Multiple platform build/check report for BioC 3.22 - BUILD results for BgeeCall on taishan

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"	4883
merida1	macOS 12.7.6 Monterey	x86_64	4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"	4673
kjohnson1	macOS 13.7.5 Ventura	arm64	4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"	4607
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4671
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 BgeeCall on taishan

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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results

Summary

Package: BgeeCall

Version: 1.26.0

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

StartedAt: 2025-12-18 23:56:01 -0000 (Thu, 18 Dec 2025)

EndedAt: 2025-12-18 23:58:42 -0000 (Thu, 18 Dec 2025)

EllapsedTime: 161.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
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###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data BgeeCall
###
##############################################################################
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* checking for file ‘BgeeCall/DESCRIPTION’ ... OK
* preparing ‘BgeeCall’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘bgeecall-manual.Rmd’ using rmarkdown
trying URL 'https://www.bgee.org/ftp/intergenic/1.0/ref_intergenic/6239_intergenic.fa.gz'
Content type 'application/x-gzip' length 4054193 bytes (3.9 MB)
==================================================
downloaded 3.9 MB


Quitting from bgeecall-manual.Rmd:286-288 [unnamed-chunk-18]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `open.connection()`:
! cannot open the connection to 'https://zenodo.org/api/records/?communities=bgee_intergenic'
---
Backtrace:
    ▆
 1. └─BgeeCall::list_community_ref_intergenic_species()
 2.   └─jsonlite::fromJSON(txt = "https://zenodo.org/api/records/?communities=bgee_intergenic")
 3.     └─jsonlite:::parse_and_simplify(...)
 4.       └─jsonlite:::parseJSON(txt, bigint_as_char)
 5.         └─jsonlite:::parse_con(txt, bigint_as_char)
 6.           ├─base::open(con, "rb")
 7.           └─base::open.connection(con, "rb")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'bgeecall-manual.Rmd' failed with diagnostics:
cannot open the connection to 'https://zenodo.org/api/records/?communities=bgee_intergenic'
--- failed re-building ‘bgeecall-manual.Rmd’

SUMMARY: processing the following file failed:
  ‘bgeecall-manual.Rmd’

Error: Vignette re-building failed.
Execution halted