Back to Workflows build report for BioC 3.24

This page was generated on 2026-05-06 14:17 -0400 (Wed, 06 May 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.4 LTS)x86_644.6.0 RC (2026-04-17 r89917) -- "Because it was There" 4878
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 8/28HostnameOS / ArchINSTALLBUILD
EGSEA123 1.37.0  (landing page)
Matthew Ritchie
Snapshot Date: 2026-05-05 12:45 -0400 (Tue, 05 May 2026)
git_url: https://git.bioconductor.org/packages/EGSEA123
git_branch: devel
git_last_commit: 61bf37a
git_last_commit_date: 2026-04-28 08:40:26 -0400 (Tue, 28 Apr 2026)
nebbiolo2Linux (Ubuntu 24.04.4 LTS) / x86_64  OK    ERROR  

BUILD results for EGSEA123 on nebbiolo2

To the developers/maintainers of the EGSEA123 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: EGSEA123
Version: 1.37.0
Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data EGSEA123
StartedAt: 2026-05-05 13:04:59 -0400 (Tue, 05 May 2026)
EndedAt: 2026-05-05 13:08:45 -0400 (Tue, 05 May 2026)
EllapsedTime: 225.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data EGSEA123
###
##############################################################################
##############################################################################


* checking for file ‘EGSEA123/DESCRIPTION’ ... OK
* preparing ‘EGSEA123’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘EGSEAWorkflow.Rmd’ using rmarkdown
trying URL 'http://bioinf.wehi.edu.au/EGSEA/mam.rnaseq.rdata'
Content type 'text/html; charset=iso-8859-1' length 1786017 bytes (1.7 MB)
==================================================
downloaded 1.7 MB


Quitting from EGSEAWorkflow.Rmd:410-413 [gographs]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `value[[3L]]()`:
! plotPathway(...) encountered an error:
Error: unable to open database file
---
Backtrace:
    ▆
 1. ├─EGSEA::plotGOGraph(...)
 2. └─EGSEA::plotGOGraph(...)
 3.   └─base::tryCatch(...)
 4.     └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 5.       └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 6.         └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'EGSEAWorkflow.Rmd' failed with diagnostics:
plotPathway(...) encountered an error:
Error: unable to open database file

--- failed re-building ‘EGSEAWorkflow.Rmd’

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

Error: Vignette re-building failed.
Execution halted