Last updated on 2025-04-01 09:55:26 CEST.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| CorMID | 15 | ||
| CorrectOverloadedPeaks | 2 | 13 | |
| eCerto | 1 | 14 | |
| HiResTEC | 15 | ||
| InterpretMSSpectrum | 15 | ||
| IsoCor | 15 | ||
| MetabolomicsBasics | 2 | 13 |
Current CRAN status: OK: 15
Current CRAN status: NOTE: 2, OK: 13
Version: 1.3.5
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘xcms’
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Current CRAN status: ERROR: 1, OK: 14
Version: 0.8.4
Check: tests
Result: ERROR
Running ‘testthat.R’ [18s/21s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(eCerto)
>
> # setting this variable will suppress most eCerto message calls
> Sys.setenv("GOLEM_CONFIG_ACTIVE"="default")
>
> ## run all tests similar to Ctrl+Shift+T in RStudio
> # testthat::test_check(package = "eCerto", reporter=c("minimal", "location"))
>
> ## check for the code covered by test functions
> # x <- covr::package_coverage(quiet = FALSE, function_exclusions = "page_*")
> # covr::zero_coverage(x = x)
> # covr::function_coverage(fun = eCerto:::app_server)
> # covr::function_coverage(fun = eCerto:::list2rv, code = source("tests/testthat/test-list2rv.R"))
>
> ## tests with snaps fail upon "RCHECK" while being successful in "test_check"
> ## setting R_TESTS avoids this problem
> Sys.setenv(R_TESTS="")
>
> ## run all tests
> # testthat::test_dir(path = "./tests/testthat")
> testthat::test_dir(path = "./testthat")
✔ | F W S OK | Context
⠏ | 0 | ExcelUpload
⠋ | 1 | ExcelUpload
⠸ | 4 | ExcelUpload
✔ | 4 | ExcelUpload [2.8s]
⠏ | 0 | RData_export
⠋ | 1 | RData_export
✔ | 2 | RData_export
⠏ | 0 | Rdata_import
⠋ | 1 | Rdata_import
⠧ | 8 | Rdata_import
⠋ | 11 | Rdata_import
✔ | 12 | Rdata_import
⠏ | 0 | app_inits
✔ | 3 | app_inits
⠏ | 0 | app_utils
⠙ | 2 | app_utils
⠸ | 4 | app_utils
⠙ | 12 | app_utils
✔ | 13 | app_utils
⠏ | 0 | certification
⠋ | 1 | certification
✔ | 2 | certification [2.7s]
⠏ | 0 | fnc_CertValPlot
⠹ | 3 | fnc_CertValPlot
✔ | 1 3 | fnc_CertValPlot
⠏ | 0 | fnc_assert_col
✔ | 9 | fnc_assert_col
⠏ | 0 | fnc_calc_time_diff
✔ | 6 | fnc_calc_time_diff
⠏ | 0 | fnc_check_fmt_Vdata
✔ | 1 | fnc_check_fmt_Vdata
⠏ | 0 | fnc_digits_DIN1333
✔ | 1 | fnc_digits_DIN1333
⠏ | 0 | fnc_flt_Vdata
⠼ | 5 | fnc_flt_Vdata
✔ | 5 | fnc_flt_Vdata
⠏ | 0 | fnc_get_local_file
⠼ | 5 | fnc_get_local_file
✔ | 7 | fnc_get_local_file
⠏ | 0 | fnc_plot_lts_data
⠴ | 1 5 | fnc_plot_lts_data
⠇ | 2 7 | fnc_plot_lts_data
✔ | 2 7 | fnc_plot_lts_data
⠏ | 0 | fnc_prepFigS1
✔ | 4 | fnc_prepFigS1
⠏ | 0 | fnc_prepFigS2
⠸ | 4 | fnc_prepFigS2
✔ | 6 | fnc_prepFigS2
⠏ | 0 | fnc_prepFigS3
✔ | 1 | fnc_prepFigS3
⠏ | 0 | fnc_prepFigV2
⠋ | 1 0 | fnc_prepFigV2
✔ | 1 0 | fnc_prepFigV2
⠏ | 0 | fnc_prepFigV3
✔ | 1 0 | fnc_prepFigV3
⠏ | 0 | fnc_prepTabC0
✔ | 3 | fnc_prepTabC0
⠏ | 0 | fnc_prepTabC1
⠋ | 1 | fnc_prepTabC1
⠹ | 3 | fnc_prepTabC1
✔ | 3 | fnc_prepTabC1
⠏ | 0 | fnc_prepTabC2
✔ | 4 | fnc_prepTabC2
⠏ | 0 | fnc_prepTabH1
✔ | 10 | fnc_prepTabH1
⠏ | 0 | fnc_read_lts_input
⠸ | 4 | fnc_read_lts_input
✔ | 4 | fnc_read_lts_input
⠏ | 0 | fnc_read_xlsx
⠼ | 5 | fnc_read_xlsx
✔ | 10 | fnc_read_xlsx
⠏ | 0 | fnc_read_zenodo
⠋ | 1 | fnc_read_zenodo
✔ | 4 | fnc_read_zenodo
⠏ | 0 | fnc_round_DIN1333
✔ | 1 | fnc_round_DIN1333
⠏ | 0 | fnc_steyx
⠴ | 6 | fnc_steyx
✔ | 6 | fnc_steyx
⠏ | 0 | fnc_styleTabC0
⠋ | 1 | fnc_styleTabC0
✔ | 5 | fnc_styleTabC0
⠏ | 0 | fnc_styleTabC1
⠋ | 1 | fnc_styleTabC1
✔ | 1 | fnc_styleTabC1
⠏ | 0 | fnc_styleTabC2
✔ | 1 | fnc_styleTabC2
⠏ | 0 | fnc_styleTabH1
✔ | 5 | fnc_styleTabH1
⠏ | 0 | fnc_styleTabH2
✔ | 3 | fnc_styleTabH2
⠏ | 0 | fnc_styleTabL1
✔ | 1 | fnc_styleTabL1
⠏ | 0 | help_the_user_modal
✖ | 1 1 1 | help_the_user_modal
────────────────────────────────────────────────────────────────────────────────
Warning ('test-help_the_user_modal.R:6:5'): 'show_help' renders Rmd files correctly
cannot open file '/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/eCerto/app/www/rmd/start_gethelp.Rmd': Read-only file system
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-help_the_user_modal.R:4:3
2. │ └─base::withCallingHandlers(...)
3. └─eCerto:::show_help(filename = fn, show_modal = FALSE) at test-help_the_user_modal.R:6:5
4. ├─shiny::withMathJax(...)
5. │ └─htmltools::tagList(...)
6. │ └─rlang::dots_list(...)
7. ├─shiny::HTML(markdown::markdownToHTML(file = file_in, fragment.only = TRUE))
8. └─markdown::markdownToHTML(file = file_in, fragment.only = TRUE)
9. └─markdown::mark_html(...)
10. └─markdown::mark(..., format = "html", template = template)
11. └─xfun::write_utf8(c("---", yaml, "---", parts$body), file)
12. └─base::writeLines(enc2utf8(text), con, ..., useBytes = TRUE)
13. └─base::file(con, "w")
Error ('test-help_the_user_modal.R:6:5'): 'show_help' renders Rmd files correctly
Error in `file(con, "w")`: cannot open the connection
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-help_the_user_modal.R:4:3
2. │ └─base::withCallingHandlers(...)
3. └─eCerto:::show_help(filename = fn, show_modal = FALSE) at test-help_the_user_modal.R:6:5
4. ├─shiny::withMathJax(...)
5. │ └─htmltools::tagList(...)
6. │ └─rlang::dots_list(...)
7. ├─shiny::HTML(markdown::markdownToHTML(file = file_in, fragment.only = TRUE))
8. └─markdown::markdownToHTML(file = file_in, fragment.only = TRUE)
9. └─markdown::mark_html(...)
10. └─markdown::mark(..., format = "html", template = template)
11. └─xfun::write_utf8(c("---", yaml, "---", parts$body), file)
12. └─base::writeLines(enc2utf8(text), con, ..., useBytes = TRUE)
13. └─base::file(con, "w")
────────────────────────────────────────────────────────────────────────────────
⠏ | 0 | homogeneity
⠸ | 4 | homogeneity
⠼ | 5 | homogeneity
✔ | 5 | homogeneity [1.7s]
⠏ | 0 | list2rv
⠙ | 2 | list2rv
⠸ | 4 | list2rv
✔ | 5 | list2rv
⠏ | 0 | materialtabelle
⠋ | 1 | materialtabelle
✔ | 5 | materialtabelle
⠏ | 0 | mod_xlsx_range_select
⠋ | 1 | mod_xlsx_range_select
⠸ | 4 | mod_xlsx_range_select
⠴ | 6 | mod_xlsx_range_select
⠦ | 7 | mod_xlsx_range_select
⠧ | 8 | mod_xlsx_range_select
✔ | 8 | mod_xlsx_range_select [1.9s]
⠏ | 0 | page_start
✔ | 1 0 | page_start
⠏ | 0 | reactiveClass
⠴ | 6 | reactiveClass
✔ | 8 | reactiveClass
⠏ | 0 | run_app
✔ | 1 0 | run_app
⠏ | 0 | stability
⠋ | 1 | stability
✔ | 1 | stability [2.0s]
⠏ | 0 | statistic_helper
⠇ | 9 | statistic_helper
⠹ | 13 | statistic_helper
✔ | 27 | statistic_helper
⠏ | 0 | validation
⠴ | 6 | validation
⠙ | 1 11 | validation
✔ | 1 11 | validation
══ Results ═════════════════════════════════════════════════════════════════════
Duration: 18.3 s
── Skipped tests (8) ───────────────────────────────────────────────────────────
• On CRAN (8): 'test-fnc_CertValPlot.R:15:3', 'test-fnc_plot_lts_data.R:18:5',
'test-fnc_plot_lts_data.R:69:5', 'test-fnc_prepFigV2.R:7:5',
'test-fnc_prepFigV3.R:8:5', 'test-page_start.R:6:5', 'test-run_app.R:5:5',
'test-validation.R:37:5'
── Failed tests ────────────────────────────────────────────────────────────────
Error ('test-help_the_user_modal.R:6:5'): 'show_help' renders Rmd files correctly
Error in `file(con, "w")`: cannot open the connection
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-help_the_user_modal.R:4:3
2. │ └─base::withCallingHandlers(...)
3. └─eCerto:::show_help(filename = fn, show_modal = FALSE) at test-help_the_user_modal.R:6:5
4. ├─shiny::withMathJax(...)
5. │ └─htmltools::tagList(...)
6. │ └─rlang::dots_list(...)
7. ├─shiny::HTML(markdown::markdownToHTML(file = file_in, fragment.only = TRUE))
8. └─markdown::markdownToHTML(file = file_in, fragment.only = TRUE)
9. └─markdown::mark_html(...)
10. └─markdown::mark(..., format = "html", template = template)
11. └─xfun::write_utf8(c("---", yaml, "---", parts$body), file)
12. └─base::writeLines(enc2utf8(text), con, ..., useBytes = TRUE)
13. └─base::file(con, "w")
[ FAIL 1 | WARN 1 | SKIP 8 | PASS 218 ]
Error: Test failures
Execution halted
Flavor: r-patched-linux-x86_64
Current CRAN status: OK: 15
Current CRAN status: OK: 15
Current CRAN status: OK: 15
Current CRAN status: NOTE: 2, OK: 13
Version: 1.4.5
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking: 'ropls', 'xcms'
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64