Back to Workflows build report for BioC 3.19

This page was generated on 2024-05-21 14:00:10 -0400 (Tue, 21 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" 4515
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 20/30HostnameOS / ArchINSTALLBUILD
RNAseq123 1.28.0  (landing page)
Matthew Ritchie
Snapshot Date: 2024-05-21 07:45:01 -0400 (Tue, 21 May 2024)
git_url: https://git.bioconductor.org/packages/RNAseq123
git_branch: RELEASE_3_19
git_last_commit: 7abf05e
git_last_commit_date: 2024-04-30 10:13:25 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  
palomino3Windows Server 2022 Datacenter / x64  OK    OK  
lconwaymacOS 12.7.1 Monterey / x86_64  OK    ERROR  

BUILD results for RNAseq123 on lconway


To the developers/maintainers of the RNAseq123 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: RNAseq123
Version: 1.28.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data RNAseq123
StartedAt: 2024-05-21 08:02:51 -0400 (Tue, 21 May 2024)
EndedAt: 2024-05-21 08:04:44 -0400 (Tue, 21 May 2024)
EllapsedTime: 113.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data RNAseq123
###
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* checking for file ‘RNAseq123/DESCRIPTION’ ... OK
* preparing ‘RNAseq123’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘designmatrices.Rmd’ using rmarkdown
2024-05-21 08:03:18.648 R[72788:1890834719] XType: com.apple.fonts is not accessible.
2024-05-21 08:03:18.648 R[72788:1890834719] XType: XTFontStaticRegistry is enabled.
--- finished re-building ‘designmatrices.Rmd’

--- re-building ‘limmaWorkflow.Rmd’ using rmarkdown
trying URL 'https://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE63310&format=file'

Quitting from lines 70-78 [downloadData] (limmaWorkflow.Rmd)
Error: processing vignette 'limmaWorkflow.Rmd' failed with diagnostics:
cannot open URL 'https://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE63310&format=file'
--- failed re-building ‘limmaWorkflow.Rmd’

--- re-building ‘limmaWorkflow_CHN.Rmd’ using rmarkdown
trying URL 'https://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE63310&format=file'

Quitting from lines 70-78 [downloadData] (limmaWorkflow_CHN.Rmd)
Error: processing vignette 'limmaWorkflow_CHN.Rmd' failed with diagnostics:
cannot open URL 'https://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE63310&format=file'
--- failed re-building ‘limmaWorkflow_CHN.Rmd’

SUMMARY: processing the following files failed:
  ‘limmaWorkflow.Rmd’ ‘limmaWorkflow_CHN.Rmd’

Error: Vignette re-building failed.
Execution halted