| Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-11-12 11:58 -0500 (Wed, 12 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4902 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4668 |
| 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 214/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
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To the developers/maintainers of the biodbUniprot package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbUniprot.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. |
| Package: biodbUniprot |
| Version: 1.16.0 |
| Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data biodbUniprot |
| StartedAt: 2025-11-11 00:01:51 -0000 (Tue, 11 Nov 2025) |
| EndedAt: 2025-11-11 00:02:06 -0000 (Tue, 11 Nov 2025) |
| EllapsedTime: 15.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data biodbUniprot ### ############################################################################## ############################################################################## * checking for file ‘biodbUniprot/DESCRIPTION’ ... OK * preparing ‘biodbUniprot’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘biodbUniprot.Rmd’ using rmarkdown INFO [00:02:03.563] Loading definitions from package biodb version 1.18.0. INFO [00:02:05.362] Loading definitions from package biodbChebi version 1.16.0. INFO [00:02:05.407] Loading definitions from package biodbHmdb version 1.16.0. INFO [00:02:05.455] Loading definitions from package biodbNcbi version 1.14.0. INFO [00:02:05.491] Loading definitions from package biodbNci version 1.14.0. INFO [00:02:05.502] Loading definitions from package biodbUniprot version 1.16.0. INFO [00:02:05.671] Load 2 contents, from /home/biocbuild/.cache/R/biodb/uniprot-958d776f924f3e7a3bae586fa731b40c. Quitting from biodbUniprot.Rmd:67-69 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'biodbUniprot.Rmd' failed with diagnostics: `chk::vld_null(encoding) || chk::vld_whole_number(encoding) || ` must be TRUE` chk::vld_string(encoding)` must be TRUE. --- failed re-building ‘biodbUniprot.Rmd’ SUMMARY: processing the following file failed: ‘biodbUniprot.Rmd’ Error: Vignette re-building failed. Execution halted