Back to Multiple platform build/check report for BioC 3.17
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This page was generated on 2023-04-12 10:55:35 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.1 LTS)x86_644.3.0 alpha (2023-04-03 r84154) 4547
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_64R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences" 4333
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 dce on nebbiolo2


To the developers/maintainers of the dce package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/dce.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 493/2207HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
dce 1.7.0  (landing page)
Kim Philipp Jablonski
Snapshot Date: 2023-04-11 14:00:16 -0400 (Tue, 11 Apr 2023)
git_url: https://git.bioconductor.org/packages/dce
git_branch: devel
git_last_commit: 6c5f4ac
git_last_commit_date: 2022-11-01 11:24:07 -0400 (Tue, 01 Nov 2022)
nebbiolo1Linux (Ubuntu 22.04.1 LTS) / x86_64  OK    ERROR  skipped
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    ERROR  skipped

Summary

Package: dce
Version: 1.7.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data dce
StartedAt: 2023-04-12 02:37:19 -0400 (Wed, 12 Apr 2023)
EndedAt: 2023-04-12 02:39:19 -0400 (Wed, 12 Apr 2023)
EllapsedTime: 120.5 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data dce
###
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* checking for file ‘dce/DESCRIPTION’ ... OK
* preparing ‘dce’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘dce.Rmd’ using rmarkdown
Quitting from lines 208-216 (dce.Rmd) 
Error: processing vignette 'dce.Rmd' failed with diagnostics:
'splitAssays' is deprecated.
Use 'TCGAsplitAssays' instead.
See help("TCGAutils-defunct")
--- failed re-building ‘dce.Rmd’

--- re-building ‘pathway_databases.Rmd’ using rmarkdown
INFO [2023-04-12 02:38:55] Processing pathbank
INFO [2023-04-12 02:39:15] Processing kegg
--- finished re-building ‘pathway_databases.Rmd’

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

Error: Vignette re-building failed.
Execution halted