Multiple platform build/check report for BioC 3.21 - BUILD results for PCAtools on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
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"	4459
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 PCAtools on palomino7

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

Version: 2.19.0

Command: chmod a+r PCAtools -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data PCAtools

StartedAt: 2025-03-16 20:37:10 -0400 (Sun, 16 Mar 2025)

EndedAt: 2025-03-16 20:41:34 -0400 (Sun, 16 Mar 2025)

EllapsedTime: 264.4 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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###
### Running command:
###
###   chmod a+r PCAtools -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data PCAtools
###
##############################################################################
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* checking for file 'PCAtools/DESCRIPTION' ... OK
* preparing 'PCAtools':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'PCAtools.Rmd' using rmarkdown
Warning: ggrepel: 18 unlabeled data points (too many overlaps). Consider increasing max.overlaps
Warning: ggrepel: 23 unlabeled data points (too many overlaps). Consider increasing max.overlaps

Quitting from PCAtools.Rmd:406-426 [ex9]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `loadNamespace()`:
! there is no package called 'proj4'
---
Backtrace:
    ▆
 1. ├─PCAtools::biplot(...)
 2. └─base::loadNamespace(x)
 3.   ├─base::namespaceImport(...)
 4.   └─base::loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]])
 5.     └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
 6.       └─base (local) withOneRestart(expr, restarts[[1L]])
 7.         └─base (local) doWithOneRestart(return(expr), restart)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'PCAtools.Rmd' failed with diagnostics:
there is no package called 'proj4'
--- failed re-building 'PCAtools.Rmd'

SUMMARY: processing the following file failed:
  'PCAtools.Rmd'

Error: Vignette re-building failed.
Execution halted