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This page was generated on 2025-03-20 12:12 -0400 (Thu, 20 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4756
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4487
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4514
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4441
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4406
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 1239/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MetMashR 1.0.0  (landing page)
Gavin Rhys Lloyd
Snapshot Date: 2025-03-17 13:00 -0400 (Mon, 17 Mar 2025)
git_url: https://git.bioconductor.org/packages/MetMashR
git_branch: RELEASE_3_20
git_last_commit: 5ccb773
git_last_commit_date: 2024-10-29 11:34:47 -0400 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson1macOS 13.6.6 Ventura / arm64  OK    ERROR  skippedskipped
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

BUILD results for MetMashR on taishan

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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: MetMashR
Version: 1.0.0
Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data MetMashR
StartedAt: 2025-03-18 02:12:38 -0000 (Tue, 18 Mar 2025)
EndedAt: 2025-03-18 02:19:17 -0000 (Tue, 18 Mar 2025)
EllapsedTime: 399.2 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R 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