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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 70/2239HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
AnnotationDbi 1.67.0  (landing page)
Bioconductor Package Maintainer
Snapshot Date: 2024-06-09 14:00 -0400 (Sun, 09 Jun 2024)
git_url: https://git.bioconductor.org/packages/AnnotationDbi
git_branch: devel
git_last_commit: f92007d
git_last_commit_date: 2024-04-30 10:16:08 -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 AnnotationDbi on palomino4

To the developers/maintainers of the AnnotationDbi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/AnnotationDbi.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: AnnotationDbi
Version: 1.67.0
Command: chmod a+r AnnotationDbi -R && F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data AnnotationDbi
StartedAt: 2024-06-09 17:11:43 -0400 (Sun, 09 Jun 2024)
EndedAt: 2024-06-09 17:13:26 -0400 (Sun, 09 Jun 2024)
EllapsedTime: 102.5 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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


* checking for file 'AnnotationDbi/DESCRIPTION' ... OK
* preparing 'AnnotationDbi':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'AnnotationDbi.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 "AnnotationDbi.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 'AnnotationDbi.Rnw' failed with diagnostics:
running 'texi2dvi' on 'AnnotationDbi.tex' failed

LaTeX errors:
ignettes/AnnotationDbi.tex:141: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:206: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:218: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:258: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:292: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:303: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:325: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:356: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:383: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:408: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:427: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:442: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:487: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:525: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:558: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:593: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:615: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:652: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:689: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:714: Package xcolor Error: Undefined color `fgcolor'
.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1390: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1412: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1429: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1446: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1463: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1480: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1495: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1521: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1547: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1574: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1661: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1673: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1683: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1708: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1746: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1760: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1770: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1793: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1813: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1848: Package xcolor Error: Undefined color `fgcolor
'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/AnnotationDbi.tex:1865: Package xcolor Error: Undefined color `fgcolor
'.

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

--- failed re-building 'AnnotationDbi.Rnw'

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

LaTeX errors:
ignettes/IntroToAnnotationPackages.tex:155: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:168: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:192: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:241: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:263: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:277: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:297: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:314: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:350: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:413: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:430: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:437: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:478: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:502: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:542: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:587: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:692: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:810: Package xcolor Error: Undefined col
or `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
ignettes/IntroToAnnotationPackages.tex:849: Package xcolor Error: Undefined col
or `fgcolor'.

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

--- failed re-building 'IntroToAnnotationPackages.Rnw'

SUMMARY: processing the following files failed:
  'AnnotationDbi.Rnw' 'IntroToAnnotationPackages.Rnw'

Error: Vignette re-building failed.
Execution halted