From 49a403384a1bf5597fe8b3ca9e8af067f3c15b85 Mon Sep 17 00:00:00 2001 From: Jenny Bryan Date: Wed, 10 Jan 2024 11:57:07 -0800 Subject: [PATCH] revdepcheck::cloud_check() --- revdep/README.md | 18 +-- revdep/cran.md | 11 +- revdep/failures.md | 365 +-------------------------------------------- revdep/problems.md | 50 ++++--- 4 files changed, 37 insertions(+), 407 deletions(-) diff --git a/revdep/README.md b/revdep/README.md index c0a3d25b..a1c9ff59 100644 --- a/revdep/README.md +++ b/revdep/README.md @@ -1,20 +1,8 @@ # Revdeps -## Failed to check (7) - -|package |version |error |warning |note | -|:-------------|:-------|:-----|:-------|:----| -|covidmx |? | | | | -|ggPMX |? | | | | -|lifeR |? | | | | -|moexer |? | | | | -|Platypus |? | | | | -|tidytags |? | | | | -|xpose.nlmixr2 |? | | | | - ## New problems (1) -|package |version |error |warning |note | -|:-------|:-------|:------|:-------|:----| -|[rapbase](problems.md#rapbase)|1.23.0 |__+1__ | | | +|package |version |error |warning |note | +|:--------|:-------|:------|:-------|:----| +|[APCalign](problems.md#apcalign)|0.1.3 |__+1__ | |1 | diff --git a/revdep/cran.md b/revdep/cran.md index d55b65a8..1f7f15fc 100644 --- a/revdep/cran.md +++ b/revdep/cran.md @@ -1,20 +1,15 @@ ## revdepcheck results -We checked 639 reverse dependencies (635 from CRAN + 4 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package. +We checked 701 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package. * We saw 1 new problems - * We failed to check 3 packages + * We failed to check 0 packages Issues with CRAN packages are summarised below. ### New problems (This reports the first line of each new failure) -* rapbase +* APCalign checking tests ... ERROR -### Failed to check - -* ggPMX (NA) -* Platypus (NA) -* xpose.nlmixr2 (NA) diff --git a/revdep/failures.md b/revdep/failures.md index e9f53f76..9a207363 100644 --- a/revdep/failures.md +++ b/revdep/failures.md @@ -1,364 +1 @@ -# covidmx - -
- -* Version: NA -* GitHub: NA -* Source code: https://github.com/cran/covidmx -* Number of recursive dependencies: 164 - -Run `revdepcheck::cloud_details(, "covidmx")` for more info - -
- -## Error before installation - -### Devel - -``` - - - - - - -``` -### CRAN - -``` - - - - - - -``` -# ggPMX - -
- -* Version: 1.2.8 -* GitHub: https://github.com/ggPMXdevelopment/ggPMX -* Source code: https://github.com/cran/ggPMX -* Date/Publication: 2022-06-17 23:10:02 UTC -* Number of recursive dependencies: 177 - -Run `revdepcheck::cloud_details(, "ggPMX")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/ggPMX/new/ggPMX.Rcheck’ -* using R version 4.1.1 (2021-08-10) -* using platform: x86_64-pc-linux-gnu (64-bit) -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘ggPMX/DESCRIPTION’ ... OK -* this is package ‘ggPMX’ version ‘1.2.8’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... NOTE -... - [ FAIL 1 | WARN 14 | SKIP 8 | PASS 327 ] - Error: Test failures - Execution halted -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... NONE - ‘ggPMX-guide.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 1 ERROR, 2 NOTEs - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/ggPMX/old/ggPMX.Rcheck’ -* using R version 4.1.1 (2021-08-10) -* using platform: x86_64-pc-linux-gnu (64-bit) -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘ggPMX/DESCRIPTION’ ... OK -* this is package ‘ggPMX’ version ‘1.2.8’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... NOTE -... - [ FAIL 1 | WARN 14 | SKIP 8 | PASS 327 ] - Error: Test failures - Execution halted -* checking for unstated dependencies in vignettes ... OK -* checking package vignettes in ‘inst/doc’ ... OK -* checking running R code from vignettes ... NONE - ‘ggPMX-guide.Rmd’ using ‘UTF-8’... OK -* checking re-building of vignette outputs ... OK -* DONE -Status: 1 ERROR, 2 NOTEs - - - - - -``` -# lifeR - -
- -* Version: NA -* GitHub: NA -* Source code: https://github.com/cran/lifeR -* Number of recursive dependencies: 92 - -Run `revdepcheck::cloud_details(, "lifeR")` for more info - -
- -## Error before installation - -### Devel - -``` - - - - - - -``` -### CRAN - -``` - - - - - - -``` -# moexer - -
- -* Version: NA -* GitHub: NA -* Source code: https://github.com/cran/moexer -* Number of recursive dependencies: 86 - -Run `revdepcheck::cloud_details(, "moexer")` for more info - -
- -## Error before installation - -### Devel - -``` - - - - - - -``` -### CRAN - -``` - - - - - - -``` -# Platypus - -
- -* Version: 3.4.1 -* GitHub: NA -* Source code: https://github.com/cran/Platypus -* Date/Publication: 2022-08-15 07:20:20 UTC -* Number of recursive dependencies: 356 - -Run `revdepcheck::cloud_details(, "Platypus")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/Platypus/new/Platypus.Rcheck’ -* using R version 4.1.1 (2021-08-10) -* using platform: x86_64-pc-linux-gnu (64-bit) -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘Platypus/DESCRIPTION’ ... OK -* checking extension type ... Package -* this is package ‘Platypus’ version ‘3.4.1’ -* package encoding: UTF-8 -* checking package namespace information ... OK -... -* checking package dependencies ... ERROR -Package required but not available: ‘ggtree’ - -Packages suggested but not available for checking: - 'Matrix.utils', 'monocle3', 'ProjecTILs', 'SeuratWrappers' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/Platypus/old/Platypus.Rcheck’ -* using R version 4.1.1 (2021-08-10) -* using platform: x86_64-pc-linux-gnu (64-bit) -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘Platypus/DESCRIPTION’ ... OK -* checking extension type ... Package -* this is package ‘Platypus’ version ‘3.4.1’ -* package encoding: UTF-8 -* checking package namespace information ... OK -... -* checking package dependencies ... ERROR -Package required but not available: ‘ggtree’ - -Packages suggested but not available for checking: - 'Matrix.utils', 'monocle3', 'ProjecTILs', 'SeuratWrappers' - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -# tidytags - -
- -* Version: NA -* GitHub: NA -* Source code: https://github.com/cran/tidytags -* Number of recursive dependencies: 122 - -Run `revdepcheck::cloud_details(, "tidytags")` for more info - -
- -## Error before installation - -### Devel - -``` - - - - - - -``` -### CRAN - -``` - - - - - - -``` -# xpose.nlmixr2 - -
- -* Version: 0.4.0 -* GitHub: NA -* Source code: https://github.com/cran/xpose.nlmixr2 -* Date/Publication: 2022-06-08 09:10:02 UTC -* Number of recursive dependencies: 161 - -Run `revdepcheck::cloud_details(, "xpose.nlmixr2")` for more info - -
- -## Error before installation - -### Devel - -``` -* using log directory ‘/tmp/workdir/xpose.nlmixr2/new/xpose.nlmixr2.Rcheck’ -* using R version 4.1.1 (2021-08-10) -* using platform: x86_64-pc-linux-gnu (64-bit) -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘xpose.nlmixr2/DESCRIPTION’ ... OK -* checking extension type ... Package -* this is package ‘xpose.nlmixr2’ version ‘0.4.0’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘nlmixr2est’ - -Package suggested but not available for checking: ‘nlmixr2’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` -### CRAN - -``` -* using log directory ‘/tmp/workdir/xpose.nlmixr2/old/xpose.nlmixr2.Rcheck’ -* using R version 4.1.1 (2021-08-10) -* using platform: x86_64-pc-linux-gnu (64-bit) -* using session charset: UTF-8 -* using option ‘--no-manual’ -* checking for file ‘xpose.nlmixr2/DESCRIPTION’ ... OK -* checking extension type ... Package -* this is package ‘xpose.nlmixr2’ version ‘0.4.0’ -* package encoding: UTF-8 -* checking package namespace information ... OK -* checking package dependencies ... ERROR -Package required but not available: ‘nlmixr2est’ - -Package suggested but not available for checking: ‘nlmixr2’ - -See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ -manual. -* DONE -Status: 1 ERROR - - - - - -``` +*Wow, no problems at all. :)* \ No newline at end of file diff --git a/revdep/problems.md b/revdep/problems.md index 04c6c2a6..c2bf6503 100644 --- a/revdep/problems.md +++ b/revdep/problems.md @@ -1,14 +1,14 @@ -# rapbase +# APCalign
-* Version: 1.23.0 -* GitHub: https://github.com/Rapporteket/rapbase -* Source code: https://github.com/cran/rapbase -* Date/Publication: 2022-08-17 14:20:02 UTC -* Number of recursive dependencies: 110 +* Version: 0.1.3 +* GitHub: https://github.com/traitecoevo/APCalign +* Source code: https://github.com/cran/APCalign +* Date/Publication: 2023-11-16 22:43:53 UTC +* Number of recursive dependencies: 97 -Run `revdepcheck::cloud_details(, "rapbase")` for more info +Run `revdepcheck::cloud_details(, "APCalign")` for more info
@@ -18,21 +18,31 @@ Run `revdepcheck::cloud_details(, "rapbase")` for more info ``` Running ‘testthat.R’ Running the tests in ‘tests/testthat.R’ failed. - Last 13 lines of output: - ══ Failed tests ════════════════════════════════════════════════════════════════ - ── Failure ('test-github.R:6'): contributors are provided ────────────────────── - class(getGithub("contributors", "rapbase")) not equal to "character". - 1/1 mismatches - x[1]: "NULL" - y[1]: "character" - ── Failure ('test-github.R:10'): key can be provided ─────────────────────────── - grepl("ssh-rsa", getGithub("keys", "areedv")) is not TRUE + 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 + ... + 6. │ └─dplyr:::check_nth_default(default, x = x) + 7. │ └─vctrs::vec_init(x) + 8. └─vctrs:::stop_scalar_type(``(NULL), "x", ``(vec_init())) + 9. └─vctrs:::stop_vctrs(...) + 10. └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = call) - `actual`: - `expected`: TRUE - - [ FAIL 2 | WARN 0 | SKIP 25 | PASS 190 ] + [ FAIL 1 | WARN 0 | SKIP 0 | PASS 85 ] Error: Test failures + In addition: There were 18 warnings (use warnings() to see them) Execution halted ``` +## In both + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 4 marked UTF-8 strings + ``` +