Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-08-09 12:07 -0400 (Sat, 09 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4818 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4553 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4595 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4537 |
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 1256/2317 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
MetMashR 1.3.0 (landing page) Gavin Rhys Lloyd
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.7.1 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: 1.3.0 |
Command: chmod a+r MetMashR -R && F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data MetMashR |
StartedAt: 2025-08-08 20:19:49 -0400 (Fri, 08 Aug 2025) |
EndedAt: 2025-08-08 20:25:50 -0400 (Fri, 08 Aug 2025) |
EllapsedTime: 361.0 seconds |
RetCode: 1 |
Status: ERROR |
PackageFile: None |
PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r MetMashR -R && F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data MetMashR ### ############################################################################## ############################################################################## * checking for file 'MetMashR/DESCRIPTION' ... OK * preparing 'MetMashR': * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building 'Extending_MetMashR.Rmd' using rmarkdown Quitting from Extending_MetMashR.Rmd:534-553 [unnamed-chunk-19] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `validObject()`: ! invalid class "openbabel_structure" object: The required package "ChemmineOB" is not installed. --- Backtrace: ▆ 1. └─MetMashR::openbabel_structure(...) 2. └─struct::new_struct(...) 3. ├─BiocGenerics::do.call(new, L) 4. ├─base::do.call(new, L) 5. └─methods (local) `<fn>`(...) 6. ├─methods::initialize(value, ...) 7. └─methods::initialize(value, ...) 8. └─methods::validObject(.Object) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Extending_MetMashR.Rmd' failed with diagnostics: invalid class "openbabel_structure" object: The required package "ChemmineOB" is not installed. --- failed 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 Quitting from exploring_mtox.Rmd:148-170 [unnamed-chunk-7] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `validObject()`: ! invalid class "openbabel_structure" object: The required package "ChemmineOB" is not installed. --- Backtrace: ▆ 1. └─MetMashR::openbabel_structure(...) 2. └─struct::new_struct(...) 3. ├─BiocGenerics::do.call(new, L) 4. ├─base::do.call(new, L) 5. └─methods (local) `<fn>`(...) 6. ├─methods::initialize(value, ...) 7. └─methods::initialize(value, ...) 8. └─methods::validObject(.Object) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'exploring_mtox.Rmd' failed with diagnostics: invalid class "openbabel_structure" object: The required package "ChemmineOB" is not installed. --- failed re-building 'exploring_mtox.Rmd' --- re-building 'using_MetMashR.Rmd' using rmarkdown --- finished re-building 'using_MetMashR.Rmd' SUMMARY: processing the following files failed: 'Extending_MetMashR.Rmd' 'exploring_mtox.Rmd' Error: Vignette re-building failed. Execution halted