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This page was generated on 2024-05-22 11:35:52 -0400 (Wed, 22 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4751
palomino3Windows Server 2022 Datacenterx644.4.0 (2024-04-24 ucrt) -- "Puppy Cup" 4485
lconwaymacOS 12.7.1 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 3444
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 1230/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
methodical 1.0.0  (landing page)
Richard Heery
Snapshot Date: 2024-05-21 14:00:15 -0400 (Tue, 21 May 2024)
git_url: https://git.bioconductor.org/packages/methodical
git_branch: RELEASE_3_19
git_last_commit: 7a6d078
git_last_commit_date: 2024-04-30 11:53:36 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
lconwaymacOS 12.7.1 Monterey / x86_64  ERROR    ERROR  skippedskipped
kjohnson3macOS 13.6.5 Ventura / arm64see weekly results here

BUILD results for methodical on palomino3


To the developers/maintainers of the methodical package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/methodical.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: methodical
Version: 1.0.0
Command: chmod a+r methodical -R && F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data methodical
StartedAt: 2024-05-21 19:58:21 -0400 (Tue, 21 May 2024)
EndedAt: 2024-05-21 20:00:26 -0400 (Tue, 21 May 2024)
EllapsedTime: 125.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
###
###   chmod a+r methodical -R && F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data methodical
###
##############################################################################
##############################################################################


* checking for file 'methodical/DESCRIPTION' ... OK
* preparing 'methodical':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'calculating_methylation_transcription_correlations.Rmd' using rmarkdown
You do not have sufficient privilege to perform this operation.
You do not have sufficient privilege to perform this operation.

Quitting from lines 51-56 [unnamed-chunk-3] (calculating_methylation_transcription_correlations.Rmd)
Error: processing vignette 'calculating_methylation_transcription_correlations.Rmd' failed with diagnostics:
directory
  "F:\biocbuild\bbs-3.19-bioc\tmpdir\RtmpOcJrqi/mcrpc_wgbs_hg38_chr11"
  does not seem to contain an HDF5-based SummarizedExperiment object
  previously saved with saveHDF5SummarizedExperiment()
--- failed re-building 'calculating_methylation_transcription_correlations.Rmd'

--- re-building 'identifying_tmrs.Rmd' using rmarkdown
--- finished re-building 'identifying_tmrs.Rmd'

--- re-building 'working_with_meth_rses.Rmd' using rmarkdown

Quitting from lines 46-48 [unnamed-chunk-2] (working_with_meth_rses.Rmd)
Error: processing vignette 'working_with_meth_rses.Rmd' failed with diagnostics:
F:\biocbuild\bbs-3.19-bioc\tmpdir\RtmpOcJrqi/mcrpc_wgbs_hg38_chr11 already exists but it does not contain a HDF5 SummarizedExperiment
--- failed re-building 'working_with_meth_rses.Rmd'

SUMMARY: processing the following files failed:
  'calculating_methylation_transcription_correlations.Rmd'
  'working_with_meth_rses.Rmd'

Error: Vignette re-building failed.
Execution halted