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This page was generated on 2024-05-15 08:30:05 -0400 (Wed, 15 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4663
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 22/46HostnameOS / ArchINSTALLBUILDCHECK
EuPathDB 1.0.1  (landing page)
Keith Hughitt
Snapshot Date: 2024-05-15 06:00:01 -0400 (Wed, 15 May 2024)
git_url: https://git.bioconductor.org/packages/EuPathDB
git_branch: devel
git_last_commit: 94b4c46
git_last_commit_date: 2018-11-13 11:26:46 -0400 (Tue, 13 Nov 2018)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  skipped

BUILD results for EuPathDB on nebbiolo2


To the developers/maintainers of the EuPathDB 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: EuPathDB
Version: 1.0.1
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data EuPathDB
StartedAt: 2024-05-15 06:31:34 -0400 (Wed, 15 May 2024)
EndedAt: 2024-05-15 06:32:29 -0400 (Wed, 15 May 2024)
EllapsedTime: 54.6 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data EuPathDB
###
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* checking for file ‘EuPathDB/DESCRIPTION’ ... OK
* preparing ‘EuPathDB’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘EuPathDB.Rmd’ using rmarkdown

Quitting from lines  at lines 113-115 [unnamed-chunk-4] (EuPathDB.Rmd)
Error: processing vignette 'EuPathDB.Rmd' failed with diagnostics:
AH65089 is an OrgDb resource.
  orgDb resources are generated for specific biocversions.
  Requested resource works with biocversion: 3.8
  To find a resource appropriate for your biocversion try the following query:
      query(ah,'Leishmania major strain Friedlin genome wide annotations')
--- failed re-building ‘EuPathDB.Rmd’

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

Error: Vignette re-building failed.
Execution halted