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### Running command:
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###   /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD build --keep-empty-dirs --no-resave-data RMassBank
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* 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 [2024-05-09 03:05:43] Loaded compoundlist successfully
INFO [2024-05-09 03:05:43] msmsWorkflow: Step 1. Acquire all MSMS spectra from files

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  |================================================================| 100%INFO [2024-05-09 03:05:52] msmsWorkflow: Step 2. First analysis pre recalibration

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INFO [2024-05-09 03:06:23] msmsWorkflow: Step 3. Aggregate all spectra
INFO [2024-05-09 03:06:23] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
INFO [2024-05-09 03:06:24] msmsWorkflow: Done.
INFO [2024-05-09 03:08:06] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
INFO [2024-05-09 03:08:15] msmsWorkflow: Done.
INFO [2024-05-09 03:08:15] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
INFO [2024-05-09 03:08:16] msmsWorkflow: Done.
INFO [2024-05-09 03:08:17] msmsWorkflow: Step 5. Reanalyze recalibrated spectra

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INFO [2024-05-09 03:08:47] msmsWorkflow: Step 6. Aggregate recalibrated results
INFO [2024-05-09 03:08:47] msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O

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INFO [2024-05-09 03:11:23] msmsWorkflow: Step 8. Peak multiplicity filtering
INFO [2024-05-09 03:11:25] msmsWorkflow: Done.
INFO [2024-05-09 03:11:25] 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 [2024-05-09 03:13:45] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
INFO [2024-05-09 03:13:52] msmsWorkflow: Done.
INFO [2024-05-09 03:13:57] Loaded compoundlist successfully
INFO [2024-05-09 03:13:58] msmsWorkflow: Step 1. Acquire all MSMS spectra from files

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  |================================================================| 100%INFO [2024-05-09 03:14:06] msmsWorkflow: Done.
INFO [2024-05-09 03:14:06] msmsWorkflow: Step 2. First analysis pre recalibration

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INFO [2024-05-09 03:14:09] msmsWorkflow: Step 3. Aggregate all spectra
INFO [2024-05-09 03:14:09] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
INFO [2024-05-09 03:14:10] msmsWorkflow: Step 5. Reanalyze recalibrated spectra

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INFO [2024-05-09 03:14:13] msmsWorkflow: Step 6. Aggregate recalibrated results
INFO [2024-05-09 03:14:13] msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O

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INFO [2024-05-09 03:14:30] msmsWorkflow: Done.
INFO [2024-05-09 03:14:31] msmsWorkflow: Step 1. Acquire all MSMS spectra from files

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  |================================================================| 100%INFO [2024-05-09 03:14:42] msmsWorkflow: Done.
INFO [2024-05-09 03:14:42] msmsWorkflow: Step 2. First analysis pre recalibration

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INFO [2024-05-09 03:14:44] msmsWorkflow: Step 3. Aggregate all spectra
INFO [2024-05-09 03:14:44] msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
INFO [2024-05-09 03:14:45] msmsWorkflow: Step 5. Reanalyze recalibrated spectra

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  |================================================================| 100%
INFO [2024-05-09 03:14:48] msmsWorkflow: Step 6. Aggregate recalibrated results
INFO [2024-05-09 03:14:48] msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O

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INFO [2024-05-09 03:15:04] msmsWorkflow: Done.
INFO [2024-05-09 03:15:05] msmsWorkflow: Step 8. Peak multiplicity filtering
INFO [2024-05-09 03:15:06] msmsWorkflow: Done.
--- finished re-building ‘RMassBankNonstandard.Rmd’

SUMMARY: processing the following file failed:
  ‘RMassBank.Rmd’

Error: Vignette re-building failed.
Execution halted