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This page was generated on 2025-02-10 11:41 -0500 (Mon, 10 Feb 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4719
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" 4480
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" 4491
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4444
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 1517/2295HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
paxtoolsr 1.41.1  (landing page)
Augustin Luna
Snapshot Date: 2025-02-09 13:40 -0500 (Sun, 09 Feb 2025)
git_url: https://git.bioconductor.org/packages/paxtoolsr
git_branch: devel
git_last_commit: 5c7e0fb
git_last_commit_date: 2024-12-17 11:06:13 -0500 (Tue, 17 Dec 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    ERROR  skipped
palomino7Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson3macOS 13.7.1 Ventura / arm64  OK    ERROR  skippedskipped

BUILD results for paxtoolsr on palomino7

To the developers/maintainers of the paxtoolsr package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/paxtoolsr.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: paxtoolsr
Version: 1.41.1
Command: chmod a+r paxtoolsr -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data paxtoolsr
StartedAt: 2025-02-09 20:38:09 -0500 (Sun, 09 Feb 2025)
EndedAt: 2025-02-09 20:38:45 -0500 (Sun, 09 Feb 2025)
EllapsedTime: 35.9 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   chmod a+r paxtoolsr -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data paxtoolsr
###
##############################################################################
##############################################################################


* checking for file 'paxtoolsr/DESCRIPTION' ... OK
* preparing 'paxtoolsr':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'using_paxtoolsr.Rmd' using rmarkdown
2025-02-09 20:38:32,905 1207 [main] INFO  org.biopax.paxtools.PaxtoolsMain  - toSif: not blacklisting ubiquitous molecules (no blacklist.txt found)
2025-02-09 20:38:34,095 2397 [main] INFO  org.biopax.paxtools.PaxtoolsMain  - toSifnx: not blacklisting ubiquitous molecules (no blacklist.txt found)

Quitting from lines 169-171 [searchResultsExampleVerbose] (using_paxtoolsr.Rmd)
Error: processing vignette 'using_paxtoolsr.Rmd' failed with diagnostics:
ERROR: Code: 404 Message: Unknown Error (PC Webservice Error)
--- failed re-building 'using_paxtoolsr.Rmd'

SUMMARY: processing the following file failed:
  'using_paxtoolsr.Rmd'

Error: Vignette re-building failed.
Execution halted