Multiple platform build/check report for BioC 3.21 - BUILD results for scQTLtools on lconway

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences"	4777
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4545
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4576
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4528
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4458
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 scQTLtools on lconway

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

Version: 0.99.11

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

StartedAt: 2025-03-20 18:33:53 -0400 (Thu, 20 Mar 2025)

EndedAt: 2025-03-20 18:36:10 -0400 (Thu, 20 Mar 2025)

EllapsedTime: 137.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data scQTLtools
###
##############################################################################
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* checking for file ‘scQTLtools/DESCRIPTION’ ... OK
* preparing ‘scQTLtools’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘scQTLtools.Rmd’ using rmarkdown

Quitting from scQTLtools.Rmd:331-343 [callQTL3_matrix]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.chooseEnsemblMirror()`:
! Unable to query any Ensembl site
---
Backtrace:
    ▆
 1. └─scQTLtools::callQTL(...)
 2.   └─scQTLtools:::match_gene_snp(...)
 3.     └─scQTLtools::createGeneLoc(geneList, gene_mart, geneDataset, OrgDb)
 4.       └─biomaRt::useEnsembl(biomart = "genes", dataset = geneDataset)
 5.         └─biomaRt:::.chooseEnsemblMirror(mirror = mirror, http_config = http_config)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'scQTLtools.Rmd' failed with diagnostics:
Unable to query any Ensembl site
--- failed re-building ‘scQTLtools.Rmd’

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

Error: Vignette re-building failed.
Execution halted