Multiple platform build/check report for BioC 3.20 - BUILD results for BSgenomeForge 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"	4764
palomino8	Windows Server 2022 Datacenter	x64	4.4.3 (2025-02-28 ucrt) -- "Trophy Case"	4495
merida1	macOS 12.7.5 Monterey	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4522
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.3 (2025-02-28) -- "Trophy Case"	4449
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.3 (2025-02-28) -- "Trophy Case"	4426
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 BSgenomeForge on taishan

To the developers/maintainers of the BSgenomeForge package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BSgenomeForge.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: BSgenomeForge

Version: 1.6.0

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

StartedAt: 2025-03-31 22:01:22 -0000 (Mon, 31 Mar 2025)

EndedAt: 2025-03-31 22:02:48 -0000 (Mon, 31 Mar 2025)

EllapsedTime: 86.0 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 BSgenomeForge
###
##############################################################################
##############################################################################


* checking for file ‘BSgenomeForge/DESCRIPTION’ ... OK
* preparing ‘BSgenomeForge’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘QuickBSgenomeForge.Rmd’ using rmarkdown
trying URL 'https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/009/729/545/GCA_009729545.1_ASM972954v1/GCA_009729545.1_ASM972954v1_genomic.fna.gz'
Content type 'application/x-gzip' length 649859 bytes (634 KB)
==================================================
downloaded 634 KB

trying URL 'https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/008/369/605/GCA_008369605.1_ASM836960v1/GCA_008369605.1_ASM836960v1_genomic.fna.gz'
Content type 'application/x-gzip' length 1227167 bytes (1.2 MB)
=======================
downloaded 569 KB


Quitting from QuickBSgenomeForge.Rmd:85-90 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `download.file()`:
! download from 'https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/008/369/605/GCA_008369605.1_ASM836960v1/GCA_008369605.1_ASM836960v1_genomic.fna.gz' failed
---
Backtrace:
    ▆
 1. └─BSgenomeForge::forgeBSgenomeDataPkgFromNCBI(...)
 2.   └─BSgenomeForge::downloadGenomicSequencesFromNCBI(assembly_accession)
 3.     └─utils::download.file(file_url, destfile, method, quiet)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'QuickBSgenomeForge.Rmd' failed with diagnostics:
download from 'https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/008/369/605/GCA_008369605.1_ASM836960v1/GCA_008369605.1_ASM836960v1_genomic.fna.gz' failed
--- failed re-building ‘QuickBSgenomeForge.Rmd’

--- re-building ‘AdvancedBSgenomeForge.Rnw’ using Sweave
--- finished re-building ‘AdvancedBSgenomeForge.Rnw’

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

Error: Vignette re-building failed.
Execution halted