Multiple platform build/check report for BioC 3.20 - BUILD results for AnnotationForge on taishan

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4744
palomino8	Windows Server 2022 Datacenter	x64	4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"	4487
merida1	macOS 12.7.5 Monterey	x86_64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4515
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4467
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4358
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 AnnotationForge on taishan

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

Version: 1.48.0

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

StartedAt: 2025-01-08 21:11:08 -0000 (Wed, 08 Jan 2025)

EndedAt: 2025-01-08 21:12:09 -0000 (Wed, 08 Jan 2025)

EllapsedTime: 61.1 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 AnnotationForge
###
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* checking for file ‘AnnotationForge/DESCRIPTION’ ... OK
* preparing ‘AnnotationForge’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘makeProbePackage.Rmd’ using rmarkdown
Error: processing vignette 'makeProbePackage.Rmd' failed with diagnostics:
Pandoc is required to build R Markdown vignettes but not available. Please make sure it is installed.
--- failed re-building ‘makeProbePackage.Rmd’

--- re-building ‘MakingNewAnnotationPackages.Rnw’ using knitr
trying URL 'http://rest.uniprot.org/uniprotkb/search?query=P13368%20OR%20Q6GZX4&format=xml'
Content type 'application/xml' length 45602 bytes (44 KB)
==================================================
downloaded 44 KB

--- finished re-building ‘MakingNewAnnotationPackages.Rnw’

--- re-building ‘MakingNewOrganismPackages.Rmd’ using knitr
--- finished re-building ‘MakingNewOrganismPackages.Rmd’

--- re-building ‘SQLForge.Rnw’ using knitr
Warning: call dbDisconnect() when finished working with a connection
--- finished re-building ‘SQLForge.Rnw’

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

Error: Vignette re-building failed.
Execution halted