Multiple platform build/check report for BioC 3.20 - BUILD results for TAPseq on taishan

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4670
palomino8	Windows Server 2022 Datacenter	x64	4.4.3 (2025-02-28 ucrt) -- "Trophy Case"	4355
merida1	macOS 12.7.5 Monterey	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4446
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.3 (2025-02-28) -- "Trophy Case"	4439
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.3 (2025-02-28) -- "Trophy Case"	4306
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 TAPseq on taishan

To the developers/maintainers of the TAPseq package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/TAPseq.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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results

Summary

Package: TAPseq

Version: 1.18.0

Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data TAPseq

StartedAt: 2025-03-07 04:21:45 -0000 (Fri, 07 Mar 2025)

EndedAt: 2025-03-07 04:27:07 -0000 (Fri, 07 Mar 2025)

EllapsedTime: 322.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data TAPseq
###
##############################################################################
##############################################################################


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

Quitting from lines 99-106 [unnamed-chunk-6] (tapseq_primer_design.Rmd)
Error: processing vignette 'tapseq_primer_design.Rmd' failed with diagnostics:
BSgenome.Hsapiens.UCSC.hg38 package is not currently installed.
  You first need to install it, which you can do with:
      library(BiocManager)
      install("BSgenome.Hsapiens.UCSC.hg38")
--- failed re-building ‘tapseq_primer_design.Rmd’

--- re-building ‘tapseq_target_genes.Rmd’ using rmarkdown
Performing log-normalization
0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Performing log-normalization
0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Using method 'umap'
0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Using method 'umap'
0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
--- finished re-building ‘tapseq_target_genes.Rmd’

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

Error: Vignette re-building failed.
Execution halted