Back to Workflows build report for BioC 3.23

This page was generated on 2025-11-11 16:30 -0500 (Tue, 11 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4823
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 11/28HostnameOS / ArchINSTALLBUILD
fluentGenomics 1.23.0  (landing page)
Stuart Lee
Snapshot Date: 2025-11-11 12:45 -0500 (Tue, 11 Nov 2025)
git_url: https://git.bioconductor.org/packages/fluentGenomics
git_branch: devel
git_last_commit: 4891059
git_last_commit_date: 2025-10-29 09:47:28 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  

BUILD results for fluentGenomics on nebbiolo1

To the developers/maintainers of the fluentGenomics 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: fluentGenomics
Version: 1.23.0
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data fluentGenomics
StartedAt: 2025-11-11 13:04:53 -0500 (Tue, 11 Nov 2025)
EndedAt: 2025-11-11 13:06:44 -0500 (Tue, 11 Nov 2025)
EllapsedTime: 111.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data fluentGenomics
###
##############################################################################
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* checking for file ‘fluentGenomics/DESCRIPTION’ ... OK
* preparing ‘fluentGenomics’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘fluentGenomics.Rmd’ using rmarkdown

Quitting from fluentGenomics.Rmd:365-369 [de-genes]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! unable to find an inherited method for function 'select' for signature 'x = "GRanges"'
---
Backtrace:
    ▆
 1. ├─de_genes %>% filter(padj < 0.01) %>% ...
 2. └─AnnotationDbi::select(...)
 3.   └─methods (local) `<fn>`(`<list>`, `<stndrdGn>`, `<env>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'fluentGenomics.Rmd' failed with diagnostics:
unable to find an inherited method for function 'select' for signature 'x = "GRanges"'
--- failed re-building ‘fluentGenomics.Rmd’

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

Error: Vignette re-building failed.
Execution halted