Thomas N. Lawson
| Snapshot Date: 2025-11-21 13:40 -0500 (Fri, 21 Nov 2025) |
| git_url: https://git.bioconductor.org/packages/msPurity |
| git_branch: devel |
| git_last_commit: dc13d89 |
| git_last_commit_date: 2025-10-29 10:32:24 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-11-22 11:38 -0500 (Sat, 22 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" | 4829 |
| lconway | macOS 12.7.6 Monterey | x86_64 | R Under development (unstable) (2025-10-21 r88958) -- "Unsuffered Consequences" | 4603 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4567 |
| 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 1376/2327 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| msPurity 1.37.0 (landing page) Thomas N. Lawson
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.6 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | ERROR | OK | |||||||||
|
To the developers/maintainers of the msPurity package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/msPurity.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: msPurity |
| Version: 1.37.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data msPurity |
| StartedAt: 2025-11-21 17:53:25 -0500 (Fri, 21 Nov 2025) |
| EndedAt: 2025-11-21 18:01:54 -0500 (Fri, 21 Nov 2025) |
| EllapsedTime: 509.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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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 msPurity
###
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* checking for file ‘msPurity/DESCRIPTION’ ... OK
* preparing ‘msPurity’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘msPurity-lcmsms-data-processing-and-spectral-matching-vignette.Rmd’ using rmarkdown
Sizes of mz and intensity arrays don't match.
Quitting from msPurity-lcmsms-data-processing-and-spectral-matching-vignette.Rmd:91-94 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `object@backend$getPeakList()`:
! dims [product 0] do not match the length of object [2160]
---
Backtrace:
▆
1. ├─msPurity::frag4feature(pa = pa, xcmsObj = xcmsObj)
2. └─msPurity::frag4feature(pa = pa, xcmsObj = xcmsObj)
3. └─msPurity:::getMS2scans(grpm, pa@fileList, mzRback = pa@mzRback)
4. └─msPurity:::getscans(filepths, mzRback)
5. └─plyr::alply(...)
6. └─plyr::llply(...)
7. ├─plyr:::loop_apply(n, do.ply)
8. └─plyr (local) `<fn>`(4L)
9. └─msPurity (local) .fun(piece, ...)
10. ├─mzR::peaks(mr)
11. └─mzR::peaks(mr)
12. └─mzR (local) .local(object, ...)
13. └─mzR:::.peaks(object, scans)
14. └─object@backend$getPeakList(scans)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'msPurity-lcmsms-data-processing-and-spectral-matching-vignette.Rmd' failed with diagnostics:
dims [product 0] do not match the length of object [2160]
--- failed re-building ‘msPurity-lcmsms-data-processing-and-spectral-matching-vignette.Rmd’
--- re-building ‘msPurity-spectral-database-vignette.Rmd’ using rmarkdown
--- finished re-building ‘msPurity-spectral-database-vignette.Rmd’
--- re-building ‘msPurity-vignette.Rmd’ using rmarkdown
--- finished re-building ‘msPurity-vignette.Rmd’
SUMMARY: processing the following file failed:
‘msPurity-lcmsms-data-processing-and-spectral-matching-vignette.Rmd’
Error: Vignette re-building failed.
Execution halted