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This page was generated on 2024-05-30 11:35:24 -0400 (Thu, 30 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4753
lconwaymacOS 12.7.1 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 4518
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 72/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
AnnotationForge 1.46.0  (landing page)
Bioconductor Package Maintainer
Snapshot Date: 2024-05-29 14:00:10 -0400 (Wed, 29 May 2024)
git_url: https://git.bioconductor.org/packages/AnnotationForge
git_branch: RELEASE_3_19
git_last_commit: 50d6713
git_last_commit_date: 2024-04-30 10:28:08 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  skipped
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson3macOS 13.6.5 Ventura / arm64see weekly results here

BUILD results for AnnotationForge on lconway


To the developers/maintainers of the AnnotationForge package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/AnnotationForge.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: AnnotationForge
Version: 1.46.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data AnnotationForge
StartedAt: 2024-05-29 15:54:21 -0400 (Wed, 29 May 2024)
EndedAt: 2024-05-29 15:58:01 -0400 (Wed, 29 May 2024)
EllapsedTime: 219.7 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data AnnotationForge
###
##############################################################################
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* checking for file ‘AnnotationForge/DESCRIPTION’ ... OK
* preparing ‘AnnotationForge’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘makeProbePackage.Rmd’ using rmarkdown

See
  ‘/private/tmp/RtmpkRI8D2/hgu95av2probe.Rcheck/00check.log’
for details.

Warning: closing unused connection 4 (/private/tmp/Rtmp7w2kzj/Rinst2464282870/AnnotationForge/extdata/HG-U95Av2_probe_tab.gz)
--- finished re-building ‘makeProbePackage.Rmd’

--- re-building ‘MakingNewAnnotationPackages.Rnw’ using knitr
trying URL 'http://rest.uniprot.org/uniprotkb/search?query=P13368%20OR%20Q6GZX4&format=xml'
Content type 'application/xml' length 45246 bytes (44 KB)
==================================================
downloaded 44 KB

Error: processing vignette 'MakingNewAnnotationPackages.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'MakingNewAnnotationPackages.tex' failed.
LaTeX errors:
! Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
! Emergency stop.
 ...                                              
                                                  
l.78 ...}{rgb}{0.941, 0.941, 0.941}\color{fgcolor}
                                                  \begin{kframe}
!  ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘MakingNewAnnotationPackages.Rnw’

--- re-building ‘MakingNewOrganismPackages.Rmd’ using knitr
--- finished re-building ‘MakingNewOrganismPackages.Rmd’

--- re-building ‘SQLForge.Rnw’ using knitr
Warning: call dbDisconnect() when finished working with a connection
Error: processing vignette 'SQLForge.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'SQLForge.tex' failed.
LaTeX errors:
! Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
! Emergency stop.
 ...                                              
                                                  
l.67 ...}{rgb}{0.941, 0.941, 0.941}\color{fgcolor}
                                                  \begin{kframe}
!  ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘SQLForge.Rnw’

SUMMARY: processing the following files failed:
  ‘MakingNewAnnotationPackages.Rnw’ ‘SQLForge.Rnw’

Error: Vignette re-building failed.
Execution halted