| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-10-03 12:04 -0400 (Fri, 03 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4845 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4632 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4577 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4576 |
| 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 | ||||
| Package 145/2337 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| BatchQC 2.5.12 (landing page) Jessica Anderson
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the BatchQC package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BatchQC.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. |
| Package: BatchQC |
| Version: 2.5.12 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BatchQC |
| StartedAt: 2025-10-02 16:05:08 -0400 (Thu, 02 Oct 2025) |
| EndedAt: 2025-10-02 16:06:30 -0400 (Thu, 02 Oct 2025) |
| EllapsedTime: 82.3 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BatchQC
###
##############################################################################
##############################################################################
* checking for file ‘BatchQC/DESCRIPTION’ ... OK
* preparing ‘BatchQC’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘BatchQC_Intro.Rmd’ using rmarkdown
2025-10-02 16:06:15.895 R[87197:437462167] XType: com.apple.fonts is not accessible.
2025-10-02 16:06:15.896 R[87197:437462167] XType: XTFontStaticRegistry is enabled.
Quitting from BatchQC_Intro.Rmd:470-475 [umap]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! error in evaluating the argument 'i' in selecting a method for function '[[': argument "covar" is missing, with no default
---
Backtrace:
▆
1. ├─BatchQC::umap(...)
2. │ ├─base::data.frame(...)
3. │ └─colData(se_object)[[covar]]
4. └─base (local) `<fn>`(`<evalErrr>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'BatchQC_Intro.Rmd' failed with diagnostics:
error in evaluating the argument 'i' in selecting a method for function '[[': argument "covar" is missing, with no default
--- failed re-building ‘BatchQC_Intro.Rmd’
--- re-building ‘BatchQC_examples.Rmd’ using rmarkdown
--- finished re-building ‘BatchQC_examples.Rmd’
SUMMARY: processing the following file failed:
‘BatchQC_Intro.Rmd’
Error: Vignette re-building failed.
Execution halted