Multiple platform build/check report for BioC 3.21 - BUILD results for MAST on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4708
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences"	4495
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences"	4506
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences"	4460
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4349
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 MAST on kjohnson3

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

Version: 1.33.0

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

StartedAt: 2025-02-28 16:49:06 -0500 (Fri, 28 Feb 2025)

EndedAt: 2025-02-28 16:50:43 -0500 (Fri, 28 Feb 2025)

EllapsedTime: 97.1 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 MAST
###
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* checking for file ‘MAST/DESCRIPTION’ ... OK
* preparing ‘MAST’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MAITAnalysis.Rmd’ using rmarkdown
Warning: code chunks must not depend on the uncached chunk "data"
2025-02-28 16:49:29.650 R[45779:620772152] XType: Using static font registry.
Warning: code chunks must not depend on the uncached chunk "zlm"
Warning: code chunks must not depend on the uncached chunk "boots"
--- finished re-building ‘MAITAnalysis.Rmd’

--- re-building ‘MAST-Intro.Rmd’ using rmarkdown

Quitting from lines 218-223 [tests] (MAST-Intro.Rmd)
Error: processing vignette 'MAST-Intro.Rmd' failed with diagnostics:
The melt generic in data.table has been passed a matrix and will attempt to redirect to the relevant reshape2 method; please note that reshape2 is superseded and is no longer actively developed, and this redirection is now deprecated. To continue using melt methods from reshape2 while both packages are attached, e.g. melt.list, you can prepend the namespace, i.e. reshape2::melt(zlm.lr[, , "Pr(>Chisq)"]). In the next version, this warning will become an error.
--- failed re-building ‘MAST-Intro.Rmd’

--- re-building ‘MAST-interoperability.Rmd’ using rmarkdown
--- finished re-building ‘MAST-interoperability.Rmd’

SUMMARY: processing the following file failed:
  ‘MAST-Intro.Rmd’

Error: Vignette re-building failed.
Execution halted