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BioC 3.1: BUILD report for RMassBank on moscato2

This page was generated on 2015-10-09 09:29:53 -0700 (Fri, 09 Oct 2015).

Package 828/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RMassBank 1.10.0
RMassBank at Eawag
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/RMassBank
Last Changed Rev: 102591 / Revision: 109384
Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  ERROR  skipped 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded [ ERROR ] skipped  skipped 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  ERROR  skipped  skipped 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  ERROR  skipped  skipped 

Summary

Package: RMassBank
Version: 1.10.0
Command: chmod a+r RMassBank -R && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data RMassBank
StartedAt: 2015-10-08 21:04:08 -0700 (Thu, 08 Oct 2015)
EndedAt: 2015-10-08 21:07:44 -0700 (Thu, 08 Oct 2015)
EllapsedTime: 216.1 seconds
RetCode: 1
Status:  ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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###
### Running command:
###
###   chmod a+r RMassBank -R && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe 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 ...Warning: running command '"E:/biocbld/bbs-3.1-bioc/R/bin/x64/Rscript" --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)"' had status 1
 ERROR
Loading required package: Rcpp
msmsWorkflow: Step 1. Acquire all MSMS spectra from files

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  |================================================================| 100%msmsWorkflow: Step 2. First analysis pre recalibration

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msmsWorkflow: Step 3. Aggregate all spectra
msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
Loading required package: gplots

Attaching package: 'gplots'

The following object is masked from 'package:stats':

    lowess

msmsWorkflow: Done.
msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
msmsWorkflow: Done.
msmsWorkflow: Step 4. Recalibrate m/z values in raw spectra
msmsWorkflow: Done.
msmsWorkflow: Step 5. Reanalyze recalibrated spectra

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msmsWorkflow: Step 6. Aggregate recalibrated results
msmsWorkflow: Step 7. Reanalyze fail peaks for N2 + O

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msmsWorkflow: Step 8. Peak multiplicity filtering
msmsWorkflow: Done.
mbWorkflow: Step 1. Gather info from several databases

Error: processing vignette 'RMassBank.Rnw' failed with diagnostics:
 chunk 22 
Error in fromJSON(data) : unexpected character '<'

Execution halted