| Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-06-25 17:42 -0400 (Tue, 25 Jun 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4760 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4494 |
| merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4508 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4466 |
| 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 1784/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| RMassBank 3.14.0 (landing page) RMassBank at Eawag
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
| merida1 | macOS 12.7.4 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | ERROR | ERROR | skipped | skipped | |||||||||
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To the developers/maintainers of the RMassBank package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RMassBank.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: RMassBank |
| Version: 3.14.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data RMassBank |
| StartedAt: 2024-06-23 22:17:09 -0400 (Sun, 23 Jun 2024) |
| EndedAt: 2024-06-23 22:37:26 -0400 (Sun, 23 Jun 2024) |
| EllapsedTime: 1217.2 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 RMassBank ### ############################################################################## ############################################################################## * checking for file ‘RMassBank/DESCRIPTION’ ... OK * preparing ‘RMassBank’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘RMassBank.Rmd’ using rmarkdown INFO [2024-06-23 22:19:41] Loaded compoundlist successfully INFO [2024-06-23 22:19:41] msmsWorkflow: Step 1. Acquire all MSMS spectra from files | | | 0% | |================================ | 50% | |================================================================| 100%INFO [2024-06-23 22:19:54] msmsWorkflow: Step 2. First analysis pre recalibration | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-06-23 22:20:51] msmsWorkflow: Step 3. Aggregate all spectra INFO [2024-06-23 22:20:51] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra 2024-06-23 22:20:52.292 R[61520:1037532207] XType: com.apple.fonts is not accessible. 2024-06-23 22:20:52.292 R[61520:1037532207] XType: XTFontStaticRegistry is enabled. INFO [2024-06-23 22:20:53] msmsWorkflow: Done. INFO [2024-06-23 22:23:58] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-06-23 22:24:15] msmsWorkflow: Done. INFO [2024-06-23 22:24:15] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-06-23 22:24:16] msmsWorkflow: Done. INFO [2024-06-23 22:24:17] msmsWorkflow: Step 5. Reanalyze recalibrated spectra | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-06-23 22:25:13] msmsWorkflow: Step 6. Aggregate recalibrated results INFO [2024-06-23 22:25:14] msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-06-23 22:30:08] msmsWorkflow: Step 8. Peak multiplicity filtering INFO [2024-06-23 22:30:11] msmsWorkflow: Done. INFO [2024-06-23 22:30:11] mbWorkflow: Step 1. Gather info from several databases Quitting from lines 433-434 [unnamed-chunk-22] (RMassBank.Rmd) Error: processing vignette 'RMassBank.Rmd' failed with diagnostics: non-character argument --- failed re-building ‘RMassBank.Rmd’ --- re-building ‘RMassBankNonstandard.Rmd’ using rmarkdown INFO [2024-06-23 22:34:20] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-06-23 22:34:35] msmsWorkflow: Done. INFO [2024-06-23 22:34:47] Loaded compoundlist successfully INFO [2024-06-23 22:34:47] msmsWorkflow: Step 1. Acquire all MSMS spectra from files | | | 0% | |================================ | 50% | |================================================================| 100%INFO [2024-06-23 22:35:03] msmsWorkflow: Done. INFO [2024-06-23 22:35:03] msmsWorkflow: Step 2. First analysis pre recalibration | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-06-23 22:35:10] msmsWorkflow: Step 3. Aggregate all spectra INFO [2024-06-23 22:35:10] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-06-23 22:35:12] msmsWorkflow: Step 5. Reanalyze recalibrated spectra | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-06-23 22:35:18] msmsWorkflow: Step 6. Aggregate recalibrated results INFO [2024-06-23 22:35:18] msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-06-23 22:35:53] msmsWorkflow: Done. INFO [2024-06-23 22:35:55] msmsWorkflow: Step 1. Acquire all MSMS spectra from files | | | 0% | |================================ | 50% | |================================================================| 100%INFO [2024-06-23 22:36:14] msmsWorkflow: Done. INFO [2024-06-23 22:36:14] msmsWorkflow: Step 2. First analysis pre recalibration | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-06-23 22:36:18] msmsWorkflow: Step 3. Aggregate all spectra INFO [2024-06-23 22:36:18] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-06-23 22:36:20] msmsWorkflow: Step 5. Reanalyze recalibrated spectra | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-06-23 22:36:26] msmsWorkflow: Step 6. Aggregate recalibrated results INFO [2024-06-23 22:36:26] msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-06-23 22:37:04] msmsWorkflow: Done. INFO [2024-06-23 22:37:07] msmsWorkflow: Step 8. Peak multiplicity filtering INFO [2024-06-23 22:37:08] msmsWorkflow: Done. --- finished re-building ‘RMassBankNonstandard.Rmd’ SUMMARY: processing the following file failed: ‘RMassBank.Rmd’ Error: Vignette re-building failed. Execution halted