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This page was generated on 2026-05-14 11:32 -0400 (Thu, 14 May 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4893 |
| 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 179/2374 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| BgeeCall 1.29.0 (landing page) Julien Wollbrett
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for BgeeCall in R Universe. | ||||||||||||||
|
To the developers/maintainers of the BgeeCall package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BgeeCall.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. |
| Package: BgeeCall |
| Version: 1.29.0 |
| Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 BgeeCall |
| StartedAt: 2026-05-13 16:29:14 -0400 (Wed, 13 May 2026) |
| EndedAt: 2026-05-13 16:30:52 -0400 (Wed, 13 May 2026) |
| EllapsedTime: 98.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 BgeeCall
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* checking for file ‘BgeeCall/DESCRIPTION’ ... OK
* preparing ‘BgeeCall’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘bgeecall-manual.Rmd’ using rmarkdown
trying URL 'https://www.bgee.org/ftp/intergenic/2.1/ref_intergenic/6239_intergenic.fa.gz'
Content type 'application/x-gzip' length 767690 bytes (749 KB)
==================================================
downloaded 749 KB
Quitting from bgeecall-manual.Rmd:150-154 [unnamed-chunk-7]
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<error/rlang_error>
Error in `run_tximport()`:
! can not generate presence/absence calls.
Abundance file is missing : /tmp/RtmpzpZ03y/Rinst3681668544ef3/BgeeCall/extdata/intergenic_2.1/all_results/SRX099901_subset/abundance.tsv.
---
Backtrace:
▆
1. └─BgeeCall::generate_presence_absence(myUserMetadata = user_BgeeCall)
2. └─BgeeCall::run_tximport(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'bgeecall-manual.Rmd' failed with diagnostics:
can not generate presence/absence calls.
Abundance file is missing : /tmp/RtmpzpZ03y/Rinst3681668544ef3/BgeeCall/extdata/intergenic_2.1/all_results/SRX099901_subset/abundance.tsv.
--- failed re-building ‘bgeecall-manual.Rmd’
SUMMARY: processing the following file failed:
‘bgeecall-manual.Rmd’
Error: Vignette re-building failed.
Execution halted