Back to Rapid builds (Linux only) of a subset of BioC 3.21
Report updated every 6 hours

This page was generated on 2025-03-02 09:34 -0500 (Sun, 02 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
teran2Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 869
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 57/217HostnameOS / ArchINSTALLBUILDCHECK
CytoML 2.19.1  (landing page)
Mike Jiang
Snapshot Date: 2025-03-02 06:00 -0500 (Sun, 02 Mar 2025)
git_url: https://git.bioconductor.org/packages/CytoML
git_branch: devel
git_last_commit: c84d4bd
git_last_commit_date: 2025-01-01 15:10:21 -0500 (Wed, 01 Jan 2025)
teran2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    ERROR  skipped

BUILD results for CytoML on teran2

To the developers/maintainers of the CytoML package:
- 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: CytoML
Version: 2.19.1
Command: /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data CytoML
StartedAt: 2025-03-02 06:37:36 -0500 (Sun, 02 Mar 2025)
EndedAt: 2025-03-02 06:38:36 -0500 (Sun, 02 Mar 2025)
EllapsedTime: 59.3 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data CytoML
###
##############################################################################
##############################################################################


* checking for file ‘CytoML/DESCRIPTION’ ... OK
* preparing ‘CytoML’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘HowToExportGatingSet.Rmd’ using rmarkdown

Quitting from lines 53-71 [unnamed-chunk-3] (HowToExportGatingSet.Rmd)
Error: processing vignette 'HowToExportGatingSet.Rmd' failed with diagnostics:
'autostart' is deprecated. Consider skip='string' or skip=n. This argument will be removed in the next release.
--- failed re-building ‘HowToExportGatingSet.Rmd’

--- re-building ‘cytobank2GatingSet.Rmd’ using rmarkdown
--- finished re-building ‘cytobank2GatingSet.Rmd’

--- re-building ‘flowjo_to_gatingset.Rmd’ using rmarkdown

Quitting from lines 115-117 [unnamed-chunk-9] (flowjo_to_gatingset.Rmd)
Error: processing vignette 'flowjo_to_gatingset.Rmd' failed with diagnostics:
no slot of name "name" for this object of class "pEdge"
--- failed re-building ‘flowjo_to_gatingset.Rmd’

SUMMARY: processing the following files failed:
  ‘HowToExportGatingSet.Rmd’ ‘flowjo_to_gatingset.Rmd’

Error: Vignette re-building failed.
Execution halted