Back to Multiple platform build/check report for BioC 3.19:   simplified   long
ABCDE[F]GHIJKLMNOPQRSTUVWXYZ

This page was generated on 2024-06-07 20:25 -0400 (Fri, 07 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4755
palomino3Windows Server 2022 Datacenterx644.4.0 (2024-04-24 ucrt) -- "Puppy Cup" 4489
lconwaymacOS 12.7.1 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 4520
kjohnson3macOS 13.6.5 Venturaarm644.4.0 (2024-04-24) -- "Puppy Cup" 4466
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 743/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowMap 1.42.0  (landing page)
Chiaowen Joyce Hsiao
Snapshot Date: 2024-06-05 14:00:26 -0400 (Wed, 05 Jun 2024)
git_url: https://git.bioconductor.org/packages/flowMap
git_branch: RELEASE_3_19
git_last_commit: c54d2b1
git_last_commit_date: 2024-04-30 10:33:52 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  skipped
palomino3Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson3macOS 13.6.5 Ventura / arm64  OK    ERROR  skippedskipped

BUILD results for flowMap on palomino3

To the developers/maintainers of the flowMap package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowMap.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: flowMap
Version: 1.42.0
Command: chmod a+r flowMap -R && F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data flowMap
StartedAt: 2024-06-05 19:21:10 -0400 (Wed, 05 Jun 2024)
EndedAt: 2024-06-05 19:23:07 -0400 (Wed, 05 Jun 2024)
EllapsedTime: 117.4 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r flowMap -R && F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data flowMap
###
##############################################################################
##############################################################################


* checking for file 'flowMap/DESCRIPTION' ... OK
* preparing 'flowMap':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'flowMap.Rnw' using knitr
!!! Error: Cannot call Ghostscript: `mgs' (No such file or directory/The system cannot find the file specified)!
pdfcrop: major issue: User/administrator updates are out-of-sync.
!!! Error: Cannot call Ghostscript: `mgs' (No such file or directory/The system cannot find the file specified)!
pdfcrop: major issue: User/administrator updates are out-of-sync.
!!! Error: Cannot call Ghostscript: `mgs' (No such file or directory/The system cannot find the file specified)!
pdfcrop: major issue: User/administrator updates are out-of-sync.
!!! Error: Cannot call Ghostscript: `mgs' (No such file or directory/The system cannot find the file specified)!
pdfcrop: major issue: User/administrator updates are out-of-sync.
!!! Error: Cannot call Ghostscript: `mgs' (No such file or directory/The system cannot find the file specified)!
pdfcrop: major issue: User/administrator updates are out-of-sync.
!!! Error: Cannot call Ghostscript: `mgs' (No such file or directory/The system cannot find the file specified)!
pdfcrop: major issue: User/administrator updates are out-of-sync.
!!! Error: Cannot call Ghostscript: `mgs' (No such file or directory/The system cannot find the file specified)!
pdfcrop: major issue: User/administrator updates are out-of-sync.
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 "flowMap.tex" --max-iterations=20 -I "F:/biocbuild/bbs-3.19-bioc/R/share/texmf/tex/latex" -I "F:/biocbuild/bbs-3.19-bioc/R/share/texmf/bibtex/bst"' had status 1
Error: processing vignette 'flowMap.Rnw' failed with diagnostics:
running 'texi2dvi' on 'flowMap.tex' failed

LaTeX errors:
es/flowMap.tex:47: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
es/flowMap.tex:85: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
es/flowMap.tex:121: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
es/flowMap.tex:153: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
es/flowMap.tex:190: Package xcolor Error: Undefined color `fgcolor'.

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

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

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
es/flowMap.tex:288: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
es/flowMap.tex:322: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
es/flowMap.tex:336: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
es/flowMap.tex:351: Package xcolor Error: Undefined color `fgcolor'.

See the xcolor package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
es/flowMap.tex:400: Package xcolor Error: Undefined color `fgcolor'.

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

--- failed re-building 'flowMap.Rnw'

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

Error: Vignette re-building failed.
Execution halted
Error in summary.connection(connection) : invalid connection
Calls: <Anonymous> ... sendData.SOCKnode -> serialize -> summary -> summary.connection
Error in summary.connection(connection) : invalid connection
Calls: <Anonymous> ... sendData.SOCKnode -> serialize -> summary -> summary.connection
Error in summary.connection(connection) : invalid connection
Calls: <Anonymous> ... sendData.SOCKnode -> serialize -> summary -> summary.connection
Error in summary.connection(connection) : invalid connection
Calls: <Anonymous> ... sendData.SOCKnode -> serialize -> summary -> summary.connection