CRAN Package Check Results for Maintainer ‘Carl Boettiger <cboettig at gmail.com>’

Last updated on 2025-03-31 09:53:51 CEST.

Package ERROR WARN NOTE OK
arkdb 1 14
codemeta 15
codemetar 4 11
contentid 15
duckdbfs 1 6 8
earthdatalogin 7 8
EcoNetGen 15
EML 4 11
emld 7 8
gbifdb 15
knitcitations 15
minioclient 15
neonstore 9 6
piggyback 15
pmc 15
rdflib 15
rfigshare 12 3
rfishbase 7 8
RNeXML 12 3
sarsop 2 6 7
taxadb 7 8
taxalight 15
treebase 15
virtuoso 15

Package arkdb

Current CRAN status: NOTE: 1, OK: 14

Version: 0.0.18
Check: package dependencies
Result: NOTE Package suggested but not available for checking: ‘arrow’ Flavor: r-release-macos-x86_64

Version: 0.0.18
Check: Rd cross-references
Result: NOTE Package unavailable to check Rd xrefs: ‘arrow’ Flavor: r-release-macos-x86_64

Package codemeta

Current CRAN status: OK: 15

Package codemetar

Current CRAN status: NOTE: 4, OK: 11

Version: 0.3.5
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: create_codemeta.Rd: write_json write_codemeta.Rd: write_json Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64

Package contentid

Current CRAN status: OK: 15

Package duckdbfs

Current CRAN status: ERROR: 1, NOTE: 6, OK: 8

Version: 0.0.9
Check: DESCRIPTION meta-information
Result: NOTE Missing dependency on R >= 4.1.0 because package code uses the pipe |> or function shorthand \(...) syntax added in R 4.1.0. File(s) using such syntax: ‘as_view.Rd’ ‘spatial_join.Rd’ ‘to_sf.R’ ‘to_sf.Rd’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64

Version: 0.0.9
Check: tests
Result: ERROR Running ‘spelling.R’ Running ‘testthat.R’ [7s/11s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files > > library(testthat) > library(duckdbfs) > > > > > test_check("duckdbfs") [ FAIL 1 | WARN 0 | SKIP 12 | PASS 15 ] ══ Skipped tests (12) ══════════════════════════════════════════════════════════ • On CRAN (12): 'test-open_dataset.R:16:3', 'test-open_dataset.R:37:3', 'test-open_dataset.R:60:3', 'test-open_dataset.R:71:3', 'test-spatial.R:4:3', 'test-spatial.R:22:3', 'test-spatial.R:43:3', 'test-spatial.R:74:3', 'test-write_dataset.R:6:3', 'test-write_dataset.R:37:3', 'test-write_dataset.R:62:3', 'test-write_dataset.R:81:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-load_extension.R:4:3'): extensions installation ──────────────── Error in `duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow)`: rapi_execute: Failed to run query Error: Invalid Input Error: Initialization function "httpfs_init" from file "/data/gannet/ripley/.local/share/R/duckdb/extensions/v1.2.1/linux_amd64_gcc4/httpfs.duckdb_extension" threw an exception: "Attempted to dereference unique_ptr that is NULL!" Backtrace: ▆ 1. ├─duckdbfs:::load_httpfs(nightly = FALSE, force = FALSE) at test-load_extension.R:4:3 2. │ └─duckdbfs:::load_extension(...) 3. │ ├─DBI::dbExecute(conn, glue::glue("LOAD '{extension}';")) 4. │ └─DBI::dbExecute(conn, glue::glue("LOAD '{extension}';")) 5. │ ├─DBI::dbSendStatement(conn, statement, ...) 6. │ └─DBI::dbSendStatement(conn, statement, ...) 7. │ ├─DBI::dbSendQuery(conn, statement, ...) 8. │ └─duckdb::dbSendQuery(conn, statement, ...) 9. │ └─duckdb (local) .local(conn, statement, ...) 10. │ └─duckdb:::duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow) 11. │ └─duckdb:::duckdb_execute(res) 12. │ └─duckdb:::rethrow_rapi_execute(...) 13. │ ├─rlang::try_fetch(...) 14. │ │ ├─base::tryCatch(...) 15. │ │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers) 16. │ │ │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 17. │ │ │ └─base (local) doTryCatch(return(expr), name, parentenv, handler) 18. │ │ └─base::withCallingHandlers(...) 19. │ └─duckdb:::rapi_execute(stmt, arrow, integer64) 20. └─base::.handleSimpleError(...) 21. └─rlang (local) h(simpleError(msg, call)) 22. └─handlers[[1L]](cnd) 23. └─duckdb:::rethrow_error_from_rapi(e, call) 24. └─rlang::abort(msg, call = call) [ FAIL 1 | WARN 0 | SKIP 12 | PASS 15 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.0.9
Check: DESCRIPTION meta-information
Result: NOTE Missing dependency on R >= 4.1.0 because package code uses the pipe |> or function shorthand \(...) syntax added in R 4.1.0. File(s) using such syntax: ‘to_sf.R’ Flavor: r-devel-macos-x86_64

Package earthdatalogin

Current CRAN status: NOTE: 7, OK: 8

Version: 0.0.2
Check: DESCRIPTION meta-information
Result: NOTE Missing dependency on R >= 4.1.0 because package code uses the pipe |> or function shorthand \(...) syntax added in R 4.1.0. File(s) using such syntax: ‘edl_set_token.R’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64

Package EcoNetGen

Current CRAN status: OK: 15

Package EML

Current CRAN status: NOTE: 4, OK: 11

Version: 2.0.6.1
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: write_eml.Rd: write_xml Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64

Version: 2.0.6.1
Flags: --no-vignettes
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: write_eml.Rd: write_xml Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavor: r-devel-windows-x86_64

Package emld

Current CRAN status: NOTE: 7, OK: 8

Version: 0.5.1
Check: LazyData
Result: NOTE 'LazyData' is specified without a 'data' directory Flavors: r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package gbifdb

Current CRAN status: OK: 15

Package knitcitations

Current CRAN status: OK: 15

Package minioclient

Current CRAN status: OK: 15

Package neonstore

Current CRAN status: NOTE: 9, OK: 6

Version: 0.5.1
Check: DESCRIPTION meta-information
Result: NOTE Missing dependency on R >= 4.1.0 because package code uses the pipe |> or function shorthand \(...) syntax added in R 4.1.0. File(s) using such syntax: ‘neon_cloud.R’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64

Version: 0.5.1
Check: package dependencies
Result: NOTE Package suggested but not available for checking: ‘rhdf5’ Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package piggyback

Current CRAN status: OK: 15

Package pmc

Current CRAN status: OK: 15

Package rdflib

Current CRAN status: OK: 15

Package rfigshare

Current CRAN status: NOTE: 12, OK: 3

Version: 0.3.8
Check: Rd files
Result: NOTE checkRd: (-1) fs_search.Rd:76: Lost braces 76 | \\code{\link{fs_auth}} \code{\link{fs_browse}} | ^ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-arm64, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

Package rfishbase

Current CRAN status: NOTE: 7, OK: 8

Version: 5.0.1
Check: DESCRIPTION meta-information
Result: NOTE Missing dependency on R >= 4.1.0 because package code uses the pipe |> or function shorthand \(...) syntax added in R 4.1.0. File(s) using such syntax: ‘common_names.R’ ‘distribution.R’ ‘fb_tbl.R’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64

Package RNeXML

Current CRAN status: NOTE: 12, OK: 3

Version: 2.4.11
Check: Rd files
Result: NOTE checkRd: (-1) nexml_get.Rd:30: Lost braces in \itemize; meant \describe ? checkRd: (-1) nexml_get.Rd:31: Lost braces in \itemize; meant \describe ? checkRd: (-1) nexml_get.Rd:32: Lost braces in \itemize; meant \describe ? checkRd: (-1) nexml_get.Rd:33: Lost braces in \itemize; meant \describe ? checkRd: (-1) nexml_get.Rd:34: Lost braces in \itemize; meant \describe ? checkRd: (-1) nexml_get.Rd:35: Lost braces in \itemize; meant \describe ? Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-arm64, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64

Package sarsop

Current CRAN status: WARN: 2, NOTE: 6, OK: 7

Additional issues

M1mac M1mac

Version: 0.6.15
Check: whether package can be installed
Result: WARN Found the following significant warnings: include/pomdp_spec.yy.cc:9:9: warning: keyword is hidden by macro definition [-Wkeyword-macro] See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/sarsop.Rcheck/00install.out’ for details. * used C compiler: ‘Debian clang version 19.1.7 (3)’ * used C++ compiler: ‘Debian clang version 19.1.7 (3)’ Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.6.15
Check: whether package can be installed
Result: WARN Found the following significant warnings: include/pomdp_spec.yy.cc:9:9: warning: keyword is hidden by macro definition [-Wkeyword-macro] See ‘/data/gannet/ripley/R/packages/tests-clang/sarsop.Rcheck/00install.out’ for details. * used C compiler: ‘clang version 20.1.0’ * used C++ compiler: ‘clang version 20.1.0’ Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.6.15
Check: installed package size
Result: NOTE installed size is 5.3Mb sub-directories of 1Mb or more: bin 4.5Mb Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package taxadb

Current CRAN status: NOTE: 7, OK: 8

Version: 0.2.1
Check: DESCRIPTION meta-information
Result: NOTE Missing dependency on R >= 4.1.0 because package code uses the pipe |> or function shorthand \(...) syntax added in R 4.1.0. File(s) using such syntax: ‘parse_schema.R’ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64

Package taxalight

Current CRAN status: OK: 15

Package treebase

Current CRAN status: OK: 15

Package virtuoso

Current CRAN status: OK: 15