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This page was generated on 2024-06-11 15:40 -0400 (Tue, 11 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4679
palomino4Windows Server 2022 Datacenterx644.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" 4414
merida1macOS 12.7.4 Montereyx86_644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4441
kjohnson1macOS 13.6.6 Venturaarm644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4394
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 777/2239HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
genefilter 1.87.0  (landing page)
Bioconductor Package Maintainer
Snapshot Date: 2024-06-09 14:00 -0400 (Sun, 09 Jun 2024)
git_url: https://git.bioconductor.org/packages/genefilter
git_branch: devel
git_last_commit: 1bff583
git_last_commit_date: 2024-04-30 10:10:51 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  skipped
palomino4Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
merida1macOS 12.7.4 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson1macOS 13.6.6 Ventura / arm64  OK    ERROR  skippedskipped

BUILD results for genefilter on palomino4

To the developers/maintainers of the genefilter package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/genefilter.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: genefilter
Version: 1.87.0
Command: chmod a+r genefilter -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data genefilter
StartedAt: 2024-06-09 19:10:32 -0400 (Sun, 09 Jun 2024)
EndedAt: 2024-06-09 19:11:54 -0400 (Sun, 09 Jun 2024)
EllapsedTime: 81.7 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   chmod a+r genefilter -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data genefilter
###
##############################################################################
##############################################################################


* checking for file 'genefilter/DESCRIPTION' ... OK
* preparing 'genefilter':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'howtogenefilter.Rmd' using rmarkdown
--- finished re-building 'howtogenefilter.Rmd'

--- re-building 'howtogenefinder.Rmd' using rmarkdown
[WARNING] Could not parse YAML metadata at line 22 column 1: :2:72: Unexpected '
  '
[WARNING] This document format requires a nonempty <title> element.
  Please specify either 'title' or 'pagetitle' in the metadata,
  e.g. by using --metadata pagetitle="..." on the command line.
  Falling back to 'howtogenefinder.knit'
--- finished re-building 'howtogenefinder.Rmd'

--- re-building 'independent_filtering_plots.Rnw' using knitr
texify: major issue: User/administrator updates are out-of-sync.
Warning in system(paste(shQuote(texi2dvi), if (quiet) "--quiet" else "",  :
  running command '"C:\PROGRA~1\MiKTeX\miktex\bin\x64\texify.exe" --quiet --pdf "independent_filtering_plots.tex" --max-iterations=20 -I "F:/biocbuild/bbs-3.20-bioc/R/share/texmf/tex/latex" -I "F:/biocbuild/bbs-3.20-bioc/R/share/texmf/bibtex/bst"' had status 1
Error: processing vignette 'independent_filtering_plots.Rnw' failed with diagnostics:
running 'texi2dvi' on 'independent_filtering_plots.tex' failed

LaTeX errors:
ettes/independent_filtering_plots.tex:78: Package xcolor Error: Undefined color
 `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ettes/independent_filtering_plots.tex:91: Package xcolor Error: Undefined color
 `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ettes/independent_filtering_plots.tex:111: Package xcolor Error: Undefined colo
r `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ettes/independent_filtering_plots.tex:178: Package xcolor Error: Undefined colo
r `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ettes/independent_filtering_plots.tex:191: Package xcolor Error: Undefined colo
r `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ettes/independent_filtering_plots.tex:202: Package xcolor Error: Undefined colo
r `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ettes/independent_filtering_plots.tex:225: Package xcolor Error: Undefined colo
r `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ettes/independent_filtering_plots.tex:247: Package xcolor Error: Undefined colo
r `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ettes/independent_filtering_plots.tex:256: Package xcolor Error: Undefined colo
r `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ettes/independent_filtering_plots.tex:272: Package xcolor Error: Undefined colo
r `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.

--- failed re-building 'independent_filtering_plots.Rnw'

SUMMARY: processing the following file failed:
  'independent_filtering_plots.Rnw'

Error: Vignette re-building failed.
Execution halted