1905] [1906] [1907] [1908] [1909] [1910] [1911] [1912] [1913] [1914] [1915] [1916] Underfull \hbox (badness 4441) in paragraph at lines 1139--1149 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1917] Underfull \hbox (badness 1014) in paragraph at lines 1163--1165 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1169--1171 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1918] Underfull \hbox (badness 10000) in paragraph at lines 1206--1209 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1206--1209 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1919] [1920] [1921] [1922] [1923] Underfull \hbox (badness 2293) in paragraph at lines 1558--1560 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1924] [1925] Underfull \hbox (badness 7981) in paragraph at lines 1696--1701 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1703--1705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1926] [1927] [1928] [1929]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1900 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1930] [1931] [1932] [1933] [1934] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2202--2202 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1935] [1936] [1937] Underfull \hbox (badness 7981) in paragraph at lines 2371--2377 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1938] [1939] [1940] [1941] [1942] [1943] [1944] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2837. [1945] [1946] [1947] [1948] Underfull \hbox (badness 1424) in paragraph at lines 3119--3121 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1949] [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] Underfull \hbox (badness 10000) in paragraph at lines 3823--3825 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1961] [1962] Underfull \hbox (badness 10000) in paragraph at lines 3962--3965 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1963] [1964] Underfull \hbox (badness 1137) in paragraph at lines 4064--4066 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1965] [1966] [1967] [1968] [1969] Underfull \hbox (badness 1796) in paragraph at lines 4372--4377 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over \T 1/zi4/m/sl/10 write_PACKAGES \T1/ptm/m/n/10 in the \T1/zi4/m/sl/10 type == [1970] Underfull \hbox (badness 1838) in paragraph at lines 4446--4452 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4446--4452 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1971] [1972] [1973] Underfull \hbox (badness 2197) in paragraph at lines 4662--4672 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : [1974] Underfull \hbox (badness 1571) in paragraph at lines 4725--4729 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1975] [1976] [1977]) (./utils-pkg.tex [1978] Chapter 14. [1979] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1980] [1981] [1982] [1983] [1984] Underfull \hbox (badness 10000) in paragraph at lines 376--381 \T1/zi4/m/sl/10 c("vertical","horizontal","cascade","minimize","restore") \T1/p tm/m/n/10 with [1985] [1986] [1987] [1988] [1989] Underfull \hbox (badness 10000) in paragraph at lines 717--723 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 717--723 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1990] [1991] Underfull \hbox (badness 5847) in paragraph at lines 850--856 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 850--856 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1992] Underfull \hbox (badness 3861) in paragraph at lines 918--923 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1993] [1994] Underfull \hbox (badness 3323) in paragraph at lines 1089--1097 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use \T1/zi4/m/sl/1 0 bibtex = T|F \T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m$\T1 /ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 3735) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x",1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by [1995] Underfull \hbox (badness 10000) in paragraph at lines 1101--1103 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1996] [1997] Underfull \vbox (badness 3803) has occurred while \output is active [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1371) in paragraph at lines 1606--1608 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2003] [2004] [2005] [2006] [2007] [2008] [2009] [2010] [2011] [2012] Underfull \hbox (badness 2057) in paragraph at lines 2215--2217 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [2013] [2014] [2015] [2016] [2017] [2018]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2566 ... the Clipboard in MS Windows}{clipboard} [2019] [2020] Underfull \hbox (badness 1748) in paragraph at lines 2733--2736 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [2021] [2022] [2023] [2024] [2025] [2026] [2027] Underfull \hbox (badness 5388) in paragraph at lines 3142--3146 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[][][](...,header = Underfull \hbox (badness 2285) in paragraph at lines 3147--3150 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](...,header = TRUE,sep = [2028] [2029] [2030] [2031] [2032] [2033] [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1430) in paragraph at lines 3906--3914 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2039] Underfull \hbox (badness 1231) in paragraph at lines 3983--3995 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2040] [2041] Underfull \hbox (badness 10000) in paragraph at lines 4143--4145 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2042] [2043] [2044] [2045] [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1622) in paragraph at lines 5360--5364 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] Underfull \hbox (badness 1371) in paragraph at lines 5996--5998 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2072] Underfull \hbox (badness 1502) in paragraph at lines 6085--6090 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6085--6090 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 6258--6267 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2076] Underfull \hbox (badness 2150) in paragraph at lines 6322--6325 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2077] [2078] Underfull \hbox (badness 3118) in paragraph at lines 6460--6462 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2079] [2080] [2081] Underfull \hbox (badness 1325) in paragraph at lines 6632--6636 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able Underfull \hbox (badness 4726) in paragraph at lines 6644--6650 \T1/ptm/m/n/10 used if \T1/zi4/m/sl/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of [2082] Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 \T1/ptm/m/n/10 passed to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g., [2083] Underfull \hbox (badness 3219) in paragraph at lines 6792--6799 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 6792--6799 [][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")\T1/ ptm/m/n/10 . \T1/zi4/m/sl/10 type = "both" \T1/ptm/m/n/10 will be silently Underfull \hbox (badness 2932) in paragraph at lines 6800--6803 []\T1/ptm/m/n/10 Using pack-ages with \T1/zi4/m/sl/10 type = "source" \T1/ptm/m /n/10 al-ways works pro-vided the pack-age con-tains no [2084] Underfull \hbox (badness 10000) in paragraph at lines 6934--6939 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2085] [2086] [2087] [2088] [2089] [2090] [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 8434--8436 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 2310) in paragraph at lines 8456--8461 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2110] [2111] [2112] [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1248) in paragraph at lines 8980--8984 []\T1/zi4/m/sl/10 R CMD build \T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/m/ n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2118] Underfull \hbox (badness 1789) in paragraph at lines 9058--9060 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] Underfull \vbox (badness 10000) has occurred while \output is active [2129] [2130] [2131] Underfull \hbox (badness 1097) in paragraph at lines 9895--9898 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2132] [2133] Underfull \hbox (badness 3000) in paragraph at lines 10031--10036 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2134] [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 2134) in paragraph at lines 10614--10619 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 \T1/zi4/m/sl/10 HKEY_LOCAL_MACHINE\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 HKEY_CLASSES _ROOT\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 HKEY_CURRENT_USER\T1/ptm/m/n/10 , [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] Underfull \hbox (badness 2469) in paragraph at lines 11163--11167 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11163--11167 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2152] [2153] [2154] [2155] [2156] Underfull \hbox (badness 4060) in paragraph at lines 11494--11497 []\T1/ptm/m/n/10 If `\T1/zi4/m/sl/10 --default-packages\T1/ptm/m/n/10 ' is not used, then \T1/zi4/m/sl/10 Rscript \T1/ptm/m/n/10 checks the en-vi-ron-ment var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 11517--11517 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2157] [2158] [2159] [2160] Underfull \hbox (badness 2150) in paragraph at lines 11756--11758 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2161] [2162] [2163] [2164] Underfull \hbox (badness 10000) in paragraph at lines 11975--11979 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12006--12012 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2165] [2166] [2167] Underfull \hbox (badness 1009) in paragraph at lines 12200--12212 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12237--12239 []\T1/ptm/m/n/10 The file `\T1/zi4/m/sl/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI (\T1/zi4/m/sl/10 Rgui\T1/ptm/m/n/10 ) con-sole un-der MS Win-dows a nd [2168] Underfull \hbox (badness 1077) in paragraph at lines 12267--12274 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2169] [2170] [2171] [2172] [2173] [2174] Underfull \hbox (badness 3780) in paragraph at lines 12668--12672 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][]\T1 /zi4/m/sl/10 options[][][]("BioC_mirror")\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 12684--12687 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2175] [2176] [2177] [2178] Underfull \hbox (badness 2302) in paragraph at lines 12889--12891 []\T1/ptm/m/n/10 Convert file paths to the short form. 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Transcript written on refman.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-admin.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.t2d/pdf/xt r/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] Cross reference values unknown; you must run TeX again. [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] [16] [17] [18] [19] [20] Chapter 4 [21] [22] Underfull \hbox (badness 10000) in paragraph at lines 1917--1929 @texttt capitan.fw.pkg[]@textrm , @texttt org.r-project.R.el-capitan.GUI.pkg[]@ textrm , @texttt org.r-project.x86_ [23] Chapter 5 [24] Chapter 6 [25] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2064--2064 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [26] [27] Underfull \hbox (badness 6842) in paragraph at lines 2258--2269 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- [28] [29] [30] [31] [32] [33] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2718--2718 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2738--2738 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2739--2739 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] [34] Chapter 7 [35] [36] [37] Chapter 8 [38] Chapter 9 [39] [40] [41] [42] Appendix A [43] [44] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3371--3371 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [45] [46] [47] [48] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3642--3642 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.191-1.b12.fc28.x86_6 4/jre[] [49] [50] [51] [52] [53] [54] Appendix B [55] [56] [57] [58] [59] [60] Appendix C [61] [62] [63] [64] [65] [66] Overfull \hbox (78.17732pt too wide) in paragraph at lines 4985--4985 []@texttt /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_m acOS_10.14.pkg \[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 4992--4992 []@texttt CPPFLAGS="-isystem /Library/Developer/CommandLineTools/SDKs/MacOSX.s dk/usr/include"[] [67] Overfull \hbox (78.17732pt too wide) in paragraph at lines 5096--5096 []@texttt PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr /lib/pkgconfig \[] [68] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5133--5133 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5167--5167 []@texttt --enable-memory-profiling --enable-R-framework --x-libraries=/opt/X1 1/lib[] [69] Underfull \hbox (badness 10000) in paragraph at lines 5272--5277 []@textrm To see what com-pat-i-ble ver-sions of Java are cur-rently in-stalled , run [70] Overfull \hbox (20.69044pt too wide) in paragraph at lines 5296--5296 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_191.jdk/Content s/Home[] [71] [72] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5465--5465 []@texttt R_LD_LIBRARY_PATH="/opt/developerstudio12.6/lib:/usr/local/lib:/opt/ csw/lib"[] [73] Underfull \hbox (badness 10000) in paragraph at lines 5570--5576 @texttt LDFLAGS=-L/usr/local/lib/amd64[] @textrm or @texttt LDFLAGS=-L/usr/loca l/lib/sparcv9[] @textrm as Overfull \hbox (141.41289pt too wide) in paragraph at lines 5578--5578 []@texttt PKG_CONFIG_PATH= /usr/local/lib/amd64/pkgconfig:/opt/csw/lib/64/pkgc onfig:/usr/lib/64/pkgconfig[] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5585--5585 []@texttt JAVA_CPPFLAGS="-I${JAVA_HOME}/../include -I${JAVA_HOME}/../include/s olaris"[] [74] Underfull \hbox (badness 10000) in paragraph at lines 5635--5639 []@textrm Note that paths such as @texttt /opt/csw/lib[]@textrm , @texttt /usr/ local/lib/amd64[] @textrm and [75] Appendix D [76] [77] [78] (Function and variable index) [79] No file R-admin.vrs. (Concept index) [80] No file R-admin.cps. (Environment variable index) [81] No file R-admin.ens. [82] ) (see the transcript file for additional information) Output written on R-admin.pdf (85 pages, 474556 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.t2d/pdf/xt r/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.toc [-1] [-2]) [-3] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.toc) Chapter 1 (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] [16] [17] [18] [19] [20] Chapter 4 [21] [22] Underfull \hbox (badness 10000) in paragraph at lines 1917--1929 @texttt capitan.fw.pkg[]@textrm , @texttt org.r-project.R.el-capitan.GUI.pkg[]@ textrm , @texttt org.r-project.x86_ [23] Chapter 5 [24] Chapter 6 [25] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2064--2064 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [26] [27] Underfull \hbox (badness 6842) in paragraph at lines 2258--2269 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- [28] [29] [30] [31] [32] [33] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2718--2718 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2738--2738 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2739--2739 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] [34] Chapter 7 [35] [36] [37] Chapter 8 [38] Chapter 9 [39] [40] [41] [42] Appendix A [43] [44] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3371--3371 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [45] [46] [47] [48] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3642--3642 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.191-1.b12.fc28.x86_6 4/jre[] [49] [50] [51] [52] [53] [54] Appendix B [55] [56] [57] [58] [59] [60] Appendix C [61] [62] [63] [64] [65] [66] Overfull \hbox (78.17732pt too wide) in paragraph at lines 4985--4985 []@texttt /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_m acOS_10.14.pkg \[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 4992--4992 []@texttt CPPFLAGS="-isystem /Library/Developer/CommandLineTools/SDKs/MacOSX.s dk/usr/include"[] [67] Overfull \hbox (78.17732pt too wide) in paragraph at lines 5096--5096 []@texttt PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr /lib/pkgconfig \[] [68] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5133--5133 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5167--5167 []@texttt --enable-memory-profiling --enable-R-framework --x-libraries=/opt/X1 1/lib[] [69] Underfull \hbox (badness 10000) in paragraph at lines 5272--5277 []@textrm To see what com-pat-i-ble ver-sions of Java are cur-rently in-stalled , run [70] Overfull \hbox (20.69044pt too wide) in paragraph at lines 5296--5296 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_191.jdk/Content s/Home[] [71] [72] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5465--5465 []@texttt R_LD_LIBRARY_PATH="/opt/developerstudio12.6/lib:/usr/local/lib:/opt/ csw/lib"[] [73] Underfull \hbox (badness 10000) in paragraph at lines 5570--5576 @texttt LDFLAGS=-L/usr/local/lib/amd64[] @textrm or @texttt LDFLAGS=-L/usr/loca l/lib/sparcv9[] @textrm as Overfull \hbox (141.41289pt too wide) in paragraph at lines 5578--5578 []@texttt PKG_CONFIG_PATH= /usr/local/lib/amd64/pkgconfig:/opt/csw/lib/64/pkgc onfig:/usr/lib/64/pkgconfig[] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5585--5585 []@texttt JAVA_CPPFLAGS="-I${JAVA_HOME}/../include -I${JAVA_HOME}/../include/s olaris"[] [74] Underfull \hbox (badness 10000) in paragraph at lines 5635--5639 []@textrm Note that paths such as @texttt /opt/csw/lib[]@textrm , @texttt /usr/ local/lib/amd64[] @textrm and [75] Appendix D [76] [77] [78] (Function and variable index) [79] (Concept index) [80] (Environment variable index) [81] [82] ) (see the transcript file for additional information) Output written on R-admin.pdf (87 pages, 519384 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.t2d/pdf/xt r/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.toc [-1] [-2]) [-3] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.toc) Chapter 1 (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] [16] [17] [18] [19] [20] Chapter 4 [21] [22] Underfull \hbox (badness 10000) in paragraph at lines 1917--1929 @texttt capitan.fw.pkg[]@textrm , @texttt org.r-project.R.el-capitan.GUI.pkg[]@ textrm , @texttt org.r-project.x86_ [23] Chapter 5 [24] Chapter 6 [25] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2064--2064 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [26] [27] Underfull \hbox (badness 6842) in paragraph at lines 2258--2269 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- [28] [29] [30] [31] [32] [33] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2718--2718 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2738--2738 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2739--2739 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] [34] Chapter 7 [35] [36] [37] Chapter 8 [38] Chapter 9 [39] [40] [41] [42] Appendix A [43] [44] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3371--3371 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [45] [46] [47] [48] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3642--3642 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.191-1.b12.fc28.x86_6 4/jre[] [49] [50] [51] [52] [53] [54] Appendix B [55] [56] [57] [58] [59] [60] Appendix C [61] [62] [63] [64] [65] [66] Overfull \hbox (78.17732pt too wide) in paragraph at lines 4985--4985 []@texttt /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_m acOS_10.14.pkg \[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 4992--4992 []@texttt CPPFLAGS="-isystem /Library/Developer/CommandLineTools/SDKs/MacOSX.s dk/usr/include"[] [67] Overfull \hbox (78.17732pt too wide) in paragraph at lines 5096--5096 []@texttt PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr /lib/pkgconfig \[] [68] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5133--5133 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5167--5167 []@texttt --enable-memory-profiling --enable-R-framework --x-libraries=/opt/X1 1/lib[] [69] Underfull \hbox (badness 10000) in paragraph at lines 5272--5277 []@textrm To see what com-pat-i-ble ver-sions of Java are cur-rently in-stalled , run [70] Overfull \hbox (20.69044pt too wide) in paragraph at lines 5296--5296 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_191.jdk/Content s/Home[] [71] [72] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5465--5465 []@texttt R_LD_LIBRARY_PATH="/opt/developerstudio12.6/lib:/usr/local/lib:/opt/ csw/lib"[] [73] Underfull \hbox (badness 10000) in paragraph at lines 5570--5576 @texttt LDFLAGS=-L/usr/local/lib/amd64[] @textrm or @texttt LDFLAGS=-L/usr/loca l/lib/sparcv9[] @textrm as Overfull \hbox (141.41289pt too wide) in paragraph at lines 5578--5578 []@texttt PKG_CONFIG_PATH= /usr/local/lib/amd64/pkgconfig:/opt/csw/lib/64/pkgc onfig:/usr/lib/64/pkgconfig[] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5585--5585 []@texttt JAVA_CPPFLAGS="-I${JAVA_HOME}/../include -I${JAVA_HOME}/../include/s olaris"[] [74] Underfull \hbox (badness 10000) in paragraph at lines 5635--5639 []@textrm Note that paths such as @texttt /opt/csw/lib[]@textrm , @texttt /usr/ local/lib/amd64[] @textrm and [75] Appendix D [76] [77] [78] (Function and variable index) [79] (Concept index) [80] (Environment variable index) [81] [82] ) (see the transcript file for additional information) Output written on R-admin.pdf (87 pages, 519450 bytes). Transcript written on R-admin.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-data.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.t2d/pdf/xtr /R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Underfull \hbox (badness 10000) in paragraph at lines 87--87 [][]@textbf DBI Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 87--87 @texttt package=DBI[]@textrm )[][]| Overfull \hbox (8.53186pt too wide) in paragraph at lines 88--88 [][]@textbf dataframes2xls Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt org / Overfull \hbox (67.73643pt too wide) in paragraph at lines 88--88 @texttt package=dataframes2xls[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 89--89 [][]@textbf foreign Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 89--89 @texttt package=foreign[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 90--90 [][]@textbf gdata Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 90--90 @texttt package=gdata[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 91--91 [][]@textbf ncdf4 Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 91--91 @texttt package=ncdf4[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 92--92 [][]@textbf rJava Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 92--92 @texttt package=rJava[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 93--93 [][]@textbf RJDBC Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 93--93 @texttt package=RJDBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 94--94 [][]@textbf RMySQL Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt org / Overfull \hbox (21.74693pt too wide) in paragraph at lines 94--94 @texttt package=RMySQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 95--95 [][]@textbf RNetCDF Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 95--95 @texttt package=RNetCDF[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 96--96 [][]@textbf RODBC Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 96--96 @texttt package=RODBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 97--97 [][]@textbf ROracle Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 97--97 @texttt package=ROracle[]@textrm )[][]| Overfull \hbox (2.70708pt too wide) in paragraph at lines 98--98 [][]@textbf RPostgreSQL Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt org / Overfull \hbox (50.49037pt too wide) in paragraph at lines 98--98 @texttt package=RPostgreSQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 101--101 [][]@textbf RSQLite Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 101--101 @texttt package=RSQLite[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 103--103 [][]@textbf WriteXLS Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt org / Overfull \hbox (33.24431pt too wide) in paragraph at lines 103--103 @texttt package=WriteXLS[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 104--104 [][]@textbf XLConnect Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt org / Overfull \hbox (38.993pt too wide) in paragraph at lines 104--104 @texttt package=XLConnect[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 105--105 [][]@textbf XML Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 105--105 @texttt package=XML[]@textrm )[][]| [1] [2] Chapter 1 [3] Writing index file R-data.cp Cross reference values unknown; you must run TeX again. [4] [5] [6] [7] Chapter 2 [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16] Chapter 4 [17] [18] [19] [20] [21] [22] [23] Chapter 5 [24] Chapter 6 [25] Chapter 7 [26] [27] [28] [29] [30] Chapter 8 [31] Chapter 9 [32] Appendix A [33] (Function and variable index) [34] No file R-data.vrs. (Concept index) [35] No file R-data.cps. [36] ) (see the transcript file for additional information) Output written on R-data.pdf (39 pages, 272428 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.t2d/pdf/xtr /R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.toc [-1]) [-2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.toc) (Acknowledgements) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.aux) Underfull \hbox (badness 10000) in paragraph at lines 87--87 [][]@textbf DBI Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 87--87 @texttt package=DBI[]@textrm )[][]| Overfull \hbox (8.53186pt too wide) in paragraph at lines 88--88 [][]@textbf dataframes2xls Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 88--88 @texttt org / Overfull \hbox (67.73643pt too wide) in paragraph at lines 88--88 @texttt package=dataframes2xls[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 89--89 [][]@textbf foreign Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 89--89 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 89--89 @texttt package=foreign[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 90--90 [][]@textbf gdata Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 90--90 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 90--90 @texttt package=gdata[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 91--91 [][]@textbf ncdf4 Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 91--91 @texttt package=ncdf4[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 92--92 [][]@textbf rJava Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 92--92 @texttt package=rJava[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 93--93 [][]@textbf RJDBC Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 93--93 @texttt package=RJDBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 94--94 [][]@textbf RMySQL Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt org / Overfull \hbox (21.74693pt too wide) in paragraph at lines 94--94 @texttt package=RMySQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 95--95 [][]@textbf RNetCDF Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 95--95 @texttt package=RNetCDF[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 96--96 [][]@textbf RODBC Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 96--96 @texttt package=RODBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 97--97 [][]@textbf ROracle Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 97--97 @texttt package=ROracle[]@textrm )[][]| Overfull \hbox (2.70708pt too wide) in paragraph at lines 98--98 [][]@textbf RPostgreSQL Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt org / Overfull \hbox (50.49037pt too wide) in paragraph at lines 98--98 @texttt package=RPostgreSQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 101--101 [][]@textbf RSQLite Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt CRAN . 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Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 105--105 @texttt package=XML[]@textrm )[][]| [1] [2] Chapter 1 [3] Writing index file R-data.cp [4] [5] [6] [7] Chapter 2 [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16] Chapter 4 [17] [18] [19] [20] [21] [22] [23] Chapter 5 [24] Chapter 6 [25] Chapter 7 [26] [27] [28] [29] [30] Chapter 8 [31] Chapter 9 [32] Appendix A [33] (Function and variable index) [34] [35] (Concept index) [36] [37] Overfull \vbox (1.73251pt too high) has occurred while \output is active [38] ) (see the transcript file for additional information) Output written on R-data.pdf (42 pages, 312466 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.t2d/pdf/xtr /R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.toc [-1]) [-2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.toc) (Acknowledgements) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-data.aux) Underfull \hbox (badness 10000) in paragraph at lines 87--87 [][]@textbf DBI Underfull \hbox (badness 10000) in paragraph at lines 87--87 @texttt CRAN . 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Underfull \hbox (badness 10000) in paragraph at lines 91--91 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 91--91 @texttt package=ncdf4[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 92--92 [][]@textbf rJava Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 92--92 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 92--92 @texttt package=rJava[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 93--93 [][]@textbf RJDBC Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 93--93 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 93--93 @texttt package=RJDBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 94--94 [][]@textbf RMySQL Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 94--94 @texttt org / Overfull \hbox (21.74693pt too wide) in paragraph at lines 94--94 @texttt package=RMySQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 95--95 [][]@textbf RNetCDF Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 95--95 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 95--95 @texttt package=RNetCDF[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 96--96 [][]@textbf RODBC Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 96--96 @texttt org / Overfull \hbox (15.99825pt too wide) in paragraph at lines 96--96 @texttt package=RODBC[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 97--97 [][]@textbf ROracle Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 97--97 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 97--97 @texttt package=ROracle[]@textrm )[][]| Overfull \hbox (2.70708pt too wide) in paragraph at lines 98--98 [][]@textbf RPostgreSQL Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 98--98 @texttt org / Overfull \hbox (50.49037pt too wide) in paragraph at lines 98--98 @texttt package=RPostgreSQL[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 101--101 [][]@textbf RSQLite Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 101--101 @texttt org / Overfull \hbox (27.49562pt too wide) in paragraph at lines 101--101 @texttt package=RSQLite[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 103--103 [][]@textbf WriteXLS Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 103--103 @texttt org / Overfull \hbox (33.24431pt too wide) in paragraph at lines 103--103 @texttt package=WriteXLS[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 104--104 [][]@textbf XLConnect Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 104--104 @texttt org / Overfull \hbox (38.993pt too wide) in paragraph at lines 104--104 @texttt package=XLConnect[]@textrm )[][]| Underfull \hbox (badness 10000) in paragraph at lines 105--105 [][]@textbf XML Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt CRAN . Underfull \hbox (badness 10000) in paragraph at lines 105--105 @texttt org / Overfull \hbox (4.50087pt too wide) in paragraph at lines 105--105 @texttt package=XML[]@textrm )[][]| [1] [2] Chapter 1 [3] Writing index file R-data.cp [4] [5] [6] [7] Chapter 2 [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16] Chapter 4 [17] [18] [19] [20] [21] [22] [23] Chapter 5 [24] Chapter 6 [25] Chapter 7 [26] [27] [28] [29] [30] Chapter 8 [31] Chapter 9 [32] Appendix A [33] (Function and variable index) [34] [35] (Concept index) [36] [37] Overfull \vbox (1.73251pt too high) has occurred while \output is active [38] ) (see the transcript file for additional information) Output written on R-data.pdf (42 pages, 312468 bytes). Transcript written on R-data.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-exts.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.t2d/pdf/xtr /R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Writing index file R-exts.cp Cross reference values unknown; you must run TeX again. [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 493--496 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1965--1965 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [25] [26] [27] [28] [29] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2335--2335 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2337--2337 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [30] [31] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2479--2479 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2586--2588 [][][]@smallrm The changes are linked from [][]@smalltt https: / / isocpp . org / std / standing-documents / [34] [35] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2719--2719 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] [36] Overfull \hbox (2.98494pt too wide) in paragraph at lines 2862--2864 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] Overfull \hbox (53.86903pt too wide) in paragraph at lines 4729--4729 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 4731--4731 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 4732--4732 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 4747--4747 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [61] [62] [63] [64] [65] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5055--5055 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [66] [67] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5271--5271 []@texttt abs acos atan calloc ceil div exp fabs floor fmod free log malloc me mcpy[] [68] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5272--5272 []@texttt memset pow printf qsort round sin sprintf sqrt strcmp strcpy strerro r[] [69] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5369--5369 []@texttt erf expm1 fmin fmax lgamma lround loglp round snprintf strcasecmp tr unc[] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5401--5401 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [70] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5435--5435 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [71] [72] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5663--5663 []@texttt #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String )[] [73] [74] [75] Chapter 2 [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] Underfull \hbox (badness 10000) in paragraph at lines 6923--6930 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [90] [91] [92] [93] Underfull \hbox (badness 10000) in paragraph at lines 7242--7246 []@textrm As of R ver-sion 3.2.0, a num-ber of macros are de-fined in the file [94] [95] Chapter 3 [96] [97] [98] [99] [100] [101] [102] Overfull \hbox (20.69044pt too wide) in paragraph at lines 7843--7843 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [103] [104] [105] Chapter 4 [106] [107] [108] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8220--8220 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [109] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8261--8261 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [110] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8365--8365 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] [111] Overfull \hbox (38.96663pt too wide) in paragraph at lines 8395--8404 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [112] [113] [114] Overfull \hbox (44.18301pt too wide) in paragraph at lines 8672--8673 [][][]@smallrm see [][]@smalltt http: / / llvm . org / devmtg / 2014-04 / PDFs / LightningTalks / EuroLLVM%202014%20--%20container%20overflow . [115] [116] Overfull \hbox (78.17732pt too wide) in paragraph at lines 8804--8804 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 8832--8834 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] Overfull \hbox (32.18782pt too wide) in paragraph at lines 8846--8846 []@texttt signed-integer-overflow,unreachable,unsigned-integer-overflow,vla-bo und,vptr[] [117] [118] Overfull \hbox (72.42863pt too wide) in paragraph at lines 8964--8964 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [119] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9012--9012 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9015--9015 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [120] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9094--9094 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [121] [122] Chapter 5 [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10062--10062 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10111--10111 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [134] [135] [136] [137] [138] [139] [140] [141] Overfull \hbox (37.93651pt too wide) in paragraph at lines 10691--10691 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] Overfull \hbox (14.94176pt too wide) in paragraph at lines 11473--11473 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [152] Underfull \hbox (badness 10000) in paragraph at lines 11534--11536 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [153] [154] [155] [156] [157] [158] [159] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12061--12061 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [160] [161] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12184--12184 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12189--12189 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12244--12244 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [162] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12256--12256 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [163] Overfull \hbox (26.43913pt too wide) in paragraph at lines 12355--12355 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [164] [165] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12491--12491 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [166] Overfull \hbox (43.6852pt too wide) in paragraph at lines 12572--12572 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [167] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12668--12668 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] Chapter 6 [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] Underfull \hbox (badness 10000) in paragraph at lines 13828--13832 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [181] Warning: unbalanced parentheses in @def... [182] [183] Overfull \hbox (26.43913pt too wide) in paragraph at lines 14039--14039 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [184] [185] [186] [187] [188] Chapter 7 [189] [190] Chapter 8 [191] [192] [193] Overfull \hbox (43.6852pt too wide) in paragraph at lines 14795--14795 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [194] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14838--14838 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 14854--14854 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [195] [196] [197] [198] Underfull \hbox (badness 10000) in paragraph at lines 15097--15104 @texttt modules/internet/nanoftp.c[]@textrm , @texttt src/modules/internet/nan ohttp.c[] @textrm and @texttt src/ [199] [200] [201] [202] [203] Underfull \hbox (badness 10000) in paragraph at lines 15480--15484 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [204] No file R-exts.vrs. (Concept index) [205] No file R-exts.cps. [206] ) (see the transcript file for additional information)pdfTeX warning (\pdffontatt r): fonts @textsl and @defsl have conflicting attributes; I will ignore the att ributes assigned to @textsl Output written on R-exts.pdf (209 pages, 907755 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.t2d/pdf/xtr /R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.toc) (Acknowledgements) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 493--496 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1965--1965 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [25] [26] [27] [28] [29] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2335--2335 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2337--2337 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [30] [31] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2479--2479 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2586--2588 [][][]@smallrm The changes are linked from [][]@smalltt https: / / isocpp . org / std / standing-documents / [34] [35] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2719--2719 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] [36] Overfull \hbox (2.98494pt too wide) in paragraph at lines 2862--2864 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] Overfull \hbox (53.86903pt too wide) in paragraph at lines 4729--4729 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 4731--4731 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 4732--4732 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 4747--4747 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [61] [62] [63] [64] [65] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5055--5055 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [66] [67] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5271--5271 []@texttt abs acos atan calloc ceil div exp fabs floor fmod free log malloc me mcpy[] [68] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5272--5272 []@texttt memset pow printf qsort round sin sprintf sqrt strcmp strcpy strerro r[] [69] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5369--5369 []@texttt erf expm1 fmin fmax lgamma lround loglp round snprintf strcasecmp tr unc[] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5401--5401 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [70] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5435--5435 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [71] [72] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5663--5663 []@texttt #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String )[] [73] [74] [75] Chapter 2 [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] Underfull \hbox (badness 10000) in paragraph at lines 6923--6930 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [90] [91] [92] [93] Underfull \hbox (badness 10000) in paragraph at lines 7242--7246 []@textrm As of R ver-sion 3.2.0, a num-ber of macros are de-fined in the file [94] [95] Chapter 3 [96] [97] [98] [99] [100] [101] [102] Overfull \hbox (20.69044pt too wide) in paragraph at lines 7843--7843 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [103] [104] [105] Chapter 4 [106] [107] [108] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8220--8220 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [109] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8261--8261 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [110] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8365--8365 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] [111] Overfull \hbox (38.96663pt too wide) in paragraph at lines 8395--8404 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [112] [113] [114] Overfull \hbox (44.18301pt too wide) in paragraph at lines 8672--8673 [][][]@smallrm see [][]@smalltt http: / / llvm . org / devmtg / 2014-04 / PDFs / LightningTalks / EuroLLVM%202014%20--%20container%20overflow . [115] [116] Overfull \hbox (78.17732pt too wide) in paragraph at lines 8804--8804 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 8832--8834 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] Overfull \hbox (32.18782pt too wide) in paragraph at lines 8846--8846 []@texttt signed-integer-overflow,unreachable,unsigned-integer-overflow,vla-bo und,vptr[] [117] [118] Overfull \hbox (72.42863pt too wide) in paragraph at lines 8964--8964 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [119] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9012--9012 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9015--9015 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [120] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9094--9094 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [121] [122] Chapter 5 [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10062--10062 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10111--10111 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [134] [135] [136] [137] [138] [139] [140] [141] Overfull \hbox (37.93651pt too wide) in paragraph at lines 10691--10691 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] Overfull \hbox (14.94176pt too wide) in paragraph at lines 11473--11473 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [152] Underfull \hbox (badness 10000) in paragraph at lines 11534--11536 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [153] [154] [155] [156] [157] [158] [159] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12061--12061 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [160] [161] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12184--12184 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12189--12189 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12244--12244 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [162] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12256--12256 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [163] Overfull \hbox (26.43913pt too wide) in paragraph at lines 12355--12355 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [164] [165] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12491--12491 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [166] Overfull \hbox (43.6852pt too wide) in paragraph at lines 12572--12572 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [167] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12668--12668 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] Chapter 6 [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] Underfull \hbox (badness 10000) in paragraph at lines 13828--13832 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [181] Warning: unbalanced parentheses in @def... [182] [183] Overfull \hbox (26.43913pt too wide) in paragraph at lines 14039--14039 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [184] [185] [186] [187] [188] Chapter 7 [189] [190] Chapter 8 [191] [192] [193] Overfull \hbox (43.6852pt too wide) in paragraph at lines 14795--14795 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [194] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14838--14838 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 14854--14854 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [195] [196] [197] [198] Underfull \hbox (badness 10000) in paragraph at lines 15097--15104 @texttt modules/internet/nanoftp.c[]@textrm , @texttt src/modules/internet/nan ohttp.c[] @textrm and @texttt src/ [199] [200] [201] [202] [203] Underfull \hbox (badness 10000) in paragraph at lines 15480--15484 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [204] [205] [206] [207] (Concept index) [208] [209] [210] ) (see the transcript file for additional information)pdfTeX warning (\pdffontatt r): fonts @textsl and @defsl have conflicting attributes; I will ignore the att ributes assigned to @textsl < /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmss10.pfb> Output written on R-exts.pdf (217 pages, 971628 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.t2d/pdf/xtr /R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.toc) (Acknowledgements) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 493--496 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1965--1965 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [25] [26] [27] [28] [29] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2335--2335 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2337--2337 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [30] [31] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2479--2479 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [32] [33] Underfull \hbox (badness 10000) in paragraph at lines 2586--2588 [][][]@smallrm The changes are linked from [][]@smalltt https: / / isocpp . org / std / standing-documents / [34] [35] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2719--2719 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] [36] Overfull \hbox (2.98494pt too wide) in paragraph at lines 2862--2864 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] Overfull \hbox (53.86903pt too wide) in paragraph at lines 4729--4729 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 4731--4731 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 4732--4732 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 4747--4747 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [61] [62] [63] [64] [65] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5055--5055 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [66] [67] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5271--5271 []@texttt abs acos atan calloc ceil div exp fabs floor fmod free log malloc me mcpy[] [68] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5272--5272 []@texttt memset pow printf qsort round sin sprintf sqrt strcmp strcpy strerro r[] [69] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5369--5369 []@texttt erf expm1 fmin fmax lgamma lround loglp round snprintf strcasecmp tr unc[] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5401--5401 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [70] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5435--5435 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [71] [72] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5663--5663 []@texttt #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String )[] [73] [74] [75] Chapter 2 [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] Underfull \hbox (badness 10000) in paragraph at lines 6923--6930 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [90] [91] [92] [93] Underfull \hbox (badness 10000) in paragraph at lines 7242--7246 []@textrm As of R ver-sion 3.2.0, a num-ber of macros are de-fined in the file [94] [95] Chapter 3 [96] [97] [98] [99] [100] [101] [102] Overfull \hbox (20.69044pt too wide) in paragraph at lines 7843--7843 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [103] [104] [105] Chapter 4 [106] [107] [108] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8220--8220 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [109] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8261--8261 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [110] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8365--8365 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] [111] Overfull \hbox (38.96663pt too wide) in paragraph at lines 8395--8404 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [112] [113] [114] Overfull \hbox (44.18301pt too wide) in paragraph at lines 8672--8673 [][][]@smallrm see [][]@smalltt http: / / llvm . org / devmtg / 2014-04 / PDFs / LightningTalks / EuroLLVM%202014%20--%20container%20overflow . [115] [116] Overfull \hbox (78.17732pt too wide) in paragraph at lines 8804--8804 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 8832--8834 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] Overfull \hbox (32.18782pt too wide) in paragraph at lines 8846--8846 []@texttt signed-integer-overflow,unreachable,unsigned-integer-overflow,vla-bo und,vptr[] [117] [118] Overfull \hbox (72.42863pt too wide) in paragraph at lines 8964--8964 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [119] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9012--9012 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9015--9015 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [120] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9094--9094 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [121] [122] Chapter 5 [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10062--10062 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10111--10111 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [134] [135] [136] [137] [138] [139] [140] [141] Overfull \hbox (37.93651pt too wide) in paragraph at lines 10691--10691 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] Overfull \hbox (14.94176pt too wide) in paragraph at lines 11473--11473 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [152] Underfull \hbox (badness 10000) in paragraph at lines 11534--11536 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [153] [154] [155] [156] [157] [158] [159] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12061--12061 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [160] [161] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12184--12184 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12189--12189 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12244--12244 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [162] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12256--12256 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [163] Overfull \hbox (26.43913pt too wide) in paragraph at lines 12355--12355 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [164] [165] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12491--12491 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [166] Overfull \hbox (43.6852pt too wide) in paragraph at lines 12572--12572 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [167] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12668--12668 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] Chapter 6 [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] Underfull \hbox (badness 10000) in paragraph at lines 13828--13832 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [181] Warning: unbalanced parentheses in @def... [182] [183] Overfull \hbox (26.43913pt too wide) in paragraph at lines 14039--14039 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [184] [185] [186] [187] [188] Chapter 7 [189] [190] Chapter 8 [191] [192] [193] Overfull \hbox (43.6852pt too wide) in paragraph at lines 14795--14795 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [194] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14838--14838 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 14854--14854 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [195] [196] [197] [198] Underfull \hbox (badness 10000) in paragraph at lines 15097--15104 @texttt modules/internet/nanoftp.c[]@textrm , @texttt src/modules/internet/nan ohttp.c[] @textrm and @texttt src/ [199] [200] [201] [202] [203] Underfull \hbox (badness 10000) in paragraph at lines 15480--15484 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [204] [205] [206] [207] (Concept index) [208] [209] [210] ) (see the transcript file for additional information)pdfTeX warning (\pdffontatt r): fonts @textsl and @defsl have conflicting attributes; I will ignore the att ributes assigned to @textsl < /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmss10.pfb> Output written on R-exts.pdf (217 pages, 971643 bytes). Transcript written on R-exts.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-FAQ.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.t2d/pdf/xtr/ R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] [-1] Chapter 1 Cross reference values unknown; you must run TeX again. [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 3271--3279 @texttt download.file()[] @textrm func-tion), a down-load method is cho-sen bas ed on the [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (50 pages, 358555 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.t2d/pdf/xtr/ R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.toc) Chapter 1 (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.aux) [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 3271--3279 @texttt download.file()[] @textrm func-tion), a down-load method is cho-sen bas ed on the [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (52 pages, 374889 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.t2d/pdf/xtr/ R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.toc) Chapter 1 (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-FAQ.aux) [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 3271--3279 @texttt download.file()[] @textrm func-tion), a down-load method is cho-sen bas ed on the [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (52 pages, 374887 bytes). Transcript written on R-FAQ.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-intro.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.t2d/pdf/xt r/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Preface) Cross reference values unknown; you must run TeX again. Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] [38] [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5741--5741 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6447--6452 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6647--6652 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] No file R-intro.vrs. Appendix E [102] No file R-intro.cps. Appendix F [103] [104] ) (see the transcript file for additional information) Output written on R-intro.pdf (107 pages, 576054 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.t2d/pdf/xt r/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.toc) (Preface) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] [38] [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5741--5741 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6447--6452 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6647--6652 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] [102] [103] Appendix E [104] [105] Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 625716 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.t2d/pdf/xt r/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.toc) (Preface) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] [38] [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5741--5741 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6447--6452 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6647--6652 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] [102] [103] Appendix E [104] [105] Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 625787 bytes). Transcript written on R-intro.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-ints.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.t2d/pdf/xtr /R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1455--1455 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1456--1456 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1457--1457 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1458--1458 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 1983--1983 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] Chapter 7 [48] Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [49] Chapter 8 [50] [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4036--4044 @texttt CRAN . R-project . org / package=codetools[]@textrm )[][] func-tions u sed for Underfull \hbox (badness 7869) in paragraph at lines 4036--4044 @textrm an-a-lyz-ing pack-age code. E.g., use @texttt _R_CHECK_CODETOOLS_PROFI LE_ Underfull \hbox (badness 10000) in paragraph at lines 4036--4044 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] Chapter 9 [61] [62] Chapter 10 [63] Chapter 11 [64] Chapter 12 [65] [66] (Function and variable index) [67] [68] No file R-ints.vrs. (Concept index) [69] No file R-ints.cps. [70] ) (see the transcript file for additional information) Output written on R-ints.pdf (73 pages, 401177 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.t2d/pdf/xtr /R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.toc [-1] [-2]) [-3] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.toc) Chapter 1 (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1455--1455 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1456--1456 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1457--1457 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1458--1458 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 1983--1983 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] Chapter 7 [48] Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [49] Chapter 8 [50] [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4036--4044 @texttt CRAN . R-project . org / package=codetools[]@textrm )[][] func-tions u sed for Underfull \hbox (badness 7869) in paragraph at lines 4036--4044 @textrm an-a-lyz-ing pack-age code. E.g., use @texttt _R_CHECK_CODETOOLS_PROFI LE_ Underfull \hbox (badness 10000) in paragraph at lines 4036--4044 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] Chapter 9 [61] [62] Chapter 10 [63] Chapter 11 [64] Chapter 12 [65] [66] (Function and variable index) [67] [68] [69] (Concept index) [70] [71] ) (see the transcript file for additional information) Output written on R-ints.pdf (76 pages, 451712 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.t2d/pdf/xtr /R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.toc [-1] [-2]) [-3] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.toc) Chapter 1 (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1455--1455 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1456--1456 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1457--1457 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1458--1458 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 1983--1983 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] Chapter 7 [48] Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3631--3640 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [49] Chapter 8 [50] [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4036--4044 @texttt CRAN . R-project . org / package=codetools[]@textrm )[][] func-tions u sed for Underfull \hbox (badness 7869) in paragraph at lines 4036--4044 @textrm an-a-lyz-ing pack-age code. E.g., use @texttt _R_CHECK_CODETOOLS_PROFI LE_ Underfull \hbox (badness 10000) in paragraph at lines 4036--4044 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] Chapter 9 [61] [62] Chapter 10 [63] Chapter 11 [64] Chapter 12 [65] [66] (Function and variable index) [67] [68] [69] (Concept index) [70] [71] ) (see the transcript file for additional information) Output written on R-ints.pdf (76 pages, 451717 bytes). Transcript written on R-ints.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-lang.texi This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-lang.t2d/pdf/xtr /R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-lang.cp Chapter 2 [1] [2] Cross reference values unknown; you must run TeX again. Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] No file R-lang.vrs. (Concept Index) [60] No file R-lang.cps. Appendix A [61] [62] ) (see the transcript file for additional information) Output written on R-lang.pdf (65 pages, 329929 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-lang.t2d/pdf/xtr /R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-lang.toc [-1] [-2]) [-3] (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-lang.toc) (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-lang.toc) Chapter 1 (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] [60] (Concept Index) [61] [62] Overfull \vbox (1.73251pt too high) has occurred while \output is active Overfull \vbox (1.73251pt too high) has occurred while \output is active Appendix A [63] [64] ) (see the transcript file for additional information) Output written on R-lang.pdf (69 pages, 379003 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.14159265-2.6-1.40.19 (TeX Live 2019/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/R-lang.t2d/pdf/xtr /R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2018-01-09.11]: pdf, fonts, markup, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) 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Transcript written on R-lang.log. make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' /usr/bin/make -k pdf make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' PDF/LaTeX documentation: full reference index ... 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(/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] Underfull \hbox (badness 6995) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 -x != 1\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1/pt m/m/n/10 if \T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.rounding \T1/ptm/m/n/10 is 0; oth- er-wise, it is \T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2\T1/ptm/m/n/10 . Nor-mally \T1/zi4/m /n/10 1.110223e-16\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.neg.ulp.digits \T1/ptm/m/n/10 is bounded be-low by \T1/zi 4/m/n/10 -(double.digits + 3)\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1178--1181 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1953--1953 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] [34] [35] [36] [37] Underfull \hbox (badness 10000) in paragraph at lines 2389--2391 []\T1/ptm/m/n/10 The val-ues of the splits can also be ob-tained (less ef-fi-ci ently) by Underfull \hbox (badness 10000) in paragraph at lines 2392--2397 [][][]\T1/zi4/m/n/10 apply[][][] \T1/ptm/m/n/10 al-ways sim-pli-fies com-mon le ngth re-sults, so at-tempt-ing to split via Underfull \hbox (badness 1102) in paragraph at lines 2392--2397 \T1/zi4/m/n/10 apply(x,MARGIN,identity) \T1/ptm/m/n/10 does not work (as it sim -ply gives \T1/zi4/m/n/10 x\T1/ptm/m/n/10 ). By chain-ing \T1/zi4/m/n/10 asplit [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 10000) in paragraph at lines 3771--3773 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [60] [61] [62] Overfull \hbox (6.42029pt too wide) in paragraph at lines 4012--4012 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] Underfull \hbox (badness 2521) in paragraph at lines 5019--5021 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6175--6175 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [97] [98] [99] [100] [101] [102] Overfull \hbox (46.35893pt too wide) in paragraph at lines 6584--6586 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult","internal","wininet","libcurl")\T1/ptm/m/n/10 : [103] [104] Underfull \hbox (badness 10000) in paragraph at lines 6732--6735 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [105] [106] Underfull \hbox (badness 6063) in paragraph at lines 6914--6920 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- Underfull \hbox (badness 2343) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 move a Byte Or-der Mark if present (which it of-ten is for files and web-pages gen-er- Underfull \hbox (badness 1708) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 ated by Mi-crosoft ap-pli-ca-tions). If a BOM is re-quired (it i s not rec-om-mended) when Underfull \hbox (badness 1831) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 writ-ing it should be writ-ten ex-plic-itly, e.g. by \T1/zi4/m/n /10 writeChar("\ufeff",con,eos = NULL) \T1/ptm/m/n/10 or [107] Underfull \hbox (badness 3568) in paragraph at lines 6976--6983 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [108] [109] Underfull \vbox (badness 10000) has occurred while \output is active [110] Underfull \vbox (badness 10000) has occurred while \output is active [111] [112] Underfull \hbox (badness 1077) in paragraph at lines 7293--7299 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7293--7299 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [113] [114] [115] [116] [117] [118] Underfull \hbox (badness 2096) in paragraph at lines 7634--7638 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [119] [120] Underfull \hbox (badness 2351) in paragraph at lines 7752--7755 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [121] [122] [123] [124] [125] Underfull \hbox (badness 4479) in paragraph at lines 8078--8088 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 1629) in paragraph at lines 8525--8537 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 1609) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 there is a prob-lem in the POSIX/C99 stan-dard with \T1/zi4/m/n/ 10 "1969-12-31 23:59:59 UTC"\T1/ptm/m/n/10 , which Underfull \hbox (badness 2426) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 is \T1/zi4/m/n/10 -1 \T1/ptm/m/n/10 in cal-en-dar time and that value is on those OSes also used as an er-ror code. [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] Underfull \hbox (badness 1178) in paragraph at lines 9260--9264 []\T1/ptm/m/n/10 If true, [][]\T1/zi4/m/n/10 list[][][]\T1/ptm/m/n/10 s and ato mic vec-tors with non-[][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 names (see [][ ]\T1/zi4/m/n/10 names[][][]\T1/ptm/m/n/10 ) are de- [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] Underfull \hbox (badness 1735) in paragraph at lines 10408--10412 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [161] [162] [163] [164] [165] [166] [167] Underfull \hbox (badness 6396) in paragraph at lines 10847--10855 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 1946) in paragraph at lines 10847--10855 \T1/zi4/m/n/10 duplicated \T1/ptm/m/n/10 and \T1/zi4/m/n/10 anyDuplicated\T1/pt m/m/n/10 , \T1/zi4/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al- ized'' short-cut for [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] Underfull \hbox (badness 4569) in paragraph at lines 11963--11967 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11963--11967 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] Underfull \hbox (badness 2253) in paragraph at lines 13626--13628 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [210] Underfull \hbox (badness 1565) in paragraph at lines 13697--13701 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [211] Underfull \hbox (badness 4927) in paragraph at lines 13741--13743 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with \T1/zi4 /m/n/10 fsep = [212] Underfull \hbox (badness 3148) in paragraph at lines 13834--13839 [][][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[ ][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 help[][][]\T1/ptm/m/n/10 ; [][]\T1/zi4 /m/n/10 RShowDoc[][][] \T1/ptm/m/n/10 call \T1/zi4/m/n/10 file.show() \T1/ptm/m /n/10 for \T1/zi4/m/n/10 type = "text"\T1/ptm/m/n/10 . Con-sider [213] Underfull \hbox (badness 1466) in paragraph at lines 13881--13884 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 14000--14004 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14011--14014 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [216] [217] [218] [219] Underfull \hbox (badness 3965) in paragraph at lines 14301--14305 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] [230] [231] [232] Underfull \hbox (badness 4429) in paragraph at lines 15076--15079 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [233] [234] Underfull \hbox (badness 10000) in paragraph at lines 15198--15202 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so Underfull \hbox (badness 2426) in paragraph at lines 15198--15202 \T1/zi4/m/n/10 formatC(c(6.11,13.1),digits = 2,format = "fg") \T1/ptm/m/n/10 gi ves \T1/zi4/m/n/10 c("6.1"," 13")\T1/ptm/m/n/10 . If you want Underfull \hbox (badness 2035) in paragraph at lines 15237--15241 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use within [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] Underfull \hbox (badness 2452) in paragraph at lines 15829--15833 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15829--15833 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [245] [246] [247] Underfull \hbox (badness 1092) in paragraph at lines 16002--16007 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [248] [249] [250] Underfull \hbox (badness 6741) in paragraph at lines 16252--16256 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [251] [252] [253] [254] [255] [256] [257] [258] [259] Underfull \vbox (badness 3803) has occurred while \output is active [260] Underfull \vbox (badness 10000) has occurred while \output is active [261] [262] [263] [264] [265] [266] [267] [268] [269] [270] Underfull \hbox (badness 1478) in paragraph at lines 17541--17544 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [271] [272] [273] [274] Underfull \hbox (badness 10000) in paragraph at lines 17796--17798 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [275] [276] [277] [278] [279] [280] [281] [282] [283] Underfull \hbox (badness 1442) in paragraph at lines 18396--18398 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [284] Underfull \hbox (badness 2452) in paragraph at lines 18488--18504 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [285] [286] [287] [288] [289] [290] [291] Underfull \hbox (badness 1248) in paragraph at lines 18907--18910 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [292] [293] [294] [295] Underfull \hbox (badness 4739) in paragraph at lines 19165--19167 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [296] [297] [298] [299] [300] [301] Underfull \hbox (badness 1596) in paragraph at lines 19584--19589 \T1/ptm/m/n/10 trix or, if \T1/zi4/m/n/10 simplify = "array"\T1/ptm/m/n/10 , an ar-ray if ap-pro-pri-ate, by ap-ply-ing \T1/zi4/m/n/10 simplify2array()\T1/ptm /m/n/10 . [302] [303] [304] [305] [306] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 2469) in paragraph at lines 20188--20193 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 20202--20209 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [313] Underfull \hbox (badness 10000) in paragraph at lines 20276--20280 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20276--20280 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [314] [315] Underfull \hbox (badness 1014) in paragraph at lines 20446--20451 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [316] [317] [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] Underfull \hbox (badness 1264) in paragraph at lines 21235--21240 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [328] Underfull \hbox (badness 4441) in paragraph at lines 21264--21267 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] Underfull \hbox (badness 6047) in paragraph at lines 22011--22013 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that \T1/zi4/m/n/10 make.unique(c(A,B)) == [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] [354] [355] [356] Underfull \hbox (badness 1077) in paragraph at lines 23052--23058 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [357] [358] [359] [360] [361] [362] [363] [364] [365] Underfull \hbox (badness 2790) in paragraph at lines 23548--23551 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23548--23551 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [366] [367] [368] [369] Underfull \hbox (badness 1194) in paragraph at lines 23830--23833 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [370] [371] [372] Underfull \hbox (badness 2368) in paragraph at lines 24036--24042 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing list, i.e., Underfull \hbox (badness 4981) in paragraph at lines 24036--24042 \T1/zi4/m/n/10 names(as.list(env,all.names = TRUE)) \T1/ptm/m/n/10 which are al so given by [][]\T1/zi4/m/n/10 ls[][][](env,all.names = [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 10000) in paragraph at lines 24418--24421 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [379] [380] [381] [382] [383] [384] [385] [386] [387] Underfull \hbox (badness 10000) in paragraph at lines 25023--25025 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than \T1/zi4/m/n/10 pkg %in% [388] [389] [390] [391] [392] [393] [394] [395] [396] [397] [398] [399] [400] Underfull \hbox (badness 1038) in paragraph at lines 25863--25871 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 1735) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set from value of the en-vi-ron-ment vari-able \T1/zi4/m/n/10 R_ DEFAULT_PACKAGES\T1/ptm/m/n/10 , or if that is un- Underfull \hbox (badness 1292) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set to \T1/zi4/m/n/10 c("datasets","utils","grDevices","graphics ","stats","methods")\T1/ptm/m/n/10 . (Set Underfull \hbox (badness 1881) in paragraph at lines 25872--25875 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25891--25893 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [401] [402] Underfull \hbox (badness 2142) in paragraph at lines 26032--26036 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 26082--26087 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 26383--26386 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 26409--26411 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 26444--26449 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 in-di-rectly [][]\T1/zi4/m/n/10 update.packages[][][]\T1/ptm/m/n /10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi4/m /n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use and [407] Underfull \hbox (badness 7203) in paragraph at lines 26462--26465 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 26486--26491 []\T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN ma -cOS build), Underfull \hbox (badness 2057) in paragraph at lines 26486--26491 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 10000) in paragraph at lines 27004--27007 []\T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 str2lang(s ) \T1/ptm/m/n/10 re-turn spe-cial ver-sions of [416] Underfull \hbox (badness 7925) in paragraph at lines 27083--27087 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 vec-to r \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n /10 cor-re-sponds to Underfull \hbox (badness 1622) in paragraph at lines 27083--27087 [][]\T1/zi4/m/n/10 parse[][][](text = s,keep.source=FALSE)\T1/ptm/m/n/10 , whic h is al-ways of type ([][]\T1/zi4/m/n/10 typeof[][][]\T1/ptm/m/n/10 ) and [][]\ T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 6125) in paragraph at lines 27088--27097 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 string \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2lang(s) \T1/ptm/m/n/10 cor -re-sponds to [][]\T1/zi4/m/n/10 parse[][][](text = [417] [418] [419] [420] [421] [422] [423] [424] [425] [426] [427] Underfull \hbox (badness 2726) in paragraph at lines 27809--27812 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] Underfull \vbox (badness 3803) has occurred while \output is active [446] [447] [448] [449] [450] [451] [452] [453] Underfull \hbox (badness 1533) in paragraph at lines 29500--29503 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [454] [455] [456] Underfull \hbox (badness 1163) in paragraph at lines 29663--29674 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] Underfull \hbox (badness 10000) in paragraph at lines 31209--31213 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 31209--31213 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. Underfull \hbox (badness 6188) in paragraph at lines 31231--31233 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [481] [482] [483] [484] [485] [486] [487] [488] [489] Underfull \hbox (badness 1655) in paragraph at lines 31787--31789 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] [504] [505] [506] Underfull \hbox (badness 2261) in paragraph at lines 32906--32911 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [507] Underfull \hbox (badness 10000) in paragraph at lines 32933--32939 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1484) in paragraph at lines 32933--32939 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions like [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] [550] [551] [552] [553] [554] [555] Underfull \hbox (badness 1072) in paragraph at lines 36075--36079 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 36080--36084 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 36120--36127 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [556] [557] [558] [559] [560] [561] Underfull \hbox (badness 1142) in paragraph at lines 36473--36479 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is \T1/zi4/m/n/10 "%Y-%m-%d [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] Underfull \hbox (badness 1565) in paragraph at lines 37746--37748 []\T1/ptm/m/n/10 integer code used in \T1/zi4/m/n/10 quantile(*,type=quantile.t ype) \T1/ptm/m/n/10 for the de-fault [582] [583] [584] [585] [586] [587] [588] [589] [590] [591] Underfull \hbox (badness 4967) in paragraph at lines 38345--38350 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [592] [593] Underfull \hbox (badness 1616) in paragraph at lines 38458--38463 \T1/zi4/m/n/10 system("id") \T1/ptm/m/n/10 is much more portable on Unix-alikes , pro-vided only the POSIX op-tions [594] [595] [596] [597] Underfull \vbox (badness 10000) has occurred while \output is active [598] [599] [600] [601] [602] Underfull \hbox (badness 1472) in paragraph at lines 38984--38987 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [603] [604] [605] [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] Underfull \vbox (badness 3803) has occurred while \output is active [616] Underfull \hbox (badness 10000) in paragraph at lines 39898--39902 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., \T1/zi4/m/n/10 length(bin) > [617] [618] [619] [620] Underfull \hbox (badness 10000) in paragraph at lines 40149--40152 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [621] [622] [623] Underfull \hbox (badness 10000) in paragraph at lines 40333--40337 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [624] [625] [626] [627] [628] [629] [630] [631] [632] Underfull \hbox (badness 10000) in paragraph at lines 40946--40949 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [633] [634] [635] [636] [637] [638] Underfull \vbox (badness 10000) has occurred while \output is active [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 1990) in paragraph at lines 41849--41857 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41849--41857 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [647] [648] [649] [650] [651] [652] [653] [654] Underfull \hbox (badness 1917) in paragraph at lines 42355--42362 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 3668) in paragraph at lines 43084--43086 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [666] [667] Underfull \hbox (badness 2401) in paragraph at lines 43212--43216 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [668] [669] [670] Underfull \hbox (badness 2111) in paragraph at lines 43401--43406 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 10000) in paragraph at lines 43422--43427 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [671] [672] [673] [674] [675] [676] [677] [678] [679] Underfull \hbox (badness 5417) in paragraph at lines 44004--44008 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [680] Underfull \hbox (badness 10000) in paragraph at lines 44065--44069 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [681] [682]) (./compiler-pkg.tex Chapter 2. [683] [684] [685] [686]) (./datasets-pkg.tex Chapter 3. [687] [688] [689] [690] [691] [692] [693] [694] [695] [696] [697] [698] [699] [700] [701] [702] [703] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] Underfull \vbox (badness 1448) has occurred while \output is active [727] [728] [729] [730] [731] [732] [733] [734] [735] [736] [737] [738] Overfull \vbox (19.74611pt too high) has occurred while \output is active [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] Underfull \vbox (badness 10000) has occurred while \output is active [755] [756] [757] [758] Underfull \vbox (badness 10000) has occurred while \output is active [759] [760] [761] [762] [763] [764] Overfull \vbox (18.9959pt too high) has occurred while \output is active [765] [766] [767]) (./grDevices-pkg.tex [768] Chapter 4. [769] [770] [771] [772] [773] Underfull \hbox (badness 3158) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, \T1/zi4/m/n/10 c(mi,ma,n.)\T1/ptm /m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][]\T1/zi4/m/n/10 axisTicks[][][]() \T1/ptm/ m/n/10 just calls the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/ptm/m/n/1 0 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \hbox (badness 5175) in paragraph at lines 1120--1122 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [787] [788] [789] [790] Underfull \hbox (badness 1852) in paragraph at lines 1322--1325 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [791] [792] [793] Underfull \hbox (badness 1490) in paragraph at lines 1528--1533 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [794] [795] [796] [797] [798] [799] Underfull \hbox (badness 1325) in paragraph at lines 1934--1944 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [800] [801] Underfull \hbox (badness 10000) in paragraph at lines 2046--2048 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [802] [803] [804] Underfull \hbox (badness 6758) in paragraph at lines 2224--2227 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] Underfull \hbox (badness 10000) in paragraph at lines 2828--2829 [815] [816] [817] [818] [819] [820] [821] [822] [823] Underfull \hbox (badness 10000) in paragraph at lines 3384--3389 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [824] [825] [826] [827] [828] Underfull \vbox (badness 10000) has occurred while \output is active [829] Underfull \hbox (badness 10000) in paragraph at lines 3785--3788 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as [830] [831] [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 10000) in paragraph at lines 4514--4519 [][][]$\T1/zi4/m/n/10 https : / / www . adobe . com / content / dam / acom / en / devnet / actionscript / articles / PLRM . pdf$[][] Underfull \hbox (badness 4181) in paragraph at lines 4514--4519 \T1/ptm/m/n/10 or PDF [][]$\T1/zi4/m/n/10 https : / / www . adobe . com / devne t / acrobat / pdfs / pdf _ reference _ 1-[]7 . pdf$[][] \T1/ptm/m/n/10 and in [841] Underfull \vbox (badness 10000) has occurred while \output is active [842] [843] Underfull \hbox (badness 1067) in paragraph at lines 4668--4675 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [844] [845] [846] [847] Underfull \hbox (badness 1377) in paragraph at lines 4971--4976 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [848] Underfull \hbox (badness 1418) in paragraph at lines 5047--5054 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 1755) in paragraph at lines 5065--5067 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [849] [850] Underfull \hbox (badness 1377) in paragraph at lines 5176--5181 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [851] Underfull \hbox (badness 7344) in paragraph at lines 5245--5247 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [852] [853] Underfull \hbox (badness 2035) in paragraph at lines 5380--5389 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [854] Underfull \hbox (badness 10000) in paragraph at lines 5448--5455 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5448--5455 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [855] [856] [857] Underfull \hbox (badness 1546) in paragraph at lines 5590--5598 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [858] [859] [860] [861] [862] [863] [864] [865] Underfull \hbox (badness 10000) in paragraph at lines 6125--6128 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \hbox (badness 1189) in paragraph at lines 6947--6949 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [879] Underfull \hbox (badness 10000) in paragraph at lines 7045--7047 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [880] [881] [882] [883] [884] Underfull \hbox (badness 3780) in paragraph at lines 7345--7351 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [885] [886] [887] Underfull \hbox (badness 2680) in paragraph at lines 7546--7548 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [888] [889] [890]) (./graphics-pkg.tex Chapter 5. [891] [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] Underfull \hbox (badness 4634) in paragraph at lines 1349--1352 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] Underfull \hbox (badness 1009) in paragraph at lines 2388--2395 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] [945] [946] [947] [948] [949] [950] [951] [952] Underfull \vbox (badness 10000) has occurred while \output is active [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 3229) in paragraph at lines 4532--4537 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [966] [967] [968] [969] [970] Underfull \hbox (badness 10000) in paragraph at lines 4889--4895 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width,height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4889--4895 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [971] Underfull \hbox (badness 10000) in paragraph at lines 5020--5023 [972] Underfull \hbox (badness 10000) in paragraph at lines 5081--5083 [973 ] [974 ] [975] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [976] Underfull \vbox (badness 3803) has occurred while \output is active [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6749--6750 [][] [999] [1000 ] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] Underfull \hbox (badness 2012) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i],y0[i]) \T1/ptm/m/n/10 and the poi nt [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] Underfull \hbox (badness 10000) in paragraph at lines 8834--8836 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8836--8838 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1034]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8916 \HeaderA{units}{Graphical Units}{units} [1035] [1036] [1037] [1038]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] Underfull \hbox (badness 2680) in paragraph at lines 483--486 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Underfull \hbox (badness 4279) in paragraph at lines 1064--1073 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] Underfull \vbox (badness 10000) has occurred while \output is active [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 1067) in paragraph at lines 4486--4489 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1115] [1116] [1117] [1118] Underfull \hbox (badness 7256) in paragraph at lines 4731--4733 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] Underfull \hbox (badness 1824) in paragraph at lines 6535--6538 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like \T1/zi4/m/n/10 depth [1150] [1151] [1152] [1153]) (./methods-pkg.tex [1154] Chapter 7. [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] Underfull \vbox (badness 3803) has occurred while \output is active [1163] Underfull \vbox (badness 10000) has occurred while \output is active [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] Underfull \hbox (badness 2181) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x,"refClass") \T1/ptm/m/n/10 tests [1182] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1183] [1184] [1185] Underfull \hbox (badness 2213) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1191] [1192] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1193] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1194] [1195] [1196] [1197] [1198] [1199] [1200] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1201] [1202] [1203] [1204] [1205] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1206] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1207] Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <-setClass("Pos",slots = c(latitude = "numeric",longitude = "numeric",altitude [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] Underfull \vbox (badness 10000) has occurred while \output is active [1229] [1230] [1231] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1232] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1233] [1234] [1235] [1236] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1245] [1246] [1247] [1248] Underfull \vbox (badness 10000) has occurred while \output is active [1249] [1250] [1251] [1252]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1253] [1254] [1255]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1256] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1257] [1258] [1259] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \vbox (badness 10000) has occurred while \output is active [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] Underfull \hbox (badness 1137) in paragraph at lines 10011--10019 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form \T1/zi4/m/n/10 ne w("signature",functionDef,...)\T1/ptm/m/n/10 . The [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1302] [1303] [1304] [1305]) (./parallel-pkg.tex [1306] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] Underfull \hbox (badness 3386) in paragraph at lines 1365--1368 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1328] [1329] [1330]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346]) (./stats-pkg.tex Chapter 10. [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 1412) in paragraph at lines 875--877 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] Underfull \hbox (badness 2503) in paragraph at lines 1356--1359 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1369] [1370] [1371] Underfull \hbox (badness 10000) in paragraph at lines 1536--1540 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov","lm") \T1/ptm/m/n/1 0 or for mul-ti-ple re-sponses of class [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] [1401] Underfull \hbox (badness 2503) in paragraph at lines 3435--3438 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] Underfull \hbox (badness 1127) in paragraph at lines 4349--4352 []\T1/ptm/m/n/10 standardized resid-u-als, \T1/zi4/m/n/10 (observed -expected) / sqrt(V)\T1/ptm/m/n/10 , where \T1/zi4/m/n/10 V \T1/ptm/m/n/10 is the [1417] [1418] [1419] [1420] [1421] Underfull \hbox (badness 3989) in paragraph at lines 4679--4686 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] Underfull \hbox (badness 2556) in paragraph at lines 5315--5318 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5332--5334 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1432] [1433] [1434] [1435] [1436] [1437] [1438] Underfull \hbox (badness 2503) in paragraph at lines 5724--5728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] Underfull \hbox (badness 7081) in paragraph at lines 6518--6521 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6522--6524 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1452] [1453] [1454] [1455] [1456] Underfull \vbox (badness 3803) has occurred while \output is active [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 10000) in paragraph at lines 7367--7370 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \vbox (badness 10000) has occurred while \output is active [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2626) in paragraph at lines 9044--9047 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 9151--9155 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] Underfull \hbox (badness 4518) in paragraph at lines 10461--10466 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 2142) in paragraph at lines 10821--10824 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10840--10843 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1519] Underfull \hbox (badness 1708) in paragraph at lines 10902--10906 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1520] [1521] [1522] [1523] [1524] [1525] Underfull \hbox (badness 1694) in paragraph at lines 11298--11301 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1526] [1527] [1528] [1529] [1530] [1531] Underfull \hbox (badness 10000) in paragraph at lines 11625--11628 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of Underfull \hbox (badness 1281) in paragraph at lines 11625--11628 \T1/zi4/m/n/10 qhyper(runif(nn),m,n,k) \T1/ptm/m/n/10 is used, when a bi-no-mia l ap-prox-i-ma-tion may be con-sid-er-ably [1532] [1533]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.hat}) has been already used, duplicate ignored \relax l.11779 \aliasA{hat}{influence.measures}{hat} [1534] [1535] Underfull \hbox (badness 1484) in paragraph at lines 11914--11916 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1536] [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] Underfull \hbox (badness 10000) in paragraph at lines 12507--12509 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when \T1/zi4/m/n/10 SSinit = [1546] [1547] [1548] [1549] [1550] [1551] Underfull \hbox (badness 2894) in paragraph at lines 12843--12847 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] Underfull \hbox (badness 4518) in paragraph at lines 13593--13598 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] Underfull \hbox (badness 4518) in paragraph at lines 14245--14250 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1574] [1575] Underfull \hbox (badness 8151) in paragraph at lines 14383--14387 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = "interp olate",statistics = Underfull \hbox (badness 1199) in paragraph at lines 14390--14392 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] Underfull \hbox (badness 2503) in paragraph at lines 15461--15465 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 4621) in paragraph at lines 15973--15979 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(,"offset") \T1/ ptm/m/n/10 and [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] Underfull \vbox (badness 10000) has occurred while \output is active [1630] Underfull \vbox (badness 10000) has occurred while \output is active [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] Underfull \hbox (badness 1377) in paragraph at lines 18567--18572 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18572--18575 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on [1644] Underfull \hbox (badness 2343) in paragraph at lines 18585--18589 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18585--18589 \T1/ptm/m/n/10 the value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18593--18597 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1645] [1646] [1647] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18818--18818 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18821--18821 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] Underfull \vbox (badness 10000) has occurred while \output is active [1648] [1649] [1650] [1651] [1652] [1653] [1654] Underfull \hbox (badness 1337) in paragraph at lines 19243--19246 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] Underfull \hbox (badness 3049) in paragraph at lines 19739--19743 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1664] [1665] [1666] [1667] Underfull \hbox (badness 1194) in paragraph at lines 19997--20000 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1668] [1669] [1670] [1671] [1672] [1673] [1674] Underfull \hbox (badness 2503) in paragraph at lines 20372--20375 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 20399--20401 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or \T1/zi4/m/n/10 "Comparison of Poisson [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] [1691] [1692] Underfull \hbox (badness 10000) in paragraph at lines 21476--21482 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] Underfull \hbox (badness 1337) in paragraph at lines 22823--22829 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23388--23388 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 10000) in paragraph at lines 23639--23642 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 4205) in paragraph at lines 23639--23642 \T1/zi4/m/n/10 cutree(hclust.obj,k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1729] [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] Underfull \hbox (badness 10000) in paragraph at lines 24224--24227 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x,k) \T1/ptm/m/n/10 sim-ply has \T1/zi4/m/n/10 y[j] = [1738] Underfull \hbox (badness 3690) in paragraph at lines 24276--24280 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] Underfull \hbox (badness 2165) in paragraph at lines 24753--24758 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1747] [1748] [1749] [1750] Underfull \hbox (badness 1867) in paragraph at lines 24958--24960 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24971--24975 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <-[][]nobs[][][](object,use.fallback = u se.fallback) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 PP [1751] [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \vbox (badness 3803) has occurred while \output is active [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] Underfull \vbox (badness 10000) has occurred while \output is active [1774] [1775] Underfull \hbox (badness 3514) in paragraph at lines 26510--26515 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1776] [1777] [1778] [1779] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26744--26744 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 26780--26786 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1780] [1781] [1782] [1783] Underfull \hbox (badness 3514) in paragraph at lines 26994--26999 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1784] [1785] Underfull \hbox (badness 3514) in paragraph at lines 27081--27086 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1786] Underfull \hbox (badness 3514) in paragraph at lines 27146--27151 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1787] [1788] Underfull \hbox (badness 3514) in paragraph at lines 27240--27245 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1789] Underfull \hbox (badness 6691) in paragraph at lines 27332--27337 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 4024) in paragraph at lines 27862--27865 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 5431) in paragraph at lines 28468--28470 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1809] [1810] [1811] Underfull \hbox (badness 5431) in paragraph at lines 28678--28681 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1812] [1813] [1814] [1815] [1816] [1817] Underfull \hbox (badness 1337) in paragraph at lines 28992--28996 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1818] [1819] [1820] [1821] [1822] Underfull \hbox (badness 1616) in paragraph at lines 29294--29297 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] [1840] [1841] Underfull \hbox (badness 3557) in paragraph at lines 30424--30428 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect \T1/zi4 /m/n/10 interval = [1842] [1843] [1844] Underfull \vbox (badness 10000) has occurred while \output is active [1845] [1846] [1847] Underfull \hbox (badness 1337) in paragraph at lines 30788--30792 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1848] [1849] [1850] [1851] [1852] [1853] [1854] [1855] [1856] Underfull \hbox (badness 1337) in paragraph at lines 31315--31319 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866]) (./stats4-pkg.tex Chapter 11. [1867] [1868] [1869] [1870] [1871] [1872]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1873] [1874] [1875]) (./tcltk-pkg.tex [1876] Chapter 12. [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] Underfull \vbox (badness 10000) has occurred while \output is active [1885] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1886] [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897]) (./tools-pkg.tex [1898] Chapter 13. [1899] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1900] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1901] [1902] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1903] [1904] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1905] [1906] [1907] [1908] [1909] [1910] [1911] [1912] [1913] [1914] [1915] [1916] Underfull \hbox (badness 4441) in paragraph at lines 1139--1149 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1917] Underfull \hbox (badness 1014) in paragraph at lines 1163--1165 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1169--1171 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1918] Underfull \hbox (badness 10000) in paragraph at lines 1206--1209 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1206--1209 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1919] [1920] [1921] [1922] [1923] Underfull \hbox (badness 2293) in paragraph at lines 1558--1560 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1924] [1925] Underfull \hbox (badness 7981) in paragraph at lines 1696--1701 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1703--1705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1926] [1927] [1928] [1929]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1900 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1930] [1931] [1932] [1933] [1934] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2202--2202 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1935] [1936] [1937] Underfull \hbox (badness 7981) in paragraph at lines 2371--2377 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1938] [1939] [1940] [1941] [1942] [1943] [1944] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2837. [1945] [1946] [1947] [1948] Underfull \hbox (badness 1424) in paragraph at lines 3119--3121 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1949] [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] Underfull \hbox (badness 10000) in paragraph at lines 3823--3825 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1961] [1962] Underfull \hbox (badness 10000) in paragraph at lines 3962--3965 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1963] [1964] Underfull \hbox (badness 1137) in paragraph at lines 4064--4066 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1965] [1966] [1967] [1968] [1969] Underfull \hbox (badness 1796) in paragraph at lines 4372--4377 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over \T 1/zi4/m/sl/10 write_PACKAGES \T1/ptm/m/n/10 in the \T1/zi4/m/sl/10 type == [1970] Underfull \hbox (badness 1838) in paragraph at lines 4446--4452 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4446--4452 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1971] [1972] [1973] Underfull \hbox (badness 2197) in paragraph at lines 4662--4672 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : [1974] Underfull \hbox (badness 1571) in paragraph at lines 4725--4729 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1975] [1976] [1977]) (./utils-pkg.tex [1978] Chapter 14. [1979] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1980] [1981] [1982] [1983] [1984] Underfull \hbox (badness 10000) in paragraph at lines 376--381 \T1/zi4/m/sl/10 c("vertical","horizontal","cascade","minimize","restore") \T1/p tm/m/n/10 with [1985] [1986] [1987] [1988] [1989] Underfull \hbox (badness 10000) in paragraph at lines 717--723 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 717--723 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1990] [1991] Underfull \hbox (badness 5847) in paragraph at lines 850--856 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 850--856 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1992] Underfull \hbox (badness 3861) in paragraph at lines 918--923 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1993] [1994] Underfull \hbox (badness 3323) in paragraph at lines 1089--1097 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use \T1/zi4/m/sl/1 0 bibtex = T|F \T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m$\T1 /ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 3735) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x",1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by [1995] Underfull \hbox (badness 10000) in paragraph at lines 1101--1103 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1996] [1997] Underfull \vbox (badness 3803) has occurred while \output is active [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1371) in paragraph at lines 1606--1608 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2003] [2004] [2005] [2006] [2007] [2008] [2009] [2010] [2011] [2012] Underfull \hbox (badness 2057) in paragraph at lines 2215--2217 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [2013] [2014] [2015] [2016] [2017] [2018]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2566 ... the Clipboard in MS Windows}{clipboard} [2019] [2020] Underfull \hbox (badness 1748) in paragraph at lines 2733--2736 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [2021] [2022] [2023] [2024] [2025] [2026] [2027] Underfull \hbox (badness 5388) in paragraph at lines 3142--3146 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[][][](...,header = Underfull \hbox (badness 2285) in paragraph at lines 3147--3150 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](...,header = TRUE,sep = [2028] [2029] [2030] [2031] [2032] [2033] [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1430) in paragraph at lines 3906--3914 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2039] Underfull \hbox (badness 1231) in paragraph at lines 3983--3995 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2040] [2041] Underfull \hbox (badness 10000) in paragraph at lines 4143--4145 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2042] [2043] [2044] [2045] [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1622) in paragraph at lines 5360--5364 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] Underfull \hbox (badness 1371) in paragraph at lines 5996--5998 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2072] Underfull \hbox (badness 1502) in paragraph at lines 6085--6090 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6085--6090 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 6258--6267 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2076] Underfull \hbox (badness 2150) in paragraph at lines 6322--6325 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2077] [2078] Underfull \hbox (badness 3118) in paragraph at lines 6460--6462 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2079] [2080] [2081] Underfull \hbox (badness 1325) in paragraph at lines 6632--6636 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able Underfull \hbox (badness 4726) in paragraph at lines 6644--6650 \T1/ptm/m/n/10 used if \T1/zi4/m/sl/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of [2082] Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 \T1/ptm/m/n/10 passed to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g., [2083] Underfull \hbox (badness 3219) in paragraph at lines 6792--6799 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 6792--6799 [][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")\T1/ ptm/m/n/10 . \T1/zi4/m/sl/10 type = "both" \T1/ptm/m/n/10 will be silently Underfull \hbox (badness 2932) in paragraph at lines 6800--6803 []\T1/ptm/m/n/10 Using pack-ages with \T1/zi4/m/sl/10 type = "source" \T1/ptm/m /n/10 al-ways works pro-vided the pack-age con-tains no [2084] Underfull \hbox (badness 10000) in paragraph at lines 6934--6939 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2085] [2086] [2087] [2088] [2089] [2090] [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 8434--8436 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 2310) in paragraph at lines 8456--8461 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2110] [2111] [2112] [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1248) in paragraph at lines 8980--8984 []\T1/zi4/m/sl/10 R CMD build \T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/m/ n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2118] Underfull \hbox (badness 1789) in paragraph at lines 9058--9060 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] Underfull \vbox (badness 10000) has occurred while \output is active [2129] [2130] [2131] Underfull \hbox (badness 1097) in paragraph at lines 9895--9898 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2132] [2133] Underfull \hbox (badness 3000) in paragraph at lines 10031--10036 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2134] [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 2134) in paragraph at lines 10614--10619 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 \T1/zi4/m/sl/10 HKEY_LOCAL_MACHINE\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 HKEY_CLASSES _ROOT\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 HKEY_CURRENT_USER\T1/ptm/m/n/10 , [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] Underfull \hbox (badness 2469) in paragraph at lines 11163--11167 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11163--11167 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . 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LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning 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Transcript written on fullrefman.log. This is makeindex, version 2.15 [TeX Live 2019/dev] (kpathsea + Thai support). Scanning input file fullrefman.idx.................done (13914 entries accepted, 34 rejected). Sorting entries.................................................................................................................................................done (212319 comparisons). Generating output file fullrefman.ind................done (13716 lines written, 55 warnings). Output written in fullrefman.ind. Transcript written in fullrefman.ilg. 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[1] [2] Underfull \hbox (badness 6995) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 -x != 1\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1/pt m/m/n/10 if \T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.rounding \T1/ptm/m/n/10 is 0; oth- er-wise, it is \T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2\T1/ptm/m/n/10 . Nor-mally \T1/zi4/m /n/10 1.110223e-16\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.neg.ulp.digits \T1/ptm/m/n/10 is bounded be-low by \T1/zi 4/m/n/10 -(double.digits + 3)\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1178--1181 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1953--1953 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] [34] [35] [36] [37] Underfull \hbox (badness 10000) in paragraph at lines 2389--2391 []\T1/ptm/m/n/10 The val-ues of the splits can also be ob-tained (less ef-fi-ci ently) by Underfull \hbox (badness 10000) in paragraph at lines 2392--2397 [][][]\T1/zi4/m/n/10 apply[][][] \T1/ptm/m/n/10 al-ways sim-pli-fies com-mon le ngth re-sults, so at-tempt-ing to split via Underfull \hbox (badness 1102) in paragraph at lines 2392--2397 \T1/zi4/m/n/10 apply(x,MARGIN,identity) \T1/ptm/m/n/10 does not work (as it sim -ply gives \T1/zi4/m/n/10 x\T1/ptm/m/n/10 ). By chain-ing \T1/zi4/m/n/10 asplit [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 10000) in paragraph at lines 3771--3773 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [60] [61] [62] Overfull \hbox (6.42029pt too wide) in paragraph at lines 4012--4012 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] Underfull \hbox (badness 2521) in paragraph at lines 5019--5021 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6175--6175 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [97] [98] [99] [100] [101] [102] Overfull \hbox (46.35893pt too wide) in paragraph at lines 6584--6586 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult","internal","wininet","libcurl")\T1/ptm/m/n/10 : [103] [104] Underfull \hbox (badness 10000) in paragraph at lines 6732--6735 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [105] [106] Underfull \hbox (badness 6063) in paragraph at lines 6914--6920 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- Underfull \hbox (badness 2343) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 move a Byte Or-der Mark if present (which it of-ten is for files and web-pages gen-er- Underfull \hbox (badness 1708) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 ated by Mi-crosoft ap-pli-ca-tions). If a BOM is re-quired (it i s not rec-om-mended) when Underfull \hbox (badness 1831) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 writ-ing it should be writ-ten ex-plic-itly, e.g. by \T1/zi4/m/n /10 writeChar("\ufeff",con,eos = NULL) \T1/ptm/m/n/10 or [107] Underfull \hbox (badness 3568) in paragraph at lines 6976--6983 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [108] [109] Underfull \vbox (badness 10000) has occurred while \output is active [110] Underfull \vbox (badness 10000) has occurred while \output is active [111] [112] Underfull \hbox (badness 1077) in paragraph at lines 7293--7299 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7293--7299 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [113] [114] [115] [116] [117] [118] Underfull \hbox (badness 2096) in paragraph at lines 7634--7638 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [119] [120] Underfull \hbox (badness 2351) in paragraph at lines 7752--7755 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [121] [122] [123] [124] [125] Underfull \hbox (badness 4479) in paragraph at lines 8078--8088 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 1629) in paragraph at lines 8525--8537 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 1609) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 there is a prob-lem in the POSIX/C99 stan-dard with \T1/zi4/m/n/ 10 "1969-12-31 23:59:59 UTC"\T1/ptm/m/n/10 , which Underfull \hbox (badness 2426) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 is \T1/zi4/m/n/10 -1 \T1/ptm/m/n/10 in cal-en-dar time and that value is on those OSes also used as an er-ror code. [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] Underfull \hbox (badness 1178) in paragraph at lines 9260--9264 []\T1/ptm/m/n/10 If true, [][]\T1/zi4/m/n/10 list[][][]\T1/ptm/m/n/10 s and ato mic vec-tors with non-[][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 names (see [][ ]\T1/zi4/m/n/10 names[][][]\T1/ptm/m/n/10 ) are de- [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] Underfull \hbox (badness 1735) in paragraph at lines 10408--10412 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [161] [162] [163] [164] [165] [166] [167] Underfull \hbox (badness 6396) in paragraph at lines 10847--10855 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 1946) in paragraph at lines 10847--10855 \T1/zi4/m/n/10 duplicated \T1/ptm/m/n/10 and \T1/zi4/m/n/10 anyDuplicated\T1/pt m/m/n/10 , \T1/zi4/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al- ized'' short-cut for [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] Underfull \hbox (badness 4569) in paragraph at lines 11963--11967 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11963--11967 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] Underfull \hbox (badness 2253) in paragraph at lines 13626--13628 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [210] Underfull \hbox (badness 1565) in paragraph at lines 13697--13701 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [211] Underfull \hbox (badness 4927) in paragraph at lines 13741--13743 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with \T1/zi4 /m/n/10 fsep = [212] Underfull \hbox (badness 3148) in paragraph at lines 13834--13839 [][][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[ ][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 help[][][]\T1/ptm/m/n/10 ; [][]\T1/zi4 /m/n/10 RShowDoc[][][] \T1/ptm/m/n/10 call \T1/zi4/m/n/10 file.show() \T1/ptm/m /n/10 for \T1/zi4/m/n/10 type = "text"\T1/ptm/m/n/10 . Con-sider [213] Underfull \hbox (badness 1466) in paragraph at lines 13881--13884 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 14000--14004 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14011--14014 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [216] [217] [218] [219] Underfull \hbox (badness 3965) in paragraph at lines 14301--14305 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] [230] [231] [232] Underfull \hbox (badness 4429) in paragraph at lines 15076--15079 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [233] [234] Underfull \hbox (badness 10000) in paragraph at lines 15198--15202 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so Underfull \hbox (badness 2426) in paragraph at lines 15198--15202 \T1/zi4/m/n/10 formatC(c(6.11,13.1),digits = 2,format = "fg") \T1/ptm/m/n/10 gi ves \T1/zi4/m/n/10 c("6.1"," 13")\T1/ptm/m/n/10 . If you want Underfull \hbox (badness 2035) in paragraph at lines 15237--15241 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use within [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] Underfull \hbox (badness 2452) in paragraph at lines 15829--15833 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15829--15833 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [245] [246] [247] Underfull \hbox (badness 1092) in paragraph at lines 16002--16007 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [248] [249] [250] Underfull \hbox (badness 6741) in paragraph at lines 16252--16256 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [251] [252] [253] [254] [255] [256] [257] [258] [259] Underfull \vbox (badness 3803) has occurred while \output is active [260] Underfull \vbox (badness 10000) has occurred while \output is active [261] [262] [263] [264] [265] [266] [267] [268] [269] [270] Underfull \hbox (badness 1478) in paragraph at lines 17541--17544 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [271] [272] [273] [274] Underfull \hbox (badness 10000) in paragraph at lines 17796--17798 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [275] [276] [277] [278] [279] [280] [281] [282] [283] Underfull \hbox (badness 1442) in paragraph at lines 18396--18398 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [284] Underfull \hbox (badness 2452) in paragraph at lines 18488--18504 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [285] [286] [287] [288] [289] [290] [291] Underfull \hbox (badness 1248) in paragraph at lines 18907--18910 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [292] [293] [294] [295] Underfull \hbox (badness 4739) in paragraph at lines 19165--19167 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [296] [297] [298] [299] [300] [301] Underfull \hbox (badness 1596) in paragraph at lines 19584--19589 \T1/ptm/m/n/10 trix or, if \T1/zi4/m/n/10 simplify = "array"\T1/ptm/m/n/10 , an ar-ray if ap-pro-pri-ate, by ap-ply-ing \T1/zi4/m/n/10 simplify2array()\T1/ptm /m/n/10 . [302] [303] [304] [305] [306] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 2469) in paragraph at lines 20188--20193 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 20202--20209 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [313] Underfull \hbox (badness 10000) in paragraph at lines 20276--20280 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20276--20280 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [314] [315] Underfull \hbox (badness 1014) in paragraph at lines 20446--20451 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [316] [317] [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] Underfull \hbox (badness 1264) in paragraph at lines 21235--21240 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [328] Underfull \hbox (badness 4441) in paragraph at lines 21264--21267 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] Underfull \hbox (badness 6047) in paragraph at lines 22011--22013 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that \T1/zi4/m/n/10 make.unique(c(A,B)) == [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] [354] [355] [356] Underfull \hbox (badness 1077) in paragraph at lines 23052--23058 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [357] [358] [359] [360] [361] [362] [363] [364] [365] Underfull \hbox (badness 2790) in paragraph at lines 23548--23551 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23548--23551 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [366] [367] [368] [369] Underfull \hbox (badness 1194) in paragraph at lines 23830--23833 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [370] [371] [372] Underfull \hbox (badness 2368) in paragraph at lines 24036--24042 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing list, i.e., Underfull \hbox (badness 4981) in paragraph at lines 24036--24042 \T1/zi4/m/n/10 names(as.list(env,all.names = TRUE)) \T1/ptm/m/n/10 which are al so given by [][]\T1/zi4/m/n/10 ls[][][](env,all.names = [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 10000) in paragraph at lines 24418--24421 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [379] [380] [381] [382] [383] [384] [385] [386] [387] Underfull \hbox (badness 10000) in paragraph at lines 25023--25025 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than \T1/zi4/m/n/10 pkg %in% [388] [389] [390] [391] [392] [393] [394] [395] [396] [397] [398] [399] [400] Underfull \hbox (badness 1038) in paragraph at lines 25863--25871 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 1735) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set from value of the en-vi-ron-ment vari-able \T1/zi4/m/n/10 R_ DEFAULT_PACKAGES\T1/ptm/m/n/10 , or if that is un- Underfull \hbox (badness 1292) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set to \T1/zi4/m/n/10 c("datasets","utils","grDevices","graphics ","stats","methods")\T1/ptm/m/n/10 . (Set Underfull \hbox (badness 1881) in paragraph at lines 25872--25875 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25891--25893 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [401] [402] Underfull \hbox (badness 2142) in paragraph at lines 26032--26036 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 26082--26087 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 26383--26386 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 26409--26411 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 26444--26449 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 in-di-rectly [][]\T1/zi4/m/n/10 update.packages[][][]\T1/ptm/m/n /10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi4/m /n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use and [407] Underfull \hbox (badness 7203) in paragraph at lines 26462--26465 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 26486--26491 []\T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN ma -cOS build), Underfull \hbox (badness 2057) in paragraph at lines 26486--26491 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 10000) in paragraph at lines 27004--27007 []\T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 str2lang(s ) \T1/ptm/m/n/10 re-turn spe-cial ver-sions of [416] Underfull \hbox (badness 7925) in paragraph at lines 27083--27087 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 vec-to r \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n /10 cor-re-sponds to Underfull \hbox (badness 1622) in paragraph at lines 27083--27087 [][]\T1/zi4/m/n/10 parse[][][](text = s,keep.source=FALSE)\T1/ptm/m/n/10 , whic h is al-ways of type ([][]\T1/zi4/m/n/10 typeof[][][]\T1/ptm/m/n/10 ) and [][]\ T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 6125) in paragraph at lines 27088--27097 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 string \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2lang(s) \T1/ptm/m/n/10 cor -re-sponds to [][]\T1/zi4/m/n/10 parse[][][](text = [417] [418] [419] [420] [421] [422] [423] [424] [425] [426] [427] Underfull \hbox (badness 2726) in paragraph at lines 27809--27812 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] Underfull \vbox (badness 3803) has occurred while \output is active [446] [447] [448] [449] [450] [451] [452] [453] Underfull \hbox (badness 1533) in paragraph at lines 29500--29503 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [454] [455] [456] Underfull \hbox (badness 1163) in paragraph at lines 29663--29674 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] Underfull \hbox (badness 10000) in paragraph at lines 31209--31213 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 31209--31213 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. Underfull \hbox (badness 6188) in paragraph at lines 31231--31233 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [481] [482] [483] [484] [485] [486] [487] [488] [489] Underfull \hbox (badness 1655) in paragraph at lines 31787--31789 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] [504] [505] [506] Underfull \hbox (badness 2261) in paragraph at lines 32906--32911 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [507] Underfull \hbox (badness 10000) in paragraph at lines 32933--32939 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1484) in paragraph at lines 32933--32939 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions like [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] [550] [551] [552] [553] [554] [555] Underfull \hbox (badness 1072) in paragraph at lines 36075--36079 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 36080--36084 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 36120--36127 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [556] [557] [558] [559] [560] [561] Underfull \hbox (badness 1142) in paragraph at lines 36473--36479 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is \T1/zi4/m/n/10 "%Y-%m-%d [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] Underfull \hbox (badness 1565) in paragraph at lines 37746--37748 []\T1/ptm/m/n/10 integer code used in \T1/zi4/m/n/10 quantile(*,type=quantile.t ype) \T1/ptm/m/n/10 for the de-fault [582] [583] [584] [585] [586] [587] [588] [589] [590] [591] Underfull \hbox (badness 4967) in paragraph at lines 38345--38350 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [592] [593] Underfull \hbox (badness 1616) in paragraph at lines 38458--38463 \T1/zi4/m/n/10 system("id") \T1/ptm/m/n/10 is much more portable on Unix-alikes , pro-vided only the POSIX op-tions [594] [595] [596] [597] Underfull \vbox (badness 10000) has occurred while \output is active [598] [599] [600] [601] [602] Underfull \hbox (badness 1472) in paragraph at lines 38984--38987 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [603] [604] [605] [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] Underfull \vbox (badness 3803) has occurred while \output is active [616] Underfull \hbox (badness 10000) in paragraph at lines 39898--39902 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., \T1/zi4/m/n/10 length(bin) > [617] [618] [619] [620] Underfull \hbox (badness 10000) in paragraph at lines 40149--40152 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [621] [622] [623] Underfull \hbox (badness 10000) in paragraph at lines 40333--40337 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [624] [625] [626] [627] [628] [629] [630] [631] [632] Underfull \hbox (badness 10000) in paragraph at lines 40946--40949 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [633] [634] [635] [636] [637] [638] Underfull \vbox (badness 10000) has occurred while \output is active [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 1990) in paragraph at lines 41849--41857 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41849--41857 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [647] [648] [649] [650] [651] [652] [653] [654] Underfull \hbox (badness 1917) in paragraph at lines 42355--42362 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 3668) in paragraph at lines 43084--43086 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [666] [667] Underfull \hbox (badness 2401) in paragraph at lines 43212--43216 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [668] [669] [670] Underfull \hbox (badness 2111) in paragraph at lines 43401--43406 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 10000) in paragraph at lines 43422--43427 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [671] [672] [673] [674] [675] [676] [677] [678] [679] Underfull \hbox (badness 5417) in paragraph at lines 44004--44008 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [680] Underfull \hbox (badness 10000) in paragraph at lines 44065--44069 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [681] [682]) (./compiler-pkg.tex Chapter 2. [683] [684] [685] [686]) (./datasets-pkg.tex Chapter 3. [687] [688] [689] [690] [691] [692] [693] [694] [695] [696] [697] [698] [699] [700] [701] [702] [703] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] Underfull \vbox (badness 1448) has occurred while \output is active [727] [728] [729] [730] [731] [732] [733] [734] [735] [736] [737] [738] Overfull \vbox (19.74611pt too high) has occurred while \output is active [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] Underfull \vbox (badness 10000) has occurred while \output is active [755] [756] [757] [758] Underfull \vbox (badness 10000) has occurred while \output is active [759] [760] [761] [762] [763] [764] Overfull \vbox (18.9959pt too high) has occurred while \output is active [765] [766] [767]) (./grDevices-pkg.tex [768] Chapter 4. [769] [770] [771] [772] [773] Underfull \hbox (badness 3158) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, \T1/zi4/m/n/10 c(mi,ma,n.)\T1/ptm /m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][]\T1/zi4/m/n/10 axisTicks[][][]() \T1/ptm/ m/n/10 just calls the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/ptm/m/n/1 0 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \hbox (badness 5175) in paragraph at lines 1120--1122 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [787] [788] [789] [790] Underfull \hbox (badness 1852) in paragraph at lines 1322--1325 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [791] [792] [793] Underfull \hbox (badness 1490) in paragraph at lines 1528--1533 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [794] [795] [796] [797] [798] [799] Underfull \hbox (badness 1325) in paragraph at lines 1934--1944 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [800] [801] Underfull \hbox (badness 10000) in paragraph at lines 2046--2048 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [802] [803] [804] Underfull \hbox (badness 6758) in paragraph at lines 2224--2227 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] Underfull \hbox (badness 10000) in paragraph at lines 2828--2829 [815] [816] [817] [818] [819] [820] [821] [822] [823] Underfull \hbox (badness 10000) in paragraph at lines 3384--3389 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [824] [825] [826] [827] [828] Underfull \vbox (badness 10000) has occurred while \output is active [829] Underfull \hbox (badness 10000) in paragraph at lines 3785--3788 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as [830] [831] [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 10000) in paragraph at lines 4514--4519 [][][]$\T1/zi4/m/n/10 https : / / www . adobe . com / content / dam / acom / en / devnet / actionscript / articles / PLRM . pdf$[][] Underfull \hbox (badness 4181) in paragraph at lines 4514--4519 \T1/ptm/m/n/10 or PDF [][]$\T1/zi4/m/n/10 https : / / www . adobe . com / devne t / acrobat / pdfs / pdf _ reference _ 1-[]7 . pdf$[][] \T1/ptm/m/n/10 and in [841] Underfull \vbox (badness 10000) has occurred while \output is active [842] [843] Underfull \hbox (badness 1067) in paragraph at lines 4668--4675 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [844] [845] [846] [847] Underfull \hbox (badness 1377) in paragraph at lines 4971--4976 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [848] Underfull \hbox (badness 1418) in paragraph at lines 5047--5054 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 1755) in paragraph at lines 5065--5067 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [849] [850] Underfull \hbox (badness 1377) in paragraph at lines 5176--5181 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [851] Underfull \hbox (badness 7344) in paragraph at lines 5245--5247 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [852] [853] Underfull \hbox (badness 2035) in paragraph at lines 5380--5389 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [854] Underfull \hbox (badness 10000) in paragraph at lines 5448--5455 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5448--5455 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [855] [856] [857] Underfull \hbox (badness 1546) in paragraph at lines 5590--5598 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [858] [859] [860] [861] [862] [863] [864] [865] Underfull \hbox (badness 10000) in paragraph at lines 6125--6128 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \hbox (badness 1189) in paragraph at lines 6947--6949 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [879] Underfull \hbox (badness 10000) in paragraph at lines 7045--7047 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [880] [881] [882] [883] [884] Underfull \hbox (badness 3780) in paragraph at lines 7345--7351 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [885] [886] [887] Underfull \hbox (badness 2680) in paragraph at lines 7546--7548 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [888] [889] [890]) (./graphics-pkg.tex Chapter 5. [891] [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] Underfull \hbox (badness 4634) in paragraph at lines 1349--1352 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] Underfull \hbox (badness 1009) in paragraph at lines 2388--2395 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] [945] [946] [947] [948] [949] [950] [951] [952] Underfull \vbox (badness 10000) has occurred while \output is active [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 3229) in paragraph at lines 4532--4537 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [966] [967] [968] [969] [970] Underfull \hbox (badness 10000) in paragraph at lines 4889--4895 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width,height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4889--4895 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [971] Underfull \hbox (badness 10000) in paragraph at lines 5020--5023 [972] Underfull \hbox (badness 10000) in paragraph at lines 5081--5083 [973 ] [974 ] [975] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [976] Underfull \vbox (badness 3803) has occurred while \output is active [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6749--6750 [][] [999] [1000 ] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] Underfull \hbox (badness 2012) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i],y0[i]) \T1/ptm/m/n/10 and the poi nt [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] Underfull \hbox (badness 10000) in paragraph at lines 8834--8836 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8836--8838 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1034]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8916 \HeaderA{units}{Graphical Units}{units} [1035] [1036] [1037] [1038]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] Underfull \hbox (badness 2680) in paragraph at lines 483--486 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Underfull \hbox (badness 4279) in paragraph at lines 1064--1073 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] Underfull \vbox (badness 10000) has occurred while \output is active [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 1067) in paragraph at lines 4486--4489 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1115] [1116] [1117] [1118] Underfull \hbox (badness 7256) in paragraph at lines 4731--4733 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] Underfull \hbox (badness 1824) in paragraph at lines 6535--6538 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like \T1/zi4/m/n/10 depth [1150] [1151] [1152] [1153]) (./methods-pkg.tex [1154] Chapter 7. [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] Underfull \vbox (badness 3803) has occurred while \output is active [1163] Underfull \vbox (badness 10000) has occurred while \output is active [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] Underfull \hbox (badness 2181) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x,"refClass") \T1/ptm/m/n/10 tests [1182] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1183] [1184] [1185] Underfull \hbox (badness 2213) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1191] [1192] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1193] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1194] [1195] [1196] [1197] [1198] [1199] [1200] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1201] [1202] [1203] [1204] [1205] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1206] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1207] Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <-setClass("Pos",slots = c(latitude = "numeric",longitude = "numeric",altitude [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] Underfull \vbox (badness 10000) has occurred while \output is active [1229] [1230] [1231] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1232] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1233] [1234] [1235] [1236] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1245] [1246] [1247] [1248] Underfull \vbox (badness 10000) has occurred while \output is active [1249] [1250] [1251] [1252]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1253] [1254] [1255]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1256] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1257] [1258] [1259] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \vbox (badness 10000) has occurred while \output is active [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] Underfull \hbox (badness 1137) in paragraph at lines 10011--10019 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form \T1/zi4/m/n/10 ne w("signature",functionDef,...)\T1/ptm/m/n/10 . The [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1302] [1303] [1304] [1305]) (./parallel-pkg.tex [1306] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] Underfull \hbox (badness 3386) in paragraph at lines 1365--1368 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1328] [1329] [1330]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346]) (./stats-pkg.tex Chapter 10. [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 1412) in paragraph at lines 875--877 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] Underfull \hbox (badness 2503) in paragraph at lines 1356--1359 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1369] [1370] [1371] Underfull \hbox (badness 10000) in paragraph at lines 1536--1540 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov","lm") \T1/ptm/m/n/1 0 or for mul-ti-ple re-sponses of class [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] [1401] Underfull \hbox (badness 2503) in paragraph at lines 3435--3438 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] Underfull \hbox (badness 1127) in paragraph at lines 4349--4352 []\T1/ptm/m/n/10 standardized resid-u-als, \T1/zi4/m/n/10 (observed -expected) / sqrt(V)\T1/ptm/m/n/10 , where \T1/zi4/m/n/10 V \T1/ptm/m/n/10 is the [1417] [1418] [1419] [1420] [1421] Underfull \hbox (badness 3989) in paragraph at lines 4679--4686 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] Underfull \hbox (badness 2556) in paragraph at lines 5315--5318 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5332--5334 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1432] [1433] [1434] [1435] [1436] [1437] [1438] Underfull \hbox (badness 2503) in paragraph at lines 5724--5728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] Underfull \hbox (badness 7081) in paragraph at lines 6518--6521 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6522--6524 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1452] [1453] [1454] [1455] [1456] Underfull \vbox (badness 3803) has occurred while \output is active [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 10000) in paragraph at lines 7367--7370 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \vbox (badness 10000) has occurred while \output is active [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2626) in paragraph at lines 9044--9047 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 9151--9155 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] Underfull \hbox (badness 4518) in paragraph at lines 10461--10466 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 2142) in paragraph at lines 10821--10824 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10840--10843 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1519] Underfull \hbox (badness 1708) in paragraph at lines 10902--10906 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1520] [1521] [1522] [1523] [1524] [1525] Underfull \hbox (badness 1694) in paragraph at lines 11298--11301 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1526] [1527] [1528] [1529] [1530] [1531] Underfull \hbox (badness 10000) in paragraph at lines 11625--11628 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of Underfull \hbox (badness 1281) in paragraph at lines 11625--11628 \T1/zi4/m/n/10 qhyper(runif(nn),m,n,k) \T1/ptm/m/n/10 is used, when a bi-no-mia l ap-prox-i-ma-tion may be con-sid-er-ably [1532] [1533]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.hat}) has been already used, duplicate ignored \relax l.11779 \aliasA{hat}{influence.measures}{hat} [1534] [1535] Underfull \hbox (badness 1484) in paragraph at lines 11914--11916 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1536] [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] Underfull \hbox (badness 10000) in paragraph at lines 12507--12509 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when \T1/zi4/m/n/10 SSinit = [1546] [1547] [1548] [1549] [1550] [1551] Underfull \hbox (badness 2894) in paragraph at lines 12843--12847 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] Underfull \hbox (badness 4518) in paragraph at lines 13593--13598 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] Underfull \hbox (badness 4518) in paragraph at lines 14245--14250 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1574] [1575] Underfull \hbox (badness 8151) in paragraph at lines 14383--14387 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = "interp olate",statistics = Underfull \hbox (badness 1199) in paragraph at lines 14390--14392 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] Underfull \hbox (badness 2503) in paragraph at lines 15461--15465 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 4621) in paragraph at lines 15973--15979 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(,"offset") \T1/ ptm/m/n/10 and [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] Underfull \vbox (badness 10000) has occurred while \output is active [1630] Underfull \vbox (badness 10000) has occurred while \output is active [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] Underfull \hbox (badness 1377) in paragraph at lines 18567--18572 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18572--18575 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on [1644] Underfull \hbox (badness 2343) in paragraph at lines 18585--18589 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18585--18589 \T1/ptm/m/n/10 the value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18593--18597 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1645] [1646] [1647] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18818--18818 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18821--18821 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] Underfull \vbox (badness 10000) has occurred while \output is active [1648] [1649] [1650] [1651] [1652] [1653] [1654] Underfull \hbox (badness 1337) in paragraph at lines 19243--19246 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] Underfull \hbox (badness 3049) in paragraph at lines 19739--19743 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1664] [1665] [1666] [1667] Underfull \hbox (badness 1194) in paragraph at lines 19997--20000 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1668] [1669] [1670] [1671] [1672] [1673] [1674] Underfull \hbox (badness 2503) in paragraph at lines 20372--20375 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 20399--20401 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or \T1/zi4/m/n/10 "Comparison of Poisson [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] [1691] [1692] Underfull \hbox (badness 10000) in paragraph at lines 21476--21482 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] Underfull \hbox (badness 1337) in paragraph at lines 22823--22829 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23388--23388 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 10000) in paragraph at lines 23639--23642 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 4205) in paragraph at lines 23639--23642 \T1/zi4/m/n/10 cutree(hclust.obj,k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1729] [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] Underfull \hbox (badness 10000) in paragraph at lines 24224--24227 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x,k) \T1/ptm/m/n/10 sim-ply has \T1/zi4/m/n/10 y[j] = [1738] Underfull \hbox (badness 3690) in paragraph at lines 24276--24280 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] Underfull \hbox (badness 2165) in paragraph at lines 24753--24758 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1747] [1748] [1749] [1750] Underfull \hbox (badness 1867) in paragraph at lines 24958--24960 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24971--24975 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <-[][]nobs[][][](object,use.fallback = u se.fallback) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 PP [1751] [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \vbox (badness 3803) has occurred while \output is active [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] Underfull \vbox (badness 10000) has occurred while \output is active [1774] [1775] Underfull \hbox (badness 3514) in paragraph at lines 26510--26515 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1776] [1777] [1778] [1779] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26744--26744 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 26780--26786 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1780] [1781] [1782] [1783] Underfull \hbox (badness 3514) in paragraph at lines 26994--26999 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1784] [1785] Underfull \hbox (badness 3514) in paragraph at lines 27081--27086 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1786] Underfull \hbox (badness 3514) in paragraph at lines 27146--27151 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1787] [1788] Underfull \hbox (badness 3514) in paragraph at lines 27240--27245 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1789] Underfull \hbox (badness 6691) in paragraph at lines 27332--27337 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 4024) in paragraph at lines 27862--27865 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 5431) in paragraph at lines 28468--28470 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1809] [1810] [1811] Underfull \hbox (badness 5431) in paragraph at lines 28678--28681 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1812] [1813] [1814] [1815] [1816] [1817] Underfull \hbox (badness 1337) in paragraph at lines 28992--28996 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1818] [1819] [1820] [1821] [1822] Underfull \hbox (badness 1616) in paragraph at lines 29294--29297 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] [1840] [1841] Underfull \hbox (badness 3557) in paragraph at lines 30424--30428 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect \T1/zi4 /m/n/10 interval = [1842] [1843] [1844] Underfull \vbox (badness 10000) has occurred while \output is active [1845] [1846] [1847] Underfull \hbox (badness 1337) in paragraph at lines 30788--30792 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1848] [1849] [1850] [1851] [1852] [1853] [1854] [1855] [1856] Underfull \hbox (badness 1337) in paragraph at lines 31315--31319 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866]) (./stats4-pkg.tex Chapter 11. [1867] [1868] [1869] [1870] [1871] [1872]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1873] [1874] [1875]) (./tcltk-pkg.tex [1876] Chapter 12. [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] Underfull \vbox (badness 10000) has occurred while \output is active [1885] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1886] [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897]) (./tools-pkg.tex [1898] Chapter 13. [1899] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1900] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1901] [1902] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1903] [1904] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1905] [1906] [1907] [1908] [1909] [1910] [1911] [1912] [1913] [1914] [1915] [1916] Underfull \hbox (badness 4441) in paragraph at lines 1139--1149 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1917] Underfull \hbox (badness 1014) in paragraph at lines 1163--1165 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1169--1171 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1918] Underfull \hbox (badness 10000) in paragraph at lines 1206--1209 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1206--1209 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1919] [1920] [1921] [1922] [1923] Underfull \hbox (badness 2293) in paragraph at lines 1558--1560 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1924] [1925] Underfull \hbox (badness 7981) in paragraph at lines 1696--1701 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1703--1705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1926] [1927] [1928] [1929]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1900 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1930] [1931] [1932] [1933] [1934] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2202--2202 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1935] [1936] [1937] Underfull \hbox (badness 7981) in paragraph at lines 2371--2377 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1938] [1939] [1940] [1941] [1942] [1943] [1944] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2837. [1945] [1946] [1947] [1948] Underfull \hbox (badness 1424) in paragraph at lines 3119--3121 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1949] [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] Underfull \hbox (badness 10000) in paragraph at lines 3823--3825 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1961] [1962] Underfull \hbox (badness 10000) in paragraph at lines 3962--3965 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1963] [1964] Underfull \hbox (badness 1137) in paragraph at lines 4064--4066 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1965] [1966] [1967] [1968] [1969] Underfull \hbox (badness 1796) in paragraph at lines 4372--4377 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over \T 1/zi4/m/sl/10 write_PACKAGES \T1/ptm/m/n/10 in the \T1/zi4/m/sl/10 type == [1970] Underfull \hbox (badness 1838) in paragraph at lines 4446--4452 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4446--4452 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1971] [1972] [1973] Underfull \hbox (badness 2197) in paragraph at lines 4662--4672 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : [1974] Underfull \hbox (badness 1571) in paragraph at lines 4725--4729 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1975] [1976] [1977]) (./utils-pkg.tex [1978] Chapter 14. [1979] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1980] [1981] [1982] [1983] [1984] Underfull \hbox (badness 10000) in paragraph at lines 376--381 \T1/zi4/m/sl/10 c("vertical","horizontal","cascade","minimize","restore") \T1/p tm/m/n/10 with [1985] [1986] [1987] [1988] [1989] Underfull \hbox (badness 10000) in paragraph at lines 717--723 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 717--723 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1990] [1991] Underfull \hbox (badness 5847) in paragraph at lines 850--856 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 850--856 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1992] Underfull \hbox (badness 3861) in paragraph at lines 918--923 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1993] [1994] Underfull \hbox (badness 3323) in paragraph at lines 1089--1097 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use \T1/zi4/m/sl/1 0 bibtex = T|F \T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m$\T1 /ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 3735) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x",1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by [1995] Underfull \hbox (badness 10000) in paragraph at lines 1101--1103 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1996] [1997] Underfull \vbox (badness 3803) has occurred while \output is active [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1371) in paragraph at lines 1606--1608 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2003] [2004] [2005] [2006] [2007] [2008] [2009] [2010] [2011] [2012] Underfull \hbox (badness 2057) in paragraph at lines 2215--2217 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [2013] [2014] [2015] [2016] [2017] [2018]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2566 ... the Clipboard in MS Windows}{clipboard} [2019] [2020] Underfull \hbox (badness 1748) in paragraph at lines 2733--2736 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [2021] [2022] [2023] [2024] [2025] [2026] [2027] Underfull \hbox (badness 5388) in paragraph at lines 3142--3146 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[][][](...,header = Underfull \hbox (badness 2285) in paragraph at lines 3147--3150 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](...,header = TRUE,sep = [2028] [2029] [2030] [2031] [2032] [2033] [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1430) in paragraph at lines 3906--3914 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2039] Underfull \hbox (badness 1231) in paragraph at lines 3983--3995 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2040] [2041] Underfull \hbox (badness 10000) in paragraph at lines 4143--4145 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2042] [2043] [2044] [2045] [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1622) in paragraph at lines 5360--5364 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] Underfull \hbox (badness 1371) in paragraph at lines 5996--5998 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2072] Underfull \hbox (badness 1502) in paragraph at lines 6085--6090 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6085--6090 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 6258--6267 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2076] Underfull \hbox (badness 2150) in paragraph at lines 6322--6325 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2077] [2078] Underfull \hbox (badness 3118) in paragraph at lines 6460--6462 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2079] [2080] [2081] Underfull \hbox (badness 1325) in paragraph at lines 6632--6636 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able Underfull \hbox (badness 4726) in paragraph at lines 6644--6650 \T1/ptm/m/n/10 used if \T1/zi4/m/sl/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of [2082] Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 \T1/ptm/m/n/10 passed to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g., [2083] Underfull \hbox (badness 3219) in paragraph at lines 6792--6799 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 6792--6799 [][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")\T1/ ptm/m/n/10 . \T1/zi4/m/sl/10 type = "both" \T1/ptm/m/n/10 will be silently Underfull \hbox (badness 2932) in paragraph at lines 6800--6803 []\T1/ptm/m/n/10 Using pack-ages with \T1/zi4/m/sl/10 type = "source" \T1/ptm/m /n/10 al-ways works pro-vided the pack-age con-tains no [2084] Underfull \hbox (badness 10000) in paragraph at lines 6934--6939 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2085] [2086] [2087] [2088] [2089] [2090] [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 8434--8436 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 2310) in paragraph at lines 8456--8461 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2110] [2111] [2112] [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1248) in paragraph at lines 8980--8984 []\T1/zi4/m/sl/10 R CMD build \T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/m/ n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2118] Underfull \hbox (badness 1789) in paragraph at lines 9058--9060 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] Underfull \vbox (badness 10000) has occurred while \output is active [2129] [2130] [2131] Underfull \hbox (badness 1097) in paragraph at lines 9895--9898 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2132] [2133] Underfull \hbox (badness 3000) in paragraph at lines 10031--10036 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2134] [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 2134) in paragraph at lines 10614--10619 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 \T1/zi4/m/sl/10 HKEY_LOCAL_MACHINE\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 HKEY_CLASSES _ROOT\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 HKEY_CURRENT_USER\T1/ptm/m/n/10 , [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] Underfull \hbox (badness 2469) in paragraph at lines 11163--11167 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11163--11167 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . 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[1] [2] Underfull \hbox (badness 6995) in paragraph at lines 141--149 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/zi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/zi4/m/n/10 1 -x != 1\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 equals \T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits \T1/pt m/m/n/10 if \T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/ptm/m/n/10 is 2 or \T1/zi4/m/n/10 double.rounding \T1/ptm/m/n/10 is 0; oth- er-wise, it is \T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 141--149 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2\T1/ptm/m/n/10 . Nor-mally \T1/zi4/m /n/10 1.110223e-16\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 141--149 \T1/zi4/m/n/10 double.neg.ulp.digits \T1/ptm/m/n/10 is bounded be-low by \T1/zi 4/m/n/10 -(double.digits + 3)\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 297--301 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/zi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [6] [7] [8] Underfull \hbox (badness 2556) in paragraph at lines 534--540 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/n/10 insertions\T1/ptm/m/n/10 ', [9] [10] [11] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 2671) in paragraph at lines 1178--1181 []\T1/ptm/m/n/10 If the calls to \T1/zi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/zi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (26.27782pt too wide) in paragraph at lines 1953--1953 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [31] [32] [33] [34] [35] [36] [37] Underfull \hbox (badness 10000) in paragraph at lines 2389--2391 []\T1/ptm/m/n/10 The val-ues of the splits can also be ob-tained (less ef-fi-ci ently) by Underfull \hbox (badness 10000) in paragraph at lines 2392--2397 [][][]\T1/zi4/m/n/10 apply[][][] \T1/ptm/m/n/10 al-ways sim-pli-fies com-mon le ngth re-sults, so at-tempt-ing to split via Underfull \hbox (badness 1102) in paragraph at lines 2392--2397 \T1/zi4/m/n/10 apply(x,MARGIN,identity) \T1/ptm/m/n/10 does not work (as it sim -ply gives \T1/zi4/m/n/10 x\T1/ptm/m/n/10 ). By chain-ing \T1/zi4/m/n/10 asplit [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 10000) in paragraph at lines 3771--3773 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [60] [61] [62] Overfull \hbox (6.42029pt too wide) in paragraph at lines 4012--4012 [] \T1/zi4/m/n/10 c.factor <- function(..., recursive=TRUE) unlist(list(...) , recursive=recursive) [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] Underfull \hbox (badness 2521) in paragraph at lines 5019--5021 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6175--6175 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [97] [98] [99] [100] [101] [102] Overfull \hbox (46.35893pt too wide) in paragraph at lines 6584--6586 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult","internal","wininet","libcurl")\T1/ptm/m/n/10 : [103] [104] Underfull \hbox (badness 10000) in paragraph at lines 6732--6735 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [105] [106] Underfull \hbox (badness 6063) in paragraph at lines 6914--6920 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- Underfull \hbox (badness 2343) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 move a Byte Or-der Mark if present (which it of-ten is for files and web-pages gen-er- Underfull \hbox (badness 1708) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 ated by Mi-crosoft ap-pli-ca-tions). If a BOM is re-quired (it i s not rec-om-mended) when Underfull \hbox (badness 1831) in paragraph at lines 6914--6920 \T1/ptm/m/n/10 writ-ing it should be writ-ten ex-plic-itly, e.g. by \T1/zi4/m/n /10 writeChar("\ufeff",con,eos = NULL) \T1/ptm/m/n/10 or [107] Underfull \hbox (badness 3568) in paragraph at lines 6976--6983 \T1/zi4/m/n/10 txt$[][]\T1/ptm/m/n/10 ), which can also be spec-i-fied as \T1/z i4/m/n/10 "X11_primary" \T1/ptm/m/n/10 and the sec-ondary se-lec-tion as [108] [109] Underfull \vbox (badness 10000) has occurred while \output is active [110] Underfull \vbox (badness 10000) has occurred while \output is active [111] [112] Underfull \hbox (badness 1077) in paragraph at lines 7293--7299 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7293--7299 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [113] [114] [115] [116] [117] [118] Underfull \hbox (badness 2096) in paragraph at lines 7634--7638 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [119] [120] Underfull \hbox (badness 2351) in paragraph at lines 7752--7755 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/zi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/zi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [121] [122] [123] [124] [125] Underfull \hbox (badness 4479) in paragraph at lines 8078--8088 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [126] [127] [128] [129] [130] [131] Underfull \hbox (badness 1629) in paragraph at lines 8525--8537 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 1609) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 there is a prob-lem in the POSIX/C99 stan-dard with \T1/zi4/m/n/ 10 "1969-12-31 23:59:59 UTC"\T1/ptm/m/n/10 , which Underfull \hbox (badness 2426) in paragraph at lines 8525--8537 \T1/ptm/m/n/10 is \T1/zi4/m/n/10 -1 \T1/ptm/m/n/10 in cal-en-dar time and that value is on those OSes also used as an er-ror code. [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] Underfull \hbox (badness 1178) in paragraph at lines 9260--9264 []\T1/ptm/m/n/10 If true, [][]\T1/zi4/m/n/10 list[][][]\T1/ptm/m/n/10 s and ato mic vec-tors with non-[][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 names (see [][ ]\T1/zi4/m/n/10 names[][][]\T1/ptm/m/n/10 ) are de- [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] Underfull \hbox (badness 1735) in paragraph at lines 10408--10412 \T1/zi4/m/n/10 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ zi4/m/n/10 https : / / en . wikipedia . [161] [162] [163] [164] [165] [166] [167] Underfull \hbox (badness 6396) in paragraph at lines 10847--10855 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 1946) in paragraph at lines 10847--10855 \T1/zi4/m/n/10 duplicated \T1/ptm/m/n/10 and \T1/zi4/m/n/10 anyDuplicated\T1/pt m/m/n/10 , \T1/zi4/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al- ized'' short-cut for [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] Underfull \hbox (badness 4569) in paragraph at lines 11963--11967 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 11963--11967 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] Underfull \hbox (badness 2253) in paragraph at lines 13626--13628 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [210] Underfull \hbox (badness 1565) in paragraph at lines 13697--13701 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [211] Underfull \hbox (badness 4927) in paragraph at lines 13741--13743 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/zi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with \T1/zi4 /m/n/10 fsep = [212] Underfull \hbox (badness 3148) in paragraph at lines 13834--13839 [][][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[ ][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 help[][][]\T1/ptm/m/n/10 ; [][]\T1/zi4 /m/n/10 RShowDoc[][][] \T1/ptm/m/n/10 call \T1/zi4/m/n/10 file.show() \T1/ptm/m /n/10 for \T1/zi4/m/n/10 type = "text"\T1/ptm/m/n/10 . Con-sider [213] Underfull \hbox (badness 1466) in paragraph at lines 13881--13884 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 14000--14004 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/zi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ zi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14011--14014 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [216] [217] [218] [219] Underfull \hbox (badness 3965) in paragraph at lines 14301--14305 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [220] [221] [222] [223] [224] [225] [226] [227] [228] [229] [230] [231] [232] Underfull \hbox (badness 4429) in paragraph at lines 15076--15079 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/zi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [233] [234] Underfull \hbox (badness 10000) in paragraph at lines 15198--15202 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so Underfull \hbox (badness 2426) in paragraph at lines 15198--15202 \T1/zi4/m/n/10 formatC(c(6.11,13.1),digits = 2,format = "fg") \T1/ptm/m/n/10 gi ves \T1/zi4/m/n/10 c("6.1"," 13")\T1/ptm/m/n/10 . If you want Underfull \hbox (badness 2035) in paragraph at lines 15237--15241 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use within [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] Underfull \hbox (badness 2452) in paragraph at lines 15829--15833 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 15829--15833 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds to the \T1/zi4/m/n/10 step \T1/ptm/m/n/10 ar-gu-ment, \T1/zi4/m/n/10 R_GCTORTURE_ WAIT \T1/ptm/m/n/10 to \T1/zi4/m/n/10 wait\T1/ptm/m/n/10 , and [245] [246] [247] Underfull \hbox (badness 1092) in paragraph at lines 16002--16007 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [248] [249] [250] Underfull \hbox (badness 6741) in paragraph at lines 16252--16256 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/zi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/zi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [251] [252] [253] [254] [255] [256] [257] [258] [259] Underfull \vbox (badness 3803) has occurred while \output is active [260] Underfull \vbox (badness 10000) has occurred while \output is active [261] [262] [263] [264] [265] [266] [267] [268] [269] [270] Underfull \hbox (badness 1478) in paragraph at lines 17541--17544 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [271] [272] [273] [274] Underfull \hbox (badness 10000) in paragraph at lines 17796--17798 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 http : / / www . unicode . org / reports / tr35 / [275] [276] [277] [278] [279] [280] [281] [282] [283] Underfull \hbox (badness 1442) in paragraph at lines 18396--18398 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/zi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [284] Underfull \hbox (badness 2452) in paragraph at lines 18488--18504 [][][]\T1/zi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/zi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [285] [286] [287] [288] [289] [290] [291] Underfull \hbox (badness 1248) in paragraph at lines 18907--18910 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\T1/zi4/m/n/10 "logical"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "integer"\T1/ptm/m/n /10 , \T1/zi4/m/n/10 "numeric"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "complex"\T1/ptm/ m/n/10 , [292] [293] [294] [295] Underfull \hbox (badness 4739) in paragraph at lines 19165--19167 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [296] [297] [298] [299] [300] [301] Underfull \hbox (badness 1596) in paragraph at lines 19584--19589 \T1/ptm/m/n/10 trix or, if \T1/zi4/m/n/10 simplify = "array"\T1/ptm/m/n/10 , an ar-ray if ap-pro-pri-ate, by ap-ply-ing \T1/zi4/m/n/10 simplify2array()\T1/ptm /m/n/10 . [302] [303] [304] [305] [306] [307] [308] [309] [310] [311] [312] Underfull \hbox (badness 2469) in paragraph at lines 20188--20193 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 20202--20209 [][][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / sslcerts . html$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 http : / / curl . haxx . se / docs / [313] Underfull \hbox (badness 10000) in paragraph at lines 20276--20280 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 20276--20280 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/zi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/zi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/zi4/m/n/10 /library\T1/ptm/m/n/10 ' [314] [315] Underfull \hbox (badness 1014) in paragraph at lines 20446--20451 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [316] [317] [318] [319] [320] [321] [322] [323] [324] [325] [326] [327] Underfull \hbox (badness 1264) in paragraph at lines 21235--21240 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [328] Underfull \hbox (badness 4441) in paragraph at lines 21264--21267 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory \T1/zi4/m/n/10 "LC_ALL" \T1/ptm/ m/n/10 sets only cat-e-gories \T1/zi4/m/n/10 "LC_COLLATE"\T1/ptm/m/n/10 , \T1/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] Underfull \hbox (badness 6047) in paragraph at lines 22011--22013 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/zi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that \T1/zi4/m/n/10 make.unique(c(A,B)) == [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] [354] [355] [356] Underfull \hbox (badness 1077) in paragraph at lines 23052--23058 \T1/zi4/m/n/10 / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm/m/n/10 , [][ ]$\T1/zi4/m/n/10 http : / / tukaani . org / xz/$[][] \T1/ptm/m/n/10 and [][]$\T 1/zi4/m/n/10 https : / / en . wikipedia . [357] [358] [359] [360] [361] [362] [363] [364] [365] Underfull \hbox (badness 2790) in paragraph at lines 23548--23551 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 23548--23551 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [366] [367] [368] [369] Underfull \hbox (badness 1194) in paragraph at lines 23830--23833 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [370] [371] [372] Underfull \hbox (badness 2368) in paragraph at lines 24036--24042 []\T1/ptm/m/n/10 For an [][]\T1/zi4/m/n/10 environment[][][] env\T1/ptm/m/n/10 , \T1/zi4/m/n/10 names(env) \T1/ptm/m/n/10 gives the names of the cor-re-spond- ing list, i.e., Underfull \hbox (badness 4981) in paragraph at lines 24036--24042 \T1/zi4/m/n/10 names(as.list(env,all.names = TRUE)) \T1/ptm/m/n/10 which are al so given by [][]\T1/zi4/m/n/10 ls[][][](env,all.names = [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 10000) in paragraph at lines 24418--24421 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [379] [380] [381] [382] [383] [384] [385] [386] [387] Underfull \hbox (badness 10000) in paragraph at lines 25023--25025 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than \T1/zi4/m/n/10 pkg %in% [388] [389] [390] [391] [392] [393] [394] [395] [396] [397] [398] [399] [400] Underfull \hbox (badness 1038) in paragraph at lines 25863--25871 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 1735) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set from value of the en-vi-ron-ment vari-able \T1/zi4/m/n/10 R_ DEFAULT_PACKAGES\T1/ptm/m/n/10 , or if that is un- Underfull \hbox (badness 1292) in paragraph at lines 25863--25871 \T1/ptm/m/n/10 set to \T1/zi4/m/n/10 c("datasets","utils","grDevices","graphics ","stats","methods")\T1/ptm/m/n/10 . (Set Underfull \hbox (badness 1881) in paragraph at lines 25872--25875 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 25891--25893 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [401] [402] Underfull \hbox (badness 2142) in paragraph at lines 26032--26036 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 26082--26087 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [403] [404] [405] [406] Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/zi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 e.g. the de-fault `\T1/zi4/m/n/10 "https://bioconductor.org"\T1/ ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 26370--26376 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de"\ T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 26383--26386 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/zi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 26409--26411 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 26444--26449 []\T1/ptm/m/n/10 Used by [][]\T1/zi4/m/n/10 install.packages[][][] \T1/ptm/m/n/ 10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 in-di-rectly [][]\T1/zi4/m/n/10 update.packages[][][]\T1/ptm/m/n /10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 26450--26461 \T1/ptm/m/n/10 ble val-ues are \T1/zi4/m/n/10 "never"\T1/ptm/m/n/10 , \T1/zi4/m /n/10 "interactive" \T1/ptm/m/n/10 (which means ask in in-ter-ac-tive use and [407] Underfull \hbox (badness 7203) in paragraph at lines 26462--26465 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 10000) in paragraph at lines 26486--26491 []\T1/zi4/m/n/10 "source" \T1/ptm/m/n/10 (the de-fault ex-cept un-der a CRAN ma -cOS build), Underfull \hbox (badness 2057) in paragraph at lines 26486--26491 \T1/zi4/m/n/10 "mac.binary.el-capitan" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "both" \T1/ptm/m/n/10 (the de-fault for CRAN ma-cOS builds). [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 10000) in paragraph at lines 27004--27007 []\T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 str2lang(s ) \T1/ptm/m/n/10 re-turn spe-cial ver-sions of [416] Underfull \hbox (badness 7925) in paragraph at lines 27083--27087 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 vec-to r \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n /10 cor-re-sponds to Underfull \hbox (badness 1622) in paragraph at lines 27083--27087 [][]\T1/zi4/m/n/10 parse[][][](text = s,keep.source=FALSE)\T1/ptm/m/n/10 , whic h is al-ways of type ([][]\T1/zi4/m/n/10 typeof[][][]\T1/ptm/m/n/10 ) and [][]\ T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 6125) in paragraph at lines 27088--27097 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 string \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2lang(s) \T1/ptm/m/n/10 cor -re-sponds to [][]\T1/zi4/m/n/10 parse[][][](text = [417] [418] [419] [420] [421] [422] [423] [424] [425] [426] [427] Underfull \hbox (badness 2726) in paragraph at lines 27809--27812 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] Underfull \vbox (badness 3803) has occurred while \output is active [446] [447] [448] [449] [450] [451] [452] [453] Underfull \hbox (badness 1533) in paragraph at lines 29500--29503 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [454] [455] [456] Underfull \hbox (badness 1163) in paragraph at lines 29663--29674 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] [479] [480] Underfull \hbox (badness 10000) in paragraph at lines 31209--31213 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 31209--31213 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. Underfull \hbox (badness 6188) in paragraph at lines 31231--31233 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [481] [482] [483] [484] [485] [486] [487] [488] [489] Underfull \hbox (badness 1655) in paragraph at lines 31787--31789 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] [504] [505] [506] Underfull \hbox (badness 2261) in paragraph at lines 32906--32911 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [507] Underfull \hbox (badness 10000) in paragraph at lines 32933--32939 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1484) in paragraph at lines 32933--32939 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions like [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] [550] [551] [552] [553] [554] [555] Underfull \hbox (badness 1072) in paragraph at lines 36075--36079 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 36080--36084 []\T1/ptm/m/n/10 The command-line op-tion `\T1/zi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/zi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 36108--36114 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 36120--36127 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 36120--36127 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [556] [557] [558] [559] [560] [561] Underfull \hbox (badness 1142) in paragraph at lines 36473--36479 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is \T1/zi4/m/n/10 "%Y-%m-%d [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] [574] [575] [576] [577] [578] [579] [580] [581] Underfull \hbox (badness 1565) in paragraph at lines 37746--37748 []\T1/ptm/m/n/10 integer code used in \T1/zi4/m/n/10 quantile(*,type=quantile.t ype) \T1/ptm/m/n/10 for the de-fault [582] [583] [584] [585] [586] [587] [588] [589] [590] [591] Underfull \hbox (badness 4967) in paragraph at lines 38345--38350 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [592] [593] Underfull \hbox (badness 1616) in paragraph at lines 38458--38463 \T1/zi4/m/n/10 system("id") \T1/ptm/m/n/10 is much more portable on Unix-alikes , pro-vided only the POSIX op-tions [594] [595] [596] [597] Underfull \vbox (badness 10000) has occurred while \output is active [598] [599] [600] [601] [602] Underfull \hbox (badness 1472) in paragraph at lines 38984--38987 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [603] [604] [605] [606] [607] [608] [609] [610] [611] [612] [613] [614] [615] Underfull \vbox (badness 3803) has occurred while \output is active [616] Underfull \hbox (badness 10000) in paragraph at lines 39898--39902 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., \T1/zi4/m/n/10 length(bin) > [617] [618] [619] [620] Underfull \hbox (badness 10000) in paragraph at lines 40149--40152 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [621] [622] [623] Underfull \hbox (badness 10000) in paragraph at lines 40333--40337 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [624] [625] [626] [627] [628] [629] [630] [631] [632] Underfull \hbox (badness 10000) in paragraph at lines 40946--40949 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [633] [634] [635] [636] [637] [638] Underfull \vbox (badness 10000) has occurred while \output is active [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 1990) in paragraph at lines 41849--41857 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 41849--41857 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/zi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [647] [648] [649] [650] [651] [652] [653] [654] Underfull \hbox (badness 1917) in paragraph at lines 42355--42362 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [655] [656] [657] [658] [659] [660] [661] [662] [663] [664] [665] Underfull \hbox (badness 3668) in paragraph at lines 43084--43086 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [666] [667] Underfull \hbox (badness 2401) in paragraph at lines 43212--43216 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [668] [669] [670] Underfull \hbox (badness 2111) in paragraph at lines 43401--43406 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 10000) in paragraph at lines 43422--43427 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [671] [672] [673] [674] [675] [676] [677] [678] [679] Underfull \hbox (badness 5417) in paragraph at lines 44004--44008 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [680] Underfull \hbox (badness 10000) in paragraph at lines 44065--44069 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [681] [682]) (./compiler-pkg.tex Chapter 2. [683] [684] [685] [686]) (./datasets-pkg.tex Chapter 3. [687] [688] [689] [690] [691] [692] [693] [694] [695] [696] [697] [698] [699] [700] [701] [702] [703] Underfull \hbox (badness 1097) in paragraph at lines 1031--1035 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [704] [705] [706] [707] [708] [709] [710] [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] Underfull \vbox (badness 1448) has occurred while \output is active [727] [728] [729] [730] [731] [732] [733] [734] [735] [736] [737] [738] Overfull \vbox (19.74611pt too high) has occurred while \output is active [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] Underfull \vbox (badness 10000) has occurred while \output is active [755] [756] [757] [758] Underfull \vbox (badness 10000) has occurred while \output is active [759] [760] [761] [762] [763] [764] Overfull \vbox (18.9959pt too high) has occurred while \output is active [765] [766] [767]) (./grDevices-pkg.tex [768] Chapter 4. [769] [770] [771] [772] [773] Underfull \hbox (badness 3158) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, \T1/zi4/m/n/10 c(mi,ma,n.)\T1/ptm /m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][]\T1/zi4/m/n/10 axisTicks[][][]() \T1/ptm/ m/n/10 just calls the C func-tion \T1/zi4/m/n/10 CreateAtVector() \T1/ptm/m/n/1 0 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] Underfull \hbox (badness 5175) in paragraph at lines 1120--1122 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [787] [788] [789] [790] Underfull \hbox (badness 1852) in paragraph at lines 1322--1325 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [791] [792] [793] Underfull \hbox (badness 1490) in paragraph at lines 1528--1533 \T1/ptm/m/n/10 by [][]\T1/zi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/zi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [794] [795] [796] [797] [798] [799] Underfull \hbox (badness 1325) in paragraph at lines 1934--1944 \T1/zi4/m/n/10 "png48"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [800] [801] Underfull \hbox (badness 10000) in paragraph at lines 2046--2048 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [802] [803] [804] Underfull \hbox (badness 6758) in paragraph at lines 2224--2227 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [805] [806] [807] [808] [809] [810] [811] [812] [813] [814] Underfull \hbox (badness 10000) in paragraph at lines 2828--2829 [815] [816] [817] [818] [819] [820] [821] [822] [823] Underfull \hbox (badness 10000) in paragraph at lines 3384--3389 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [824] [825] [826] [827] [828] Underfull \vbox (badness 10000) has occurred while \output is active [829] Underfull \hbox (badness 10000) in paragraph at lines 3785--3788 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as [830] [831] [832] [833] [834] [835] [836] [837] [838] [839] [840] Underfull \hbox (badness 10000) in paragraph at lines 4514--4519 [][][]$\T1/zi4/m/n/10 https : / / www . adobe . com / content / dam / acom / en / devnet / actionscript / articles / PLRM . pdf$[][] Underfull \hbox (badness 4181) in paragraph at lines 4514--4519 \T1/ptm/m/n/10 or PDF [][]$\T1/zi4/m/n/10 https : / / www . adobe . com / devne t / acrobat / pdfs / pdf _ reference _ 1-[]7 . pdf$[][] \T1/ptm/m/n/10 and in [841] Underfull \vbox (badness 10000) has occurred while \output is active [842] [843] Underfull \hbox (badness 1067) in paragraph at lines 4668--4675 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [844] [845] [846] [847] Underfull \hbox (badness 1377) in paragraph at lines 4971--4976 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [848] Underfull \hbox (badness 1418) in paragraph at lines 5047--5054 \T1/ptm/m/n/10 it is one of \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ zi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 1755) in paragraph at lines 5065--5067 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [849] [850] Underfull \hbox (badness 1377) in paragraph at lines 5176--5181 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/zi4/m/n/10 "rgb" \T1/ptm/m/n/10 (which is RGB+gray) and [851] Underfull \hbox (badness 7344) in paragraph at lines 5245--5247 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [852] [853] Underfull \hbox (badness 2035) in paragraph at lines 5380--5389 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/zi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5380--5389 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [854] Underfull \hbox (badness 10000) in paragraph at lines 5448--5455 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / Underfull \hbox (badness 2189) in paragraph at lines 5448--5455 \T1/zi4/m/n/10 chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Lunde's CJK V re-sources are at [][]$\T1/zi4/m/n/10 ftp : / / ftp . oreilly . [855] [856] [857] Underfull \hbox (badness 1546) in paragraph at lines 5590--5598 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/zi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/zi4/m/n/10 width\T1/ptm/m/ n/10 , [858] [859] [860] [861] [862] [863] [864] [865] Underfull \hbox (badness 10000) in paragraph at lines 6125--6128 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [866] [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \hbox (badness 1189) in paragraph at lines 6947--6949 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [879] Underfull \hbox (badness 10000) in paragraph at lines 7045--7047 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [880] [881] [882] [883] [884] Underfull \hbox (badness 3780) in paragraph at lines 7345--7351 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [885] [886] [887] Underfull \hbox (badness 2680) in paragraph at lines 7546--7548 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [888] [889] [890]) (./graphics-pkg.tex Chapter 5. [891] [892] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] [909] [910] [911] [912] Underfull \hbox (badness 4634) in paragraph at lines 1349--1352 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [913] [914] [915] [916] [917] [918] [919] [920] [921] [922] [923] [924] [925] [926] [927] [928] [929] Underfull \hbox (badness 1009) in paragraph at lines 2388--2395 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] [945] [946] [947] [948] [949] [950] [951] [952] Underfull \vbox (badness 10000) has occurred while \output is active [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] Underfull \hbox (badness 3229) in paragraph at lines 4532--4537 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [966] [967] [968] [969] [970] Underfull \hbox (badness 10000) in paragraph at lines 4889--4895 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width,height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4889--4895 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [971] Underfull \hbox (badness 10000) in paragraph at lines 5020--5023 [972] Underfull \hbox (badness 10000) in paragraph at lines 5081--5083 [973 ] [974 ] [975] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [976] Underfull \vbox (badness 3803) has occurred while \output is active [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] [996] [997] [998] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6749--6750 [][] [999] [1000 ] [1001] [1002] [1003] [1004] [1005] [1006] [1007] [1008] [1009] [1010] [1011] [1012] Underfull \hbox (badness 2012) in paragraph at lines 7574--7577 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i],y0[i]) \T1/ptm/m/n/10 and the poi nt [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] Underfull \hbox (badness 10000) in paragraph at lines 8834--8836 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8836--8838 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1034]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8916 \HeaderA{units}{Graphical Units}{units} [1035] [1036] [1037] [1038]) (./grid-pkg.tex Chapter 6. Underfull \vbox (badness 10000) has occurred while \output is active [1039] [1040] [1041] [1042] [1043] [1044] [1045] [1046] Underfull \hbox (badness 2680) in paragraph at lines 483--486 []\T1/ptm/m/n/10 Note that \T1/zi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /zi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Underfull \hbox (badness 4279) in paragraph at lines 1064--1073 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/zi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [1099] [1100] Underfull \vbox (badness 10000) has occurred while \output is active [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] Underfull \hbox (badness 1067) in paragraph at lines 4486--4489 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1115] [1116] [1117] [1118] Underfull \hbox (badness 7256) in paragraph at lines 4731--4733 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] Underfull \hbox (badness 1824) in paragraph at lines 6535--6538 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like \T1/zi4/m/n/10 depth [1150] [1151] [1152] [1153]) (./methods-pkg.tex [1154] Chapter 7. [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] Underfull \vbox (badness 3803) has occurred while \output is active [1163] Underfull \vbox (badness 10000) has occurred while \output is active [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class \T1/zi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] Underfull \hbox (badness 2181) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x,"refClass") \T1/ptm/m/n/10 tests [1182] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to \T1/zi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1183] [1184] [1185] Underfull \hbox (badness 2213) in paragraph at lines 2214--2219 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use \T1/zi4/m/n/10 where = [1186] [1187] [1188] [1189] [1190] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1191] [1192] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1193] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1194] [1195] [1196] [1197] [1198] [1199] [1200] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1201] [1202] [1203] [1204] [1205] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1206] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1207] Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <-setClass("Pos",slots = c(latitude = "numeric",longitude = "numeric",altitude [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] [1216] [1217] [1218] Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\T1/ptm/m/n/10 class [][]\T1/zi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] [1227] [1228] Underfull \vbox (badness 10000) has occurred while \output is active [1229] [1230] [1231] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\T1/ptm/m/n/10 Object of class \T1/zi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1232] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1233] [1234] [1235] [1236] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1245] [1246] [1247] [1248] Underfull \vbox (badness 10000) has occurred while \output is active [1249] [1250] [1251] [1252]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1253] [1254] [1255]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1256] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1257] [1258] [1259] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1260] [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] Underfull \vbox (badness 10000) has occurred while \output is active [1287] [1288] [1289] [1290] [1291] [1292] [1293] [1294] Underfull \hbox (badness 1137) in paragraph at lines 10011--10019 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form \T1/zi4/m/n/10 ne w("signature",functionDef,...)\T1/ptm/m/n/10 . The [1295] [1296] [1297] [1298] [1299] [1300] [1301] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1302] [1303] [1304] [1305]) (./parallel-pkg.tex [1306] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `\T1/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] Underfull \hbox (badness 3386) in paragraph at lines 1365--1368 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1328] [1329] [1330]) (./splines-pkg.tex Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346]) (./stats-pkg.tex Chapter 10. [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] Underfull \hbox (badness 1412) in paragraph at lines 875--877 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1361] [1362] [1363] [1364] [1365] [1366] [1367] [1368] Underfull \hbox (badness 2503) in paragraph at lines 1356--1359 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1369] [1370] [1371] Underfull \hbox (badness 10000) in paragraph at lines 1536--1540 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov","lm") \T1/ptm/m/n/1 0 or for mul-ti-ple re-sponses of class [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] [1401] Underfull \hbox (badness 2503) in paragraph at lines 3435--3438 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] Underfull \hbox (badness 1127) in paragraph at lines 4349--4352 []\T1/ptm/m/n/10 standardized resid-u-als, \T1/zi4/m/n/10 (observed -expected) / sqrt(V)\T1/ptm/m/n/10 , where \T1/zi4/m/n/10 V \T1/ptm/m/n/10 is the [1417] [1418] [1419] [1420] [1421] Underfull \hbox (badness 3989) in paragraph at lines 4679--4686 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] Underfull \hbox (badness 2556) in paragraph at lines 5315--5318 []\T1/ptm/m/n/10 character; par-tially matched to \T1/zi4/m/n/10 "circular"\T1/ ptm/m/n/10 , \T1/zi4/m/n/10 "open"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5332--5334 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1432] [1433] [1434] [1435] [1436] [1437] [1438] Underfull \hbox (badness 2503) in paragraph at lines 5724--5728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] Underfull \hbox (badness 7081) in paragraph at lines 6518--6521 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/zi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6522--6524 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1452] [1453] [1454] [1455] [1456] Underfull \vbox (badness 3803) has occurred while \output is active [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] Underfull \hbox (badness 10000) in paragraph at lines 7367--7370 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \vbox (badness 10000) has occurred while \output is active [1487] [1488] [1489] [1490] [1491] Underfull \hbox (badness 2626) in paragraph at lines 9044--9047 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 9151--9155 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] Underfull \hbox (badness 4518) in paragraph at lines 10461--10466 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1514] [1515] [1516] [1517] [1518] Underfull \hbox (badness 2142) in paragraph at lines 10821--10824 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10840--10843 []\T1/ptm/m/n/10 When \T1/zi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/zi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1519] Underfull \hbox (badness 1708) in paragraph at lines 10902--10906 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1520] [1521] [1522] [1523] [1524] [1525] Underfull \hbox (badness 1694) in paragraph at lines 11298--11301 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1526] [1527] [1528] [1529] [1530] [1531] Underfull \hbox (badness 10000) in paragraph at lines 11625--11628 []\T1/ptm/m/n/10 If one of $\OML/cmm/m/it/10 m; n; k$\T1/ptm/m/n/10 , ex-ceeds [][]\T1/zi4/m/n/10 .Machine[][][]$integer.max\T1/ptm/m/n/10 , cur-rently the eq uiv-a-lent of Underfull \hbox (badness 1281) in paragraph at lines 11625--11628 \T1/zi4/m/n/10 qhyper(runif(nn),m,n,k) \T1/ptm/m/n/10 is used, when a bi-no-mia l ap-prox-i-ma-tion may be con-sid-er-ably [1532] [1533]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.hat}) has been already used, duplicate ignored \relax l.11779 \aliasA{hat}{influence.measures}{hat} [1534] [1535] Underfull \hbox (badness 1484) in paragraph at lines 11914--11916 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1536] [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] Underfull \hbox (badness 10000) in paragraph at lines 12507--12509 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when \T1/zi4/m/n/10 SSinit = [1546] [1547] [1548] [1549] [1550] [1551] Underfull \hbox (badness 2894) in paragraph at lines 12843--12847 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] Underfull \hbox (badness 4518) in paragraph at lines 13593--13598 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] Underfull \hbox (badness 4518) in paragraph at lines 14245--14250 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1574] [1575] Underfull \hbox (badness 8151) in paragraph at lines 14383--14387 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = "interp olate",statistics = Underfull \hbox (badness 1199) in paragraph at lines 14390--14392 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if \T1/zi4/m/n/10 family \T1/ptm/m/n/10 is [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] Underfull \hbox (badness 2503) in paragraph at lines 15461--15465 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 4621) in paragraph at lines 15973--15979 []\T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/zi4/m/n/10 model.extract(,"offset") \T1/ ptm/m/n/10 and [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610] [1611] [1612] [1613] [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] Underfull \vbox (badness 10000) has occurred while \output is active [1630] Underfull \vbox (badness 10000) has occurred while \output is active [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] Underfull \hbox (badness 1377) in paragraph at lines 18567--18572 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18572--18575 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on [1644] Underfull \hbox (badness 2343) in paragraph at lines 18585--18589 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18585--18589 \T1/ptm/m/n/10 the value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18593--18597 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1645] [1646] [1647] Overfull \hbox (15.73795pt too wide) in paragraph at lines 18818--18818 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 18821--18821 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] Underfull \vbox (badness 10000) has occurred while \output is active [1648] [1649] [1650] [1651] [1652] [1653] [1654] Underfull \hbox (badness 1337) in paragraph at lines 19243--19246 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] Underfull \hbox (badness 3049) in paragraph at lines 19739--19743 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1664] [1665] [1666] [1667] Underfull \hbox (badness 1194) in paragraph at lines 19997--20000 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1668] [1669] [1670] [1671] [1672] [1673] [1674] Underfull \hbox (badness 2503) in paragraph at lines 20372--20375 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/zi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , Underfull \hbox (badness 3919) in paragraph at lines 20399--20401 []\T1/ptm/m/n/10 the char-ac-ter string \T1/zi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or \T1/zi4/m/n/10 "Comparison of Poisson [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] [1686] [1687] [1688] [1689] [1690] [1691] [1692] Underfull \hbox (badness 10000) in paragraph at lines 21476--21482 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/zi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709] [1710] [1711] [1712] [1713] [1714] [1715] Underfull \hbox (badness 1337) in paragraph at lines 22823--22829 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Overfull \hbox (27.74408pt too wide) in paragraph at lines 23388--23388 [] \T1/zi4/m/n/9 t(vapply(1:9, function(typ) quantile(x, prob=prob, type = ty p, ...), quantile(x, prob, type=1)))[] [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 10000) in paragraph at lines 23639--23642 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 4205) in paragraph at lines 23639--23642 \T1/zi4/m/n/10 cutree(hclust.obj,k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1729] [1730] [1731] [1732] [1733] [1734] [1735] [1736] [1737] Underfull \hbox (badness 10000) in paragraph at lines 24224--24227 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x,k) \T1/ptm/m/n/10 sim-ply has \T1/zi4/m/n/10 y[j] = [1738] Underfull \hbox (badness 3690) in paragraph at lines 24276--24280 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] Underfull \hbox (badness 2165) in paragraph at lines 24753--24758 []\T1/ptm/m/n/10 Each of the fol-low-ing are \T1/zi4/m/n/10 "selfStart" \T1/ptm /m/n/10 mod-els (with ex-am-ples) [][]\T1/zi4/m/n/10 SSasymp[][][]\T1/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1747] [1748] [1749] [1750] Underfull \hbox (badness 1867) in paragraph at lines 24958--24960 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 24971--24975 \T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <-[][]nobs[][][](object,use.fallback = u se.fallback) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 PP [1751] [1752] [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \vbox (badness 3803) has occurred while \output is active [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] Underfull \vbox (badness 10000) has occurred while \output is active [1774] [1775] Underfull \hbox (badness 3514) in paragraph at lines 26510--26515 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1776] [1777] [1778] [1779] Overfull \hbox (2.23795pt too wide) in paragraph at lines 26744--26744 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 26780--26786 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1780] [1781] [1782] [1783] Underfull \hbox (badness 3514) in paragraph at lines 26994--26999 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1784] [1785] Underfull \hbox (badness 3514) in paragraph at lines 27081--27086 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1786] Underfull \hbox (badness 3514) in paragraph at lines 27146--27151 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1787] [1788] Underfull \hbox (badness 3514) in paragraph at lines 27240--27245 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1789] Underfull \hbox (badness 6691) in paragraph at lines 27332--27337 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] Underfull \hbox (badness 4024) in paragraph at lines 27862--27865 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] Underfull \hbox (badness 5431) in paragraph at lines 28468--28470 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1809] [1810] [1811] Underfull \hbox (badness 5431) in paragraph at lines 28678--28681 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1812] [1813] [1814] [1815] [1816] [1817] Underfull \hbox (badness 1337) in paragraph at lines 28992--28996 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1818] [1819] [1820] [1821] [1822] Underfull \hbox (badness 1616) in paragraph at lines 29294--29297 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] [1840] [1841] Underfull \hbox (badness 3557) in paragraph at lines 30424--30428 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect \T1/zi4 /m/n/10 interval = [1842] [1843] [1844] Underfull \vbox (badness 10000) has occurred while \output is active [1845] [1846] [1847] Underfull \hbox (badness 1337) in paragraph at lines 30788--30792 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1848] [1849] [1850] [1851] [1852] [1853] [1854] [1855] [1856] Underfull \hbox (badness 1337) in paragraph at lines 31315--31319 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] [1865] [1866]) (./stats4-pkg.tex Chapter 11. [1867] [1868] [1869] [1870] [1871] [1872]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1873] [1874] [1875]) (./tcltk-pkg.tex [1876] Chapter 12. [1877] [1878] [1879] [1880] [1881] [1882] [1883] Underfull \vbox (badness 10000) has occurred while \output is active [1884] Underfull \vbox (badness 10000) has occurred while \output is active [1885] Underfull \hbox (badness 1546) in paragraph at lines 664--671 []\T1/zi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1886] [1887] [1888] [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897]) (./tools-pkg.tex [1898] Chapter 13. [1899] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1900] Underfull \hbox (badness 3039) in paragraph at lines 164--167 []\T1/zi4/m/n/10 assertWarning() \T1/ptm/m/n/10 as-serts that a warn-ing will b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1901] [1902] Underfull \hbox (badness 1308) in paragraph at lines 285--298 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 285--298 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][]\T1/zi4/m/n/10 bibe ntry[][][] \T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 285--298 \T1/zi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/zi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1903] [1904] Underfull \hbox (badness 3039) in paragraph at lines 389--391 []\T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gine to use. Over-rides any [1905] [1906] [1907] [1908] [1909] [1910] [1911] [1912] [1913] [1914] [1915] [1916] Underfull \hbox (badness 4441) in paragraph at lines 1139--1149 \T1/ptm/m/n/10 giv-ing the repos-i-to-ries to use for lo-cat-ing re-verse de-pe n-den-cies (de- [1917] Underfull \hbox (badness 1014) in paragraph at lines 1163--1165 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1169--1171 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1918] Underfull \hbox (badness 10000) in paragraph at lines 1206--1209 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1206--1209 \T1/zi4/m/n/10 summarize_check_packages_in_dir_results \T1/ptm/m/n/10 and \T1/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1919] [1920] [1921] [1922] [1923] Underfull \hbox (badness 2293) in paragraph at lines 1558--1560 []\T1/zi4/m/n/10 CRAN_memtest_notes() \T1/ptm/m/n/10 is now dep-re-cated, with its func-tion-al-ity in-te-grated into that of [1924] [1925] Underfull \hbox (badness 7981) in paragraph at lines 1696--1701 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 1082) in paragraph at lines 1703--1705 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/zi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1926] [1927] [1928] [1929]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ignored \relax l.1900 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1930] [1931] [1932] [1933] [1934] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2202--2202 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [1935] [1936] [1937] Underfull \hbox (badness 7981) in paragraph at lines 2371--2377 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1938] [1939] [1940] [1941] [1942] [1943] [1944] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/n' instead on input line 2837. [1945] [1946] [1947] [1948] Underfull \hbox (badness 1424) in paragraph at lines 3119--3121 []\T1/zi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1949] [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] Underfull \hbox (badness 10000) in paragraph at lines 3823--3825 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1961] [1962] Underfull \hbox (badness 10000) in paragraph at lines 3962--3965 []\T1/ptm/m/n/10 Where sup-ported (\T1/zi4/m/sl/10 texi2dvi \T1/ptm/m/n/10 5.0 and later; \T1/zi4/m/sl/10 texify.exe \T1/ptm/m/n/10 from MiK-TeX), op-tion [1963] [1964] Underfull \hbox (badness 1137) in paragraph at lines 4064--4066 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [1965] [1966] [1967] [1968] [1969] Underfull \hbox (badness 1796) in paragraph at lines 4372--4377 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over \T 1/zi4/m/sl/10 write_PACKAGES \T1/ptm/m/n/10 in the \T1/zi4/m/sl/10 type == [1970] Underfull \hbox (badness 1838) in paragraph at lines 4446--4452 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/sl/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/sl/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4446--4452 \T1/ptm/m/n/10 `\T1/zi4/m/sl/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [1971] [1972] [1973] Underfull \hbox (badness 2197) in paragraph at lines 4662--4672 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/sl/10 available.packages[][][]\T1/ptm/m/n/10 : [1974] Underfull \hbox (badness 1571) in paragraph at lines 4725--4729 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [1975] [1976] [1977]) (./utils-pkg.tex [1978] Chapter 14. [1979] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/zi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1980] [1981] [1982] [1983] [1984] Underfull \hbox (badness 10000) in paragraph at lines 376--381 \T1/zi4/m/sl/10 c("vertical","horizontal","cascade","minimize","restore") \T1/p tm/m/n/10 with [1985] [1986] [1987] [1988] [1989] Underfull \hbox (badness 10000) in paragraph at lines 717--723 []\T1/ptm/m/n/10 Functions \T1/zi4/m/sl/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/sl/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 717--723 \T1/zi4/m/sl/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [1990] [1991] Underfull \hbox (badness 5847) in paragraph at lines 850--856 []\T1/ptm/m/n/10 Argument \T1/zi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 850--856 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1992] Underfull \hbox (badness 3861) in paragraph at lines 918--923 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/sl/10 "O S_type"\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 "License"\T1/ptm/m/n/10 , \T1/zi4/m/sl/ 10 "License_is_FOSS"\T1/ptm/m/n/10 , [1993] [1994] Underfull \hbox (badness 3323) in paragraph at lines 1089--1097 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use \T1/zi4/m/sl/1 0 bibtex = T|F \T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m$\T1 /ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 3735) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/sl/10 getOption[][][]("citation.bibtex.ma x",1) \T1/ptm/m/n/10 which is \T1/zi4/m/sl/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 1089--1097 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by [1995] Underfull \hbox (badness 10000) in paragraph at lines 1101--1103 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [1996] [1997] Underfull \vbox (badness 3803) has occurred while \output is active [1998] [1999] [2000] [2001] [2002] Underfull \hbox (badness 1371) in paragraph at lines 1606--1608 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2003] [2004] [2005] [2006] [2007] [2008] [2009] [2010] [2011] [2012] Underfull \hbox (badness 2057) in paragraph at lines 2215--2217 []\T1/ptm/m/n/10 None for \T1/zi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [2013] [2014] [2015] [2016] [2017] [2018]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2566 ... the Clipboard in MS Windows}{clipboard} [2019] [2020] Underfull \hbox (badness 1748) in paragraph at lines 2733--2736 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [2021] [2022] [2023] [2024] [2025] [2026] [2027] Underfull \hbox (badness 5388) in paragraph at lines 3142--3146 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/sl/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/sl/10 .TXT\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[][][](...,header = Underfull \hbox (badness 2285) in paragraph at lines 3147--3150 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/sl/10 read.table[] [][](...,header = TRUE,sep = [2028] [2029] [2030] [2031] [2032] [2033] [2034] [2035] [2036] [2037] [2038] Underfull \hbox (badness 1430) in paragraph at lines 3906--3914 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/zi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the [2039] Underfull \hbox (badness 1231) in paragraph at lines 3983--3995 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2040] [2041] Underfull \hbox (badness 10000) in paragraph at lines 4143--4145 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/sl/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2042] [2043] [2044] [2045] [2046] [2047] [2048] [2049] [2050] [2051] [2052] [2053]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.for mat}) has been already used, duplicate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4841 ...mat Unordered and Ordered Lists}{format} [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 1622) in paragraph at lines 5360--5364 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2062] [2063] [2064] [2065] [2066] [2067] [2068] [2069] [2070] [2071] Underfull \hbox (badness 1371) in paragraph at lines 5996--5998 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [2072] Underfull \hbox (badness 1502) in paragraph at lines 6085--6090 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6085--6090 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2073] [2074] [2075] Underfull \hbox (badness 10000) in paragraph at lines 6258--6267 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2076] Underfull \hbox (badness 2150) in paragraph at lines 6322--6325 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2077] [2078] Underfull \hbox (badness 3118) in paragraph at lines 6460--6462 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2079] [2080] [2081] Underfull \hbox (badness 1325) in paragraph at lines 6632--6636 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/sl/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able Underfull \hbox (badness 4726) in paragraph at lines 6644--6650 \T1/ptm/m/n/10 used if \T1/zi4/m/sl/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of [2082] Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 6716--6719 \T1/ptm/m/n/10 passed to \T1/zi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g., [2083] Underfull \hbox (badness 3219) in paragraph at lines 6792--6799 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/sl/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 6792--6799 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 6792--6799 [][]\T1/zi4/m/sl/10 getOption[][][]("install.packages.compile.from.source")\T1/ ptm/m/n/10 . \T1/zi4/m/sl/10 type = "both" \T1/ptm/m/n/10 will be silently Underfull \hbox (badness 2932) in paragraph at lines 6800--6803 []\T1/ptm/m/n/10 Using pack-ages with \T1/zi4/m/sl/10 type = "source" \T1/ptm/m /n/10 al-ways works pro-vided the pack-age con-tains no [2084] Underfull \hbox (badness 10000) in paragraph at lines 6934--6939 [][][]\T1/zi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [2085] [2086] [2087] [2088] [2089] [2090] [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] Underfull \hbox (badness 10000) in paragraph at lines 8434--8436 []\T1/ptm/m/n/10 for \T1/zi4/m/sl/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/sl/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 2310) in paragraph at lines 8456--8461 []\T1/ptm/m/n/10 If a `\T1/zi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2110] [2111] [2112] [2113] [2114] [2115] [2116] [2117] Underfull \hbox (badness 1248) in paragraph at lines 8980--8984 []\T1/zi4/m/sl/10 R CMD build \T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/m/ n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2118] Underfull \hbox (badness 1789) in paragraph at lines 9058--9060 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127] [2128] Underfull \vbox (badness 10000) has occurred while \output is active [2129] [2130] [2131] Underfull \hbox (badness 1097) in paragraph at lines 9895--9898 []\T1/ptm/m/n/10 The name \T1/zi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2132] [2133] Underfull \hbox (badness 3000) in paragraph at lines 10031--10036 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [2134] [2135] [2136] [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 2134) in paragraph at lines 10614--10619 [][][]\T1/zi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 10670--10675 \T1/zi4/m/sl/10 HKEY_LOCAL_MACHINE\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 HKEY_CLASSES _ROOT\T1/ptm/m/n/10 . \T1/zi4/m/sl/10 HKEY_CURRENT_USER\T1/ptm/m/n/10 , [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] [2151] Underfull \hbox (badness 2469) in paragraph at lines 11163--11167 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11163--11167 [][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2152] [2153] [2154] [2155] [2156] Underfull \hbox (badness 4060) in paragraph at lines 11494--11497 []\T1/ptm/m/n/10 If `\T1/zi4/m/sl/10 --default-packages\T1/ptm/m/n/10 ' is not used, then \T1/zi4/m/sl/10 Rscript \T1/ptm/m/n/10 checks the en-vi-ron-ment var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 11517--11517 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2157] [2158] [2159] [2160] Underfull \hbox (badness 2150) in paragraph at lines 11756--11758 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 https : / / www . gnu . org / software / emac s / manual / [2161] [2162] [2163] [2164] Underfull \hbox (badness 10000) in paragraph at lines 11975--11979 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12006--12012 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2165] [2166] [2167] Underfull \hbox (badness 1009) in paragraph at lines 12200--12212 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12237--12239 []\T1/ptm/m/n/10 The file `\T1/zi4/m/sl/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI (\T1/zi4/m/sl/10 Rgui\T1/ptm/m/n/10 ) con-sole un-der MS Win-dows a nd [2168] Underfull \hbox (badness 1077) in paragraph at lines 12267--12274 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2169] [2170] [2171] [2172] [2173] [2174] Underfull \hbox (badness 3780) in paragraph at lines 12668--12672 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][]\T1 /zi4/m/sl/10 options[][][]("BioC_mirror")\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 12684--12687 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2175] [2176] [2177] [2178] Underfull \hbox (badness 2302) in paragraph at lines 12889--12891 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2179] [2180] [2181] [2182] Underfull \hbox (badness 10000) in paragraph at lines 13185--13190 []\T1/ptm/m/n/10 logical; if \T1/zi4/m/sl/10 TRUE \T1/ptm/m/n/10 (de-fault), [] []\T1/zi4/m/sl/10 deparse[][][](control = ) \T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 13194--13197 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2183] [2184] Underfull \vbox (badness 10000) has occurred while \output is active [2185] [2186] [2187] [2188] [2189] Underfull \hbox (badness 2932) in paragraph at lines 13614--13621 []\T1/ptm/m/n/10 If \T1/zi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 13614--13621 \T1/ptm/m/n/10 and se-lected if their \T1/zi4/m/sl/10 extension \T1/ptm/m/n/10 com-po-nent matches (as a reg-exp) the file name. Ob- [2190] [2191] [2192] [2193] [2194] Underfull \hbox (badness 6510) in paragraph at lines 13923--13927 []\T1/ptm/m/n/10 When ar-gu-ment \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 is set to t he com-mand \T1/zi4/m/sl/10 tar \T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-a ble Underfull \hbox (badness 10000) in paragraph at lines 13930--13933 [][][]$\T1/zi4/m/sl/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 13930--13933 \T1/zi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2195] [2196] [2197] [2198] [2199] [2200] [2201] [2202] [2203] [2204] Underfull \hbox (badness 10000) in paragraph at lines 14594--14599 []\T1/ptm/m/n/10 Arguments such as \T1/zi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/zi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 14594--14599 [][]\T1/zi4/m/sl/10 install.packages[][][] \T1/ptm/m/n/10 and \T1/zi4/m/sl/10 i gnore_repo_cache\T1/ptm/m/n/10 , \T1/zi4/m/sl/10 max_repo_cache_age \T1/ptm/m/n /10 and Underfull \hbox (badness 1052) in paragraph at lines 14600--14602 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See [2205] Underfull \hbox (badness 10000) in paragraph at lines 14659--14662 [][][]\T1/zi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [2206] [2207] [2208] [2209] [2210] [2211] [2212] [2213] [2214] [2215] [2216] [2217] Underfull \hbox (badness 10000) in paragraph at lines 15432--15434 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion e.g. \T1/zi4/m/sl/10 file = [2218] [2219] [2220] [2221]) [2222] (./fullrefman.ind [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] [2234] [2235] [2236] [2237] [2238] [2239] [2240] [2241] [2242] [2243] [2244] [2245] [2246] [2247] [2248] [2249] [2250] [2251] [2252] [2253] [2254] [2255] [2256] [2257] [2258] [2259] [2260] [2261] [2262] [2263] [2264] [2265] [2266] [2267] [2268] [2269] [2270] [2271] [2272] Overfull \hbox (33.3567pt too wide) in paragraph at lines 8852--8854 []\T1/zi4/m/it/10 package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [2273] [2274] [2275] [2276] [2277] [2278] Overfull \hbox (20.8567pt too wide) in paragraph at lines 10175--10177 []\T1/zi4/m/it/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [2279] [2280] [2281] [2282] [2283] [2284] [2285] [2286] Overfull \hbox (5.8567pt too wide) in paragraph at lines 11923--11925 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_depends Overfull \hbox (5.8567pt too wide) in paragraph at lines 11925--11927 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_results Overfull \hbox (5.8567pt too wide) in paragraph at lines 11927--11929 []\T1/zi4/m/it/10 summarize_check_packages_in_dir_timings [2287] [2288] [2289] [2290] [2291] [2292] [2293] [2294] [2295]) (./fullrefman.aux) LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.gamma.shape} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.profile.glm} has been referenced but 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Transcript written on fullrefman.log. make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' /usr/bin/make -k vignettes make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/m4' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tools' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/etc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/home/jranke/git/r-backports/buster/r-base-3.6.0"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' /home/jranke/git/r-backports/buster/r-base-3.6.0/lib/libR.so is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' /home/jranke/git/r-backports/buster/r-base-3.6.0/bin/exec/R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' /home/jranke/git/r-backports/buster/r-base-3.6.0/modules/R_X11.so is unchanged /home/jranke/git/r-backports/buster/r-base-3.6.0/modules/R_de.so is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' building system startup profile make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/profile' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' building package 'translations' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/translations' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' building package 'base' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' all.R is unchanged make[5]: Leaving directory 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'/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' building package 'compiler' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/compiler' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tools' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' building package 'utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/utils' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[9]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grDevices' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' building package 'graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/graphics' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' building package 'stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' building package 'datasets' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/datasets' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' building package 'methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/methods' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' building package 'grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/grid' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' building package 'splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/splines' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' building package 'stats4' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/stats4' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk/src' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/tcltk' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' building package 'parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[6]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[7]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[6]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel/src' make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/parallel' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/html' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' installing parsed Rd make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' building/updating package metadata ... make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' writing package indices make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/Recommended' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library/Recommended' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' building/updating vignettes for package 'grid' ... processing 'grid.Rnw' building/updating vignettes for package 'parallel' ... building/updating vignettes for package 'utils' ... make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' touch make-indep-stamp *** check *** xvfb-run make check-all make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests/Examples' Testing examples for package 'base' Testing examples for package 'tools' comparing 'tools-Ex.Rout' to 'tools-Ex.Rout.save' ... OK Testing examples for package 'utils' Testing examples for package 'grDevices' comparing 'grDevices-Ex.Rout' to 'grDevices-Ex.Rout.save' ... OK Testing examples for package 'graphics' comparing 'graphics-Ex.Rout' to 'graphics-Ex.Rout.save' ... OK Testing examples for package 'stats' comparing 'stats-Ex.Rout' to 'stats-Ex.Rout.save' ... OK Testing examples for package 'datasets' comparing 'datasets-Ex.Rout' to 'datasets-Ex.Rout.save' ... OK Testing examples for package 'methods' Testing examples for package 'grid' comparing 'grid-Ex.Rout' to 'grid-Ex.Rout.save' ... OK Testing examples for package 'splines' comparing 'splines-Ex.Rout' to 'splines-Ex.Rout.save' ... OK Testing examples for package 'stats4' comparing 'stats4-Ex.Rout' to 'stats4-Ex.Rout.save' ... OK Testing examples for package 'tcltk' Testing examples for package 'compiler' Testing examples for package 'parallel' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests/Examples' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' running strict specific tests make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' running code in 'eval-etc.R' ... OK comparing 'eval-etc.Rout' to './eval-etc.Rout.save' ... OK running code in 'simple-true.R' ... OK comparing 'simple-true.Rout' to './simple-true.Rout.save' ... OK running code in 'arith-true.R' ... OK comparing 'arith-true.Rout' to './arith-true.Rout.save' ... OK running code in 'arith.R' ... OK comparing 'arith.Rout' to './arith.Rout.save' ... OK running code in 'lm-tests.R' ... OK comparing 'lm-tests.Rout' to './lm-tests.Rout.save' ... OK running code in 'ok-errors.R' ... OK comparing 'ok-errors.Rout' to './ok-errors.Rout.save' ... OK running code in 'method-dispatch.R' ... OK comparing 'method-dispatch.Rout' to './method-dispatch.Rout.save' ... OK running code in 'any-all.R' ... OK comparing 'any-all.Rout' to './any-all.Rout.save' ... OK running code in 'd-p-q-r-tests.R' ... OK comparing 'd-p-q-r-tests.Rout' to './d-p-q-r-tests.Rout.save' ... OK make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' running sloppy specific tests make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' running code in 'complex.R' ... OK comparing 'complex.Rout' to './complex.Rout.save' ... OK running code in 'eval-etc-2.R' ... OK comparing 'eval-etc-2.Rout' to './eval-etc-2.Rout.save' ...72,74c72,236 < Warning message: < In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : < there is no package called 'Matrix' --- > > cat("Trying some Matrix objects, too\n") > Trying some Matrix objects, too > > D5. <- Diagonal(x = 5:1) > > D5N <- D5. > > D5N[5, 5] <- NA > > example(Matrix) > > Matrix> Matrix(0, 3, 2) # 3 by 2 matrix of zeros -> sparse > 3 x 2 sparse Matrix of class "dgCMatrix" > > [1,] . . > [2,] . . > [3,] . . > > Matrix> Matrix(0, 3, 2, sparse=FALSE)# -> 'dense' > 3 x 2 Matrix of class "dgeMatrix" > [,1] [,2] > [1,] 0 0 > [2,] 0 0 > [3,] 0 0 > > Matrix> Matrix(0, 2, 2, sparse=FALSE)# diagonal ! > 2 x 2 diagonal matrix of class "ddiMatrix" > [,1] [,2] > [1,] 0 . > [2,] . 0 > > Matrix> Matrix(0, 2, 2, sparse=FALSE, doDiag=FALSE)# -> dense > 2 x 2 Matrix of class "dsyMatrix" > [,1] [,2] > [1,] 0 0 > [2,] 0 0 > > Matrix> Matrix(1:6, 3, 2) # a 3 by 2 matrix (+ integer warning) > 3 x 2 Matrix of class "dgeMatrix" > [,1] [,2] > [1,] 1 4 > [2,] 2 5 > [3,] 3 6 > > Matrix> Matrix(1:6 + 1, nrow=3) > 3 x 2 Matrix of class "dgeMatrix" > [,1] [,2] > [1,] 2 5 > [2,] 3 6 > [3,] 4 7 > > Matrix> ## logical ones: > Matrix> Matrix(diag(4) > 0)# -> "ldiMatrix" with diag = "U" > 4 x 4 diagonal matrix of class "ldiMatrix" > [,1] [,2] [,3] [,4] > [1,] TRUE . . . > [2,] . TRUE . . > [3,] . . TRUE . > [4,] . . . TRUE > > Matrix> Matrix(diag(4) > 0, sparse=TRUE)# -> sparse... > 4 x 4 sparse Matrix of class "lsCMatrix" > > [1,] | . . . > [2,] . | . . > [3,] . . | . > [4,] . . . | > > Matrix> Matrix(diag(4) >= 0)# -> "lsyMatrix" (of all 'TRUE') > 4 x 4 Matrix of class "lsyMatrix" > [,1] [,2] [,3] [,4] > [1,] TRUE TRUE TRUE TRUE > [2,] TRUE TRUE TRUE TRUE > [3,] TRUE TRUE TRUE TRUE > [4,] TRUE TRUE TRUE TRUE > > Matrix> ## triangular > Matrix> l3 <- upper.tri(matrix(,3,3)) > > Matrix> (M <- Matrix(l3)) # -> "ltCMatrix" > 3 x 3 sparse Matrix of class "ltCMatrix" > > [1,] . | | > [2,] . . | > [3,] . . . > > Matrix> Matrix(! l3)# -> "ltrMatrix" > 3 x 3 Matrix of class "ltrMatrix" > [,1] [,2] [,3] > [1,] TRUE . . > [2,] TRUE TRUE . > [3,] TRUE TRUE TRUE > > Matrix> as(l3, "CsparseMatrix") > 3 x 3 sparse Matrix of class "lgCMatrix" > > [1,] . | | > [2,] . . | > [3,] . . . > > Matrix> Matrix(1:9, nrow=3, > Matrix+ dimnames = list(c("a", "b", "c"), c("A", "B", "C"))) > 3 x 3 Matrix of class "dgeMatrix" > A B C > a 1 4 7 > b 2 5 8 > c 3 6 9 > > Matrix> (I3 <- Matrix(diag(3)))# identity, i.e., unit "diagonalMatrix" > 3 x 3 diagonal matrix of class "ddiMatrix" > [,1] [,2] [,3] > [1,] 1 . . > [2,] . 1 . > [3,] . . 1 > > Matrix> str(I3) # note the empty 'x' slot > Formal class 'ddiMatrix' [package "Matrix"] with 4 slots > ..@ diag : chr "U" > ..@ Dim : int [1:2] 3 3 > ..@ Dimnames:List of 2 > .. ..$ : NULL > .. ..$ : NULL > ..@ x : num(0) > > Matrix> (A <- cbind(a=c(2,1), b=1:2))# symmetric *apart* from dimnames > a b > [1,] 2 1 > [2,] 1 2 > > Matrix> Matrix(A) # hence 'dgeMatrix' > 2 x 2 Matrix of class "dgeMatrix" > a b > [1,] 2 1 > [2,] 1 2 > > Matrix> (As <- Matrix(A, dimnames = list(NULL,NULL)))# -> symmetric > 2 x 2 Matrix of class "dsyMatrix" > [,1] [,2] > [1,] 2 1 > [2,] 1 2 > > Matrix> stopifnot(is(As, "symmetricMatrix"), > Matrix+ is(Matrix(0, 3,3), "sparseMatrix"), > Matrix+ is(Matrix(FALSE, 1,1), "sparseMatrix")) > > i <- c(1, 3:8) > > j <- c(2, 9, 6:10) > > x <- 7 * (1:7) > > A <- sparseMatrix(i, j, x = x) > > sA <- sparseMatrix(i, j, x = x, symmetric = TRUE) > > tA <- sparseMatrix(i, j, x = x, triangular = TRUE) > > AA <- sparseMatrix(c(1, 3:8), c(2, 9, 6:10), x = 7 * (1:7), dims = c(10, > + 20)) > > set.seed(1) > > (perm <- sample(1:7)) > [1] 1 4 7 2 5 3 6 > > A1 <- sparseMatrix(i[perm], j[perm], x = x[perm]) > > args <- data.frame(i = c(i, 1), j = c(j, 2), x = c(x, 2)) > > Aa <- do.call(sparseMatrix, args) > > A. <- do.call(sparseMatrix, c(args, list(use.last.ij = TRUE))) > > nA <- do.call(sparseMatrix, args[c("i", "j")]) > > dn <- list(LETTERS[1:3], letters[1:5]) > > m <- sparseMatrix(i = c(3, 1, 3:2, 2:1), p = c(0:2, 4, 4, 6), x = 1:6, > + dimnames = dn) > > n <- sparseMatrix(i = 1:6, j = rev(2:7)) > > e <- sparseMatrix(dims = c(4, 6), i = { > + }, j = { > + }) > > sy <- sparseMatrix(i = c(2, 4, 3:5), j = c(4, 7:5, 5), x = 1:5, dims = c(7, > + 7), symmetric = TRUE) 76a239,290 > A: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), x = c(7, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > A.: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), x = c(2, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > A1: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), x = c(7, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > AA: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L, 7L, 7L, 7L, 7L, 7L, 7L, > 7L, 7L, 7L, 7L), Dim = c(10L, 20L), Dimnames = list(NULL, NULL), > x = c(7, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > Aa: new("dgCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), x = c(9, 21, 28, 35, 14, 42, 49), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > As: new("dsyMatrix", x = c(2, 1, 1, 2), Dim = c(2L, 2L), Dimnames = list( > NULL, NULL), uplo = "U", factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > D5.: new("ddiMatrix", diag = "N", Dim = c(5L, 5L), Dimnames = list( > NULL, NULL), x = c(5, 4, 3, 2, 1)) > --> checking list(*): Ok > --=--=--=--=-- > D5N: new("ddiMatrix", diag = "N", Dim = c(5L, 5L), Dimnames = list( > NULL, NULL), x = c(5, 4, 3, 2, NA)) > --> checking list(*): Ok > --=--=--=--=-- > I3: new("ddiMatrix", diag = "U", Dim = c(3L, 3L), Dimnames = list( > NULL, NULL), x = numeric(0)) > --> checking list(*): Ok > --=--=--=--=-- > M: new("ltCMatrix", i = c(0L, 0L, 1L), p = c(0L, 0L, 1L, 3L), Dim = c(3L, > 3L), Dimnames = list(NULL, NULL), x = c(TRUE, TRUE, TRUE), uplo = "U", > diag = "N") > --> checking list(*): Ok > --=--=--=--=-- > args: structure(list(i = c(1, 3, 4, 5, 6, 7, 8, 1), j = c(2, 9, 6, > 7, 8, 9, 10, 2), x = c(7, 14, 21, 28, 35, 42, 49, 2)), class = "data.frame", row.names = c(NA, > -8L)) > --> checking list(*): Ok > --=--=--=--=-- 178a393,399 > dn: list(c("A", "B", "C"), c("a", "b", "c", "d", "e")) > --> checking list(*): Ok > --=--=--=--=-- > e: new("ngCMatrix", i = integer(0), p = c(0L, 0L, 0L, 0L, 0L, 0L, > 0L), Dim = c(4L, 6L), Dimnames = list(NULL, NULL), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- 240a462,464 > i: c(1, 3, 4, 5, 6, 7, 8) > --> checking list(*): Ok > --=--=--=--=-- 260a485,505 > j: c(2, 9, 6, 7, 8, 9, 10) > --> checking list(*): Ok > --=--=--=--=-- > l3: structure(c(FALSE, FALSE, FALSE, TRUE, FALSE, FALSE, TRUE, TRUE, > FALSE), .Dim = c(3L, 3L)) > --> checking list(*): Ok > --=--=--=--=-- > m: new("dgCMatrix", i = c(2L, 0L, 1L, 2L, 0L, 1L), p = c(0L, 1L, > 2L, 4L, 4L, 6L), Dim = c(3L, 5L), Dimnames = list(c("A", "B", > "C"), c("a", "b", "c", "d", "e")), x = c(1, 2, 4, 3, 6, 5), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > n: new("ngCMatrix", i = 5:0, p = c(0L, 0L, 1L, 2L, 3L, 4L, 5L, 6L > ), Dim = 6:7, Dimnames = list(NULL, NULL), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > nA: new("ngCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(8L, 10L), Dimnames = list( > NULL, NULL), factors = list()) > --> checking list(*): Ok > --=--=--=--=-- 270a516,518 > perm: c(1L, 4L, 7L, 2L, 5L, 3L, 6L) > --> checking list(*): Ok > --=--=--=--=-- 312a561,580 > sA: new("dsCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(10L, 10L), Dimnames = list( > NULL, NULL), x = c(7, 21, 28, 35, 14, 42, 49), uplo = "U", > factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > sy: new("dsCMatrix", i = c(1L, 3L, 4L, 2L, 3L), p = c(0L, 0L, 0L, > 0L, 1L, 3L, 4L, 5L), Dim = c(7L, 7L), Dimnames = list(NULL, NULL), > x = c(1, 4, 5, 3, 2), uplo = "U", factors = list()) > --> checking list(*): Ok > --=--=--=--=-- > tA: new("dtCMatrix", i = c(0L, 3L, 4L, 5L, 2L, 6L, 7L), p = c(0L, > 0L, 1L, 1L, 1L, 1L, 2L, 3L, 4L, 6L, 7L), Dim = c(10L, 10L), Dimnames = list( > NULL, NULL), x = c(7, 21, 28, 35, 14, 42, 49), uplo = "U", > diag = "N") > --> checking list(*): Ok > --=--=--=--=-- > x: c(7, 14, 21, 28, 35, 42, 49) > --> checking list(*): Ok > --=--=--=--=-- 315,317c583,584 < 1 identical warnings: < In library(package, lib.loc = lib.loc, character.only = TRUE, ... : < there is no package called 'Matrix' --- > Length Class Mode > 0 NULL NULL OK running code in 'print-tests.R' ... OK comparing 'print-tests.Rout' to './print-tests.Rout.save' ... OK running code in 'lapack.R' ... OK comparing 'lapack.Rout' to './lapack.Rout.save' ... OK running code in 'datasets.R' ... OK comparing 'datasets.Rout' to './datasets.Rout.save' ... OK running code in 'datetime.R' ... OK comparing 'datetime.Rout' to './datetime.Rout.save' ... OK running code in 'iec60559.R' ... OK comparing 'iec60559.Rout' to './iec60559.Rout.save' ... OK make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' checking Sys.timezone ... make[5]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' running code in 'timezone.R' ... OK make[5]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' running regression tests ... make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' running code in 'array-subset.R' ... OK running code in 'reg-tests-1a.R' ... OK running code in 'reg-tests-1b.R' ... OK running code in 'reg-tests-1c.R' ... OK running code in 'reg-tests-1d.R' ...make[4]: *** [Makefile.common:106: reg-tests-1d.Rout] Error 1 make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[3]: *** [Makefile.common:292: test-Reg] Error 2 make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: *** [Makefile.common:171: test-all-basics] Error 1 make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[1]: *** [Makefile:241: check-all] Error 2 make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make: [debian/rules:387: check-stamp] Error 2 (ignored) touch check-stamp debian/rules binary-arch *** install-arch *** dh_testdir dh_testroot dh_prep -a dh_installdirs -A /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core /usr/bin/make DESTDIR=/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core install make[1]: Entering directory 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/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/share/sh mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/share/texmf mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/share/texmf/bibtex/bib mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/share/texmf/bibtex/bst mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/share/texmf/tex/latex make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/share' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/bin make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/scripts' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/include/R_ext make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include/R_ext' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/blas' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/blas' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tre' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tzone' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/tzone' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/xdr' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/xdr' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/intl' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra/intl' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/extra' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/appl' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/pkgconfig make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/bin/exec make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/lib make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/main' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/modules make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/internet' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/lapack' make[4]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[4]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules/X11' make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/modules' make[3]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/library installing packages ... building HTML index ... make[3]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/library' make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/tests' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' (cd src/unix; \ rm -vf Rscript /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/bin/Rscript; \ /usr/bin/make CFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ CXXFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ FFLAGS="-g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -D_REENTRANT" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ RHOME=/usr/lib/R \ DESTDIR=/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core \ install-Rscript ) removed 'Rscript' removed '/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/bin/Rscript' make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -fdebug-prefix-map=/home/jranke/git/r-backports/buster/r-base-3.6.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/unix' #ls -ltr /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/bin/ #strings src/unix/Rscript cp -vax src/unix/Rscript /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/bin/ 'src/unix/Rscript' -> '/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/bin/Rscript' #ls -ltr /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/bin/ #strings /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/bin/Rscript (cd src/nmath/standalone; \ /usr/bin/make DESTDIR=/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core install ) make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/include' /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/include/Rmath.h is unchanged make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/src/nmath/standalone' chmod a+x /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/share/sh/echo.sh rm -v /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/COPYING removed '/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/COPYING' (cd /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/; \ ln -s ../../share/common-licenses/GPL-2 COPYING) rm -v /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/doc/COPYING removed '/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/doc/COPYING' (cd /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/doc; \ ln -s ../../../share/common-licenses/GPL-2 COPYING) (cd /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/texmf/tex/latex && \ ln -s ../../../R/share/texmf R) dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html dh_movefiles --sourcedir=debian/r-base-core -pr-base-html make prefix=/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr \ rdocdir=/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/R/doc \ install-pdf make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' installing R manuals in PDF format ... make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make prefix=/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr \ infodir=/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info install-info make[1]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' make[2]: Entering directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' mkdir -p -- /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info /usr/bin/install -c -m 644 "./dir" "/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info" installing R info pages ... updating '/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/dir' ... you need to adjust /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/dir manually make[2]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0/doc/manual' make[1]: Leaving directory '/home/jranke/git/r-backports/buster/r-base-3.6.0' dh_movefiles --sourcedir=debian/r-base-core -pr-doc-pdf dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html touch install-indep-stamp gunzip -9v /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/*.gz /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-FAQ.info.gz: 67.2% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-FAQ.info /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-admin.info.gz: 68.0% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-admin.info /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-data.info.gz: 70.6% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-data.info /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-exts.info-1.gz: 66.6% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-exts.info-1 /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-exts.info-2.gz: 69.7% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-exts.info-2 /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-exts.info-3.gz: 83.3% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-exts.info-3 /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-exts.info.gz: 70.2% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-exts.info /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-intro.info.gz: 70.1% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-intro.info /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-ints.info.gz: 68.0% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-ints.info /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-lang.info.gz: 71.6% -- replaced with /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/info/R-lang.info dh_movefiles --sourcedir=debian/r-base-core -pr-doc-info rm -vf /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-doc-info/usr/share/info/dir \ /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-doc-info/usr/share/info/dir.old removed '/home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-doc-info/usr/share/info/dir' dh_installdirs -pr-mathlib usr/include usr/lib \ usr/share/lintian/overrides \ usr/lib/pkgconfig dh_movefiles --sourcedir=debian/r-base-core -pr-mathlib (cd /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-mathlib/usr/lib; \ ls -l ; \ mv -v libRmath.so libRmath.so.1.0.0; \ ln -sv libRmath.so.1.0.0 libRmath.so.1; \ ln -sv libRmath.so.1 libRmath.so) total 3092 -rw-r--r-- 1 root root 2081162 Apr 29 07:03 libRmath.a -rwxr-xr-x 1 root root 1079248 Apr 29 07:03 libRmath.so drwxr-xr-x 1 root root 22 Apr 29 07:03 pkgconfig renamed 'libRmath.so' -> 'libRmath.so.1.0.0' 'libRmath.so.1' -> 'libRmath.so.1.0.0' 'libRmath.so' -> 'libRmath.so.1' install -m 0644 src/include/Rmath.h \ /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-mathlib/usr/include install -m 0644 debian/Rprofile.site /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/etc/R install -m 0644 debian/Renviron.site /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/etc/R (cd /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/etc; \ cat /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/Renviron-R_LIBS.patch | patch --verbose; \ mv Makeconf repositories ldpaths ../../../../etc/R/; \ mv Renviron Renviron.ucf; \ ln -s /etc/R/Makeconf .; \ ln -s /etc/R/Renviron .; \ ln -s /etc/R/Renviron.site .; \ ln -s /etc/R/Rprofile.site .; \ ln -s /etc/R/ldpaths .; \ ln -s /etc/R/repositories . ) Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |--- Renviron.orig 2003-04-04 06:52:22.000000000 -0500 |+++ Renviron 2003-04-04 06:49:05.000000000 -0500 -------------------------- patching file Renviron Using Plan A... Hunk #1 succeeded at 46 with fuzz 2 (offset 13 lines). done dh_bash-completion # edd 12 Jan 2016 new location #install -m 0644 debian/R.bash-completion \ # debian/r-base-core/usr/share/bash-completion/completions/R (cd /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/; \ ln -sv R/lib/libR.so . ) './libR.so' -> 'R/lib/libR.so' (cd debian/icon-class-patch && munpack rlogo_icon.png.mpack) rlogo_icon.png (application/octet-stream) install -m 0644 debian/icon-class-patch/rlogo_icon.png \ debian/r-base-core/usr/share/icons/hicolor/48x48/apps install -m 0644 debian/icon-class-patch/R.desktop \ debian/r-base-core/usr/share/applications rm debian/icon-class-patch/rlogo_icon.png touch install-arch-stamp *** binary-arch *** dh_testdir -a dh_testroot -a dh_installdocs -pr-base-core doc/NEWS.* README \ debian/README.Atlas \ debian/README.mathlib dh_installdocs -pr-mathlib doc/NEWS.* README \ debian/README.mathlib dh_installdocs -pr-base-core-dbg dh_installexamples -pr-mathlib src/nmath/standalone/test.c #dh_installmenu -a # (cd /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/doc .) (cd /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../R/doc .) (cd /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/library .) install -p -m 0644 debian/r-base-core.lintian \ /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/share/lintian/overrides/r-base-core install -p -m 0644 debian/r-recommended.lintian \ /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-recommended/usr/share/lintian/overrides/r-recommended install -p -m 0644 debian/r-mathlib.lintian \ /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-mathlib/usr/share/lintian/overrides/r-mathlib dh_installchangelogs -a -k doc/NEWS dh_strip --dbg-package=r-base-core-dbg dh_compress -a dh_fixperms -a dh_link -a dh_makeshlibs -a dh_installdeb -a dh_perl -a dh_shlibdeps -a -l /home/jranke/git/r-backports/buster/r-base-3.6.0/debian/r-base-core/usr/lib/R/lib dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-mathlib/usr/lib/libRmath.so.1.0.0 was not linked against libgomp.so.1 (it uses none of the library's symbols) dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libtcl8.6.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libtk8.6.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/modules/R_de.so debian/r-base-core/usr/lib/R/modules/R_X11.so were not linked against libSM.so.6 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/modules/R_de.so debian/r-base-core/usr/lib/R/modules/R_X11.so debian/r-base-core/usr/lib/R/library/tcltk/libs/tcltk.so were not linked against libXext.so.6 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/library/stats/libs/stats.so debian/r-base-core/usr/lib/R/lib/libR.so debian/r-base-core/usr/lib/R/modules/lapack.so were not linked against libgfortran.so.5 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/modules/R_de.so debian/r-base-core/usr/lib/R/modules/R_X11.so were not linked against libICE.so.6 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/library/tcltk/libs/tcltk.so was not linked against libXss.so.1 (it uses none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/modules/R_de.so debian/r-base-core/usr/lib/R/modules/R_X11.so debian/r-base-core/usr/lib/R/library/grDevices/libs/cairo.so were not linked against libglib-2.0.so.0 (they use none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/library/stats/libs/stats.so debian/r-base-core/usr/lib/R/lib/libR.so debian/r-base-core/usr/lib/R/modules/lapack.so were not linked against libquadmath.so.0 (they use none of the library's symbols) dh_gencontrol -a dpkg-gencontrol: warning: Depends field of package r-base-core: substitution variable ${perl:Depends} used, but is not defined dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'r-base-core' in '../r-base-core_3.6.0-1~bustercran.0_amd64.deb'. dpkg-deb: building package 'r-mathlib' in '../r-mathlib_3.6.0-1~bustercran.0_amd64.deb'. dpkg-deb: building package 'r-base-core-dbg' in '../r-base-core-dbg_3.6.0-1~bustercran.0_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../r-base_3.6.0-1~bustercran.0_amd64.changes dpkg-genchanges: warning: the current version (3.6.0-1~bustercran.0) is earlier than the previous one (3.6.0-1) dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included)