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This page was generated on 2025-11-08 11:32 -0500 (Sat, 08 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4821
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Package 1791/2323HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RNAmodR.AlkAnilineSeq 1.25.0  (landing page)
Felix G.M. Ernst
Snapshot Date: 2025-11-07 13:40 -0500 (Fri, 07 Nov 2025)
git_url: https://git.bioconductor.org/packages/RNAmodR.AlkAnilineSeq
git_branch: devel
git_last_commit: e946449
git_last_commit_date: 2025-10-29 10:52:43 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped

BUILD results for RNAmodR.AlkAnilineSeq on nebbiolo1

To the developers/maintainers of the RNAmodR.AlkAnilineSeq package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RNAmodR.AlkAnilineSeq.git to reflect on this report. See Troubleshooting Build Report for more information.
- 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: RNAmodR.AlkAnilineSeq
Version: 1.25.0
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data RNAmodR.AlkAnilineSeq
StartedAt: 2025-11-07 19:37:03 -0500 (Fri, 07 Nov 2025)
EndedAt: 2025-11-07 19:38:51 -0500 (Fri, 07 Nov 2025)
EllapsedTime: 108.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data RNAmodR.AlkAnilineSeq
###
##############################################################################
##############################################################################


* checking for file ‘RNAmodR.AlkAnilineSeq/DESCRIPTION’ ... OK
* preparing ‘RNAmodR.AlkAnilineSeq’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘RNAmodR.AlkAnilineSeq.Rmd’ using rmarkdown
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d324f6ef4_2545'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d335136d5_2547'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d7166d77a_2549'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d510c7644_2537'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d5d01f63e_2539'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d33e9b46b_2541'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d57e436fe_2543'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d324f6ef4_2545'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d510c7644_2537'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d33e9b46b_2541'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d510c7644_2537'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d33e9b46b_2541'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d324f6ef4_2545'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d5d01f63e_2539'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d57e436fe_2543'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d5d01f63e_2539'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d57e436fe_2543'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d335136d5_2547'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d510c7644_2537'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d335136d5_2547'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d5d01f63e_2539'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d7166d77a_2549'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d7166d77a_2549'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d33e9b46b_2541'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d57e436fe_2543'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d324f6ef4_2545'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d335136d5_2547'
[E::idx_find_and_load] Could not retrieve index file for '/home/biocbuild/.cache/R/ExperimentHub/ca93d7166d77a_2549'

Quitting from RNAmodR.AlkAnilineSeq.Rmd:84-87 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! BiocParallel errors
  3 remote errors, element index: 1, 2, 3
  0 unevaluated and other errors
  first remote error:
Error in h(simpleError(msg, call)): error in evaluating the argument 'table' in selecting a method for function '%in%': error in evaluating the argument 'x' in selecting a method for function 'shortName': Biostrings internal error, please report
---
Backtrace:
     ▆
  1. └─RNAmodR.AlkAnilineSeq::ModSetAlkAnilineSeq(...)
  2.   ├─RNAmodR::ModifierSet(...)
  3.   └─RNAmodR::ModifierSet(...)
  4.     └─RNAmodR:::.bamfiles_to_ModifierSet(...)
  5.       ├─BiocParallel::bpmapply(...)
  6.       └─BiocParallel::bpmapply(...)
  7.         ├─BiocParallel::bpmapply(...)
  8.         └─BiocParallel::bpmapply(...)
  9.           ├─BiocParallel::bplapply(...)
 10.           └─BiocParallel::bplapply(...)
 11.             └─BiocParallel:::.bpinit(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'RNAmodR.AlkAnilineSeq.Rmd' failed with diagnostics:
BiocParallel errors
  3 remote errors, element index: 1, 2, 3
  0 unevaluated and other errors
  first remote error:
Error in h(simpleError(msg, call)): error in evaluating the argument 'table' in selecting a method for function '%in%': error in evaluating the argument 'x' in selecting a method for function 'shortName': Biostrings internal error, please report

--- failed re-building ‘RNAmodR.AlkAnilineSeq.Rmd’

SUMMARY: processing the following file failed:
  ‘RNAmodR.AlkAnilineSeq.Rmd’

Error: Vignette re-building failed.
Execution halted