Multiple platform build/check report for BioC 3.22 - BUILD results for biodbUniprot on merida1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"	4615
merida1	macOS 12.7.6 Monterey	x86_64	4.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble"	4610
kjohnson1	macOS 13.7.5 Ventura	arm64	4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"	4598
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*

BUILD results for biodbUniprot on merida1

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.

raw results

Summary

Package: biodbUniprot

Version: 1.16.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data biodbUniprot

StartedAt: 2025-11-17 20:39:29 -0500 (Mon, 17 Nov 2025)

EndedAt: 2025-11-17 20:39:57 -0500 (Mon, 17 Nov 2025)

EllapsedTime: 28.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data biodbUniprot
###
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* 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  [20:39:51.541] Loading definitions from package biodb version 1.18.0.
INFO  [20:39:56.038] Loading definitions from package biodbChebi version 1.16.0.
INFO  [20:39:56.158] Loading definitions from package biodbHmdb version 1.16.0.
INFO  [20:39:56.269] Loading definitions from package biodbNcbi version 1.14.0.
INFO  [20:39:56.349] Loading definitions from package biodbNci version 1.14.0.
INFO  [20:39:56.373] Loading definitions from package biodbUniprot version 1.16.0.
INFO  [20:39:56.762] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/uniprot-958d776f924f3e7a3bae586fa731b40c".
INFO  [20:39:56.766] Load 2 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/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