| Back to Multiple platform build/check report for BioC 3.23: simplified long |
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This page was generated on 2025-12-08 11:35 -0500 (Mon, 08 Dec 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" | 4869 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 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 1267/2331 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| MetMashR 1.5.0 (landing page) Gavin Rhys Lloyd
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
|
To the developers/maintainers of the MetMashR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MetMashR.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: MetMashR |
| Version: 1.5.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data MetMashR |
| StartedAt: 2025-12-07 18:37:32 -0500 (Sun, 07 Dec 2025) |
| EndedAt: 2025-12-07 18:41:43 -0500 (Sun, 07 Dec 2025) |
| EllapsedTime: 251.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data MetMashR
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* checking for file ‘MetMashR/DESCRIPTION’ ... OK
* preparing ‘MetMashR’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘Extending_MetMashR.Rmd’ using rmarkdown
--- finished re-building ‘Extending_MetMashR.Rmd’
--- re-building ‘annotate_mixtures.Rmd’ using rmarkdown
--- finished re-building ‘annotate_mixtures.Rmd’
--- re-building ‘exploring_mtox.Rmd’ using rmarkdown
--- finished re-building ‘exploring_mtox.Rmd’
--- re-building ‘using_MetMashR.Rmd’ using rmarkdown
Quitting from using_MetMashR.Rmd:394-433 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.submit_api_query()`:
! 'getURL()' failed:
URL: https://www.lipidmaps.org/rest/compound/abbrev/AcCa%2814%3A0%29/inchi_key/json
error: Service Unavailable (HTTP 503).
---
Backtrace:
▆
1. ├─struct::model_apply(WF, AT)
2. └─MetMashR::model_apply(WF, AT)
3. └─MetMashR (local) .local(M, D, ...)
4. ├─struct::model_apply(M[i], D)
5. └─MetMashR::model_apply(M[i], D)
6. └─MetMashR (local) .local(M, D, ...)
7. └─MetMashR:::.submit_api_query(URL = u, FUN = .submit_fun, params = param_list(M))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'using_MetMashR.Rmd' failed with diagnostics:
'getURL()' failed:
URL: https://www.lipidmaps.org/rest/compound/abbrev/AcCa%2814%3A0%29/inchi_key/json
error: Service Unavailable (HTTP 503).
--- failed re-building ‘using_MetMashR.Rmd’
SUMMARY: processing the following file failed:
‘using_MetMashR.Rmd’
Error: Vignette re-building failed.
Execution halted