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This page was generated on 2024-05-31 19:30:02 -0400 (Fri, 31 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4669
palomino4Windows Server 2022 Datacenterx644.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" 4404
merida1macOS 12.7.4 Montereyx86_644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4431
kjohnson1macOS 13.6.6 Venturaarm644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4384
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 797/2233HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GenomeInfoDb 1.41.1  (landing page)
Hervé Pagès
Snapshot Date: 2024-05-30 18:57:37 -0400 (Thu, 30 May 2024)
git_url: https://git.bioconductor.org/packages/GenomeInfoDb
git_branch: devel
git_last_commit: 4f9eff2
git_last_commit_date: 2024-05-22 19:31:46 -0400 (Wed, 22 May 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    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    ERROR  skippedskipped

BUILD results for GenomeInfoDb on palomino4


To the developers/maintainers of the GenomeInfoDb package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GenomeInfoDb.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: GenomeInfoDb
Version: 1.41.1
Command: chmod a+r GenomeInfoDb -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data GenomeInfoDb
StartedAt: 2024-05-31 00:32:51 -0400 (Fri, 31 May 2024)
EndedAt: 2024-05-31 00:33:35 -0400 (Fri, 31 May 2024)
EllapsedTime: 43.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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


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

--- re-building 'GenomeInfoDb.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 "GenomeInfoDb.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 'GenomeInfoDb.Rnw' failed with diagnostics:
running 'texi2dvi' on 'GenomeInfoDb.tex' failed

LaTeX errors:
ignettes/GenomeInfoDb.tex:64: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
ignettes/GenomeInfoDb.tex:96: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
ignettes/GenomeInfoDb.tex:120: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:141: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:156: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:173: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:189: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:216: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:251: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:267: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:290: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:308: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:324: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:358: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:405: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:433: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:462: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:489: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:515: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:709: Package xcolor Error: Undefined color `fgcolor'.


See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/GenomeInfoDb.tex:765: Package xcolor Error: Undefined color `fgcolor'.


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

--- failed re-building 'GenomeInfoDb.Rnw'

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

Error: Vignette re-building failed.
Execution halted