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This page was generated on 2023-06-06 11:00:32 -0000 (Tue, 06 Jun 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.3.0 (2023-04-21) -- "Already Tomorrow" 4366
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

BUILD results for geva on kunpeng2


To the developers/maintainers of the geva package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/geva.git to reflect on this report. See Troubleshooting Build Report for more information.

- Use the following Renviron settings to reproduce errors and warnings.

Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details.

raw results

Package 818/2199HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
geva 1.9.0  (landing page)
Itamar José Guimarães Nunes
Snapshot Date: 2023-06-05 06:35:06 -0000 (Mon, 05 Jun 2023)
git_url: https://git.bioconductor.org/packages/geva
git_branch: devel
git_last_commit: 2ea6a08
git_last_commit_date: 2023-04-25 15:27:37 -0000 (Tue, 25 Apr 2023)
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped

Summary

Package: geva
Version: 1.9.0
Command: /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data geva
StartedAt: 2023-06-05 11:48:50 -0000 (Mon, 05 Jun 2023)
EndedAt: 2023-06-05 11:51:15 -0000 (Mon, 05 Jun 2023)
EllapsedTime: 145.2 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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###
### Running command:
###
###   /home/biocbuild/R/R-4.3.0/bin/R CMD build --keep-empty-dirs --no-resave-data geva
###
##############################################################################
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* checking for file ‘geva/DESCRIPTION’ ... OK
* preparing ‘geva’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘geva.Rmd’ using rmarkdown
Warning in Sys.setlocale("LC_TIME", "English_United States") :
  OS reports request to set locale to "English_United States" cannot be honored
Warning in system2(..., stdout = if (use_file_stdout()) f1 else FALSE, stderr = f2) :
  error in running command
sh: line 1: biber: command not found
Warning in system2(...) : error in running command
Warning: LaTeX Warning: Citation 'smyth2005limma' on page 2 undefined on input line 165.
Warning: LaTeX Warning: Citation 'love2014moderated' on page 2 undefined on input line 1
Warning: 66.
Warning: LaTeX Warning: Citation 'nunes2018gene' on page 2 undefined on input line 169.
Warning: LaTeX Warning: Citation 'kallio2011chipster' on page 2 undefined on input line 
Warning: 170.
Warning: Package longtable Warning: Column widths have changed
Warning: (longtable)                in table 1 on input line 903.
Warning: Package longtable Warning: Column widths have changed
Warning: (longtable)                in table 2 on input line 942.
Warning: LaTeX Warning: Empty bibliography on input line 993.
Warning: Package longtable Warning: Table widths have changed. Rerun LaTeX.
Warning: LaTeX Warning: There were undefined references.
Warning: LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right.
Warning: Package biblatex Warning: Please (re)run Biber on the file:
Warning: (biblatex)                geva
Warning: (biblatex)                and rerun LaTeX afterwards.
Error: processing vignette 'geva.Rmd' failed with diagnostics:
Failed to build the bibliography via biber
--- failed re-building ‘geva.Rmd’

SUMMARY: processing the following file failed:
  ‘geva.Rmd’

Error: Vignette re-building failed.
Execution halted