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This page was generated on 2024-03-28 11:37:12 -0400 (Thu, 28 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_64R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" 4708
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" 4446
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" 4471
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" 4426
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 2145/2270HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
TNBC.CMS 1.19.1  (landing page)
Doyeong Yu
Snapshot Date: 2024-03-27 14:00:18 -0400 (Wed, 27 Mar 2024)
git_url: https://git.bioconductor.org/packages/TNBC.CMS
git_branch: devel
git_last_commit: 4362d26
git_last_commit_date: 2024-02-29 13:25:22 -0400 (Thu, 29 Feb 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
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped

BUILD results for TNBC.CMS on nebbiolo1


To the developers/maintainers of the TNBC.CMS package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/TNBC.CMS.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: TNBC.CMS
Version: 1.19.1
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data TNBC.CMS
StartedAt: 2024-03-27 19:48:46 -0400 (Wed, 27 Mar 2024)
EndedAt: 2024-03-27 19:49:35 -0400 (Wed, 27 Mar 2024)
EllapsedTime: 48.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data TNBC.CMS
###
##############################################################################
##############################################################################


* checking for file ‘TNBC.CMS/DESCRIPTION’ ... OK
* preparing ‘TNBC.CMS’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘TNBC.CMS.rnw’ using knitr

Quitting from lines 212-215 [gsa] (TNBC.CMS.rnw)
Error: processing vignette 'TNBC.CMS.rnw' failed with diagnostics:
Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct; use a method-specific parameter object (see '?gsva').
--- failed re-building ‘TNBC.CMS.rnw’

SUMMARY: processing the following file failed:
  ‘TNBC.CMS.rnw’

Error: Vignette re-building failed.
Execution halted