Multiple platform build/check report for BioC 3.20 - BUILD results for mitch on lconway

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup"	4693
palomino6	Windows Server 2022 Datacenter	x64	4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"	4089
lconway	macOS 12.7.1 Monterey	x86_64	4.4.1 RC (2024-06-06 r86719) -- "Race for Your Life"	4407
kjohnson3	macOS 13.6.5 Ventura	arm64	4.4.1 RC (2024-06-06 r86719) -- "Race for Your Life"	4356
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 mitch on lconway

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

Version: 1.17.1

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

StartedAt: 2024-06-27 17:14:51 -0400 (Thu, 27 Jun 2024)

EndedAt: 2024-06-27 17:16:54 -0400 (Thu, 27 Jun 2024)

EllapsedTime: 122.5 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 mitch
###
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* checking for file ‘mitch/DESCRIPTION’ ... OK
* preparing ‘mitch’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘infiniumMethArrayWorkflow.Rmd’ using rmarkdown
trying URL 'ftp://ftp.ebi.ac.uk/pub/databases/genenames/new/tsv/hgnc_complete_set.txt'

Quitting from lines 89-95 [genenames] (infiniumMethArrayWorkflow.Rmd)
Error: processing vignette 'infiniumMethArrayWorkflow.Rmd' failed with diagnostics:
cannot open URL 'ftp://ftp.ebi.ac.uk/pub/databases/genenames/new/tsv/hgnc_complete_set.txt'
--- failed re-building ‘infiniumMethArrayWorkflow.Rmd’

--- re-building ‘mitchWorkflow.Rmd’ using rmarkdown
trying URL 'https://reactome.org/download/current/ReactomePathways.gmt.zip'
Content type 'application/zip' length 274586 bytes (268 KB)
==================================================
downloaded 268 KB

2024-06-27 17:16:43.332 R[59571:198540806] XType: com.apple.fonts is not accessible.
2024-06-27 17:16:43.333 R[59571:198540806] XType: XTFontStaticRegistry is enabled.
Warning: The vignette title specified in \VignetteIndexEntry{} is different from the title in the YAML metadata. The former is "mitch Workflow", and the latter is "mitch". If that is intentional, you may set options(rmarkdown.html_vignette.check_title = FALSE) to suppress this check.
--- finished re-building ‘mitchWorkflow.Rmd’

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

Error: Vignette re-building failed.
Execution halted