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This page was generated on 2024-05-13 11:32:12 -0400 (Mon, 13 May 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4378 |
| 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 1724/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| RMassBank 3.15.1 (landing page) RMassBank at Eawag
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | ERROR | skipped | skipped | ||||||||
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To the developers/maintainers of the RMassBank package: - 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: 3.15.1 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data RMassBank |
| StartedAt: 2024-05-12 00:56:14 -0400 (Sun, 12 May 2024) |
| EndedAt: 2024-05-12 01:03:48 -0400 (Sun, 12 May 2024) |
| EllapsedTime: 453.8 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 [2024-05-12 00:57:33] Loaded compoundlist successfully INFO [2024-05-12 00:57:34] msmsWorkflow: Step 1. Acquire all MSMS spectra from files | | | 0% | |================================ | 50% | |================================================================| 100%INFO [2024-05-12 00:57:40] msmsWorkflow: Step 2. First analysis pre recalibration | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-05-12 00:58:01] msmsWorkflow: Step 3. Aggregate all spectra INFO [2024-05-12 00:58:01] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra 2024-05-12 00:58:01.528 R[45564:50625169] XType: Using static font registry. INFO [2024-05-12 00:58:02] msmsWorkflow: Done. INFO [2024-05-12 00:59:07] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-05-12 00:59:13] msmsWorkflow: Done. INFO [2024-05-12 00:59:13] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-05-12 00:59:13] msmsWorkflow: Done. INFO [2024-05-12 00:59:14] msmsWorkflow: Step 5. Reanalyze recalibrated spectra | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-05-12 00:59:34] msmsWorkflow: Step 6. Aggregate recalibrated results INFO [2024-05-12 00:59:34] msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-05-12 01:01:18] msmsWorkflow: Step 8. Peak multiplicity filtering INFO [2024-05-12 01:01:19] msmsWorkflow: Done. INFO [2024-05-12 01:01:20] mbWorkflow: Step 1. Gather info from several databases Quitting from lines at lines 433-434 [unnamed-chunk-22] (RMassBank.Rmd) Error: processing vignette 'RMassBank.Rmd' failed with diagnostics: not all data was parsed (0 chars were parsed out of a total of 573 chars) --- failed re-building ‘RMassBank.Rmd’ --- re-building ‘RMassBankNonstandard.Rmd’ using rmarkdown INFO [2024-05-12 01:02:52] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-05-12 01:02:56] msmsWorkflow: Done. INFO [2024-05-12 01:02:59] Loaded compoundlist successfully INFO [2024-05-12 01:02:59] msmsWorkflow: Step 1. Acquire all MSMS spectra from files | | | 0% | |================================ | 50% | |================================================================| 100%INFO [2024-05-12 01:03:06] msmsWorkflow: Done. INFO [2024-05-12 01:03:06] msmsWorkflow: Step 2. First analysis pre recalibration | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-05-12 01:03:08] msmsWorkflow: Step 3. Aggregate all spectra INFO [2024-05-12 01:03:08] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-05-12 01:03:09] msmsWorkflow: Step 5. Reanalyze recalibrated spectra | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-05-12 01:03:11] msmsWorkflow: Step 6. Aggregate recalibrated results INFO [2024-05-12 01:03:11] msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-05-12 01:03:22] msmsWorkflow: Done. INFO [2024-05-12 01:03:22] msmsWorkflow: Step 1. Acquire all MSMS spectra from files | | | 0% | |================================ | 50% | |================================================================| 100%INFO [2024-05-12 01:03:30] msmsWorkflow: Done. INFO [2024-05-12 01:03:30] msmsWorkflow: Step 2. First analysis pre recalibration | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-05-12 01:03:31] msmsWorkflow: Step 3. Aggregate all spectra INFO [2024-05-12 01:03:31] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra INFO [2024-05-12 01:03:32] msmsWorkflow: Step 5. Reanalyze recalibrated spectra | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-05-12 01:03:34] msmsWorkflow: Step 6. Aggregate recalibrated results INFO [2024-05-12 01:03:34] msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O | | | 0% | |================================ | 50% | |================================================================| 100% INFO [2024-05-12 01:03:44] msmsWorkflow: Done. INFO [2024-05-12 01:03:45] msmsWorkflow: Step 8. Peak multiplicity filtering INFO [2024-05-12 01:03:45] msmsWorkflow: Done. --- finished re-building ‘RMassBankNonstandard.Rmd’ SUMMARY: processing the following file failed: ‘RMassBank.Rmd’ Error: Vignette re-building failed. Execution halted