Back to Multiple platform build/check report for BioC 3.17
ABCDEFGHIJKLMN[O]PQRSTUVWXYZ

This page was generated on 2023-04-12 10:55:39 -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 ORFik on nebbiolo2


To the developers/maintainers of the ORFik package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ORFik.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 1433/2207HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ORFik 1.19.9  (landing page)
Haakon Tjeldnes
Snapshot Date: 2023-04-11 14:00:16 -0400 (Tue, 11 Apr 2023)
git_url: https://git.bioconductor.org/packages/ORFik
git_branch: devel
git_last_commit: f7d2ce3
git_last_commit_date: 2023-04-04 06:26:02 -0400 (Tue, 04 Apr 2023)
nebbiolo1Linux (Ubuntu 22.04.1 LTS) / x86_64  OK    ERROR  skipped
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    ERROR  skipped

Summary

Package: ORFik
Version: 1.19.9
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data ORFik
StartedAt: 2023-04-12 03:33:18 -0400 (Wed, 12 Apr 2023)
EndedAt: 2023-04-12 03:42:08 -0400 (Wed, 12 Apr 2023)
EllapsedTime: 529.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data ORFik
###
##############################################################################
##############################################################################


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

--- re-building ‘Importing_Data.Rmd’ using rmarkdown
Quitting from lines 214-219 (Importing_Data.Rmd) 
Error: processing vignette 'Importing_Data.Rmd' failed with diagnostics:
subscript contains out-of-bounds indices
--- failed re-building ‘Importing_Data.Rmd’

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

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

--- re-building ‘Ribo-seq_pipeline.Rmd’ using rmarkdown
--- finished re-building ‘Ribo-seq_pipeline.Rmd’

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

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

Error: Vignette re-building failed.
Execution halted