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INSTALL report for proFIA on tokay2

This page was generated on 2020-10-17 11:57:28 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE proFIA PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1356/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
proFIA 1.14.0
Alexis Delabriere
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/proFIA
Branch: RELEASE_3_11
Last Commit: d101d9f
Last Changed Date: 2020-04-27 15:03:25 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: proFIA
Version: 1.14.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/proFIA_1.14.0.tar.gz && rm -rf proFIA.buildbin-libdir && mkdir proFIA.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=proFIA.buildbin-libdir proFIA_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL proFIA_1.14.0.zip && rm proFIA_1.14.0.tar.gz proFIA_1.14.0.zip
StartedAt: 2020-10-16 18:55:35 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 18:56:55 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 80.1 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/proFIA_1.14.0.tar.gz && rm -rf proFIA.buildbin-libdir && mkdir proFIA.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=proFIA.buildbin-libdir proFIA_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL proFIA_1.14.0.zip && rm proFIA_1.14.0.tar.gz proFIA_1.14.0.zip
###
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install for i386

* installing *source* package 'proFIA' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c FIABandsExtractionCentroid.c -o FIABandsExtractionCentroid.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c UtilFunc.c -o UtilFunc.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fastMatchPpm.c -o fastMatchPpm.o
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o proFIA.dll tmp.def FIABandsExtractionCentroid.o UtilFunc.o fastMatchPpm.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/proFIA.buildbin-libdir/00LOCK-proFIA/00new/proFIA/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'proFIA'
    finding HTML links ... done
    acquisitionDirectory                    html  
    analyzeAcquisitionFIA                   html  
    determiningInjectionZone                html  
    determiningSizePeak.Geom                html  
    estimateNoiseMS                         html  
    exportDataMatrix-proFIAset-method       html  
    exportExpressionSet-proFIAset-method    html  
    exportPeakTable-proFIAset-method        html  
    exportSampleMetadata-proFIAset-method   html  
    exportVariableMetadata-proFIAset-method
                                            html  
    findBandsFIA                            html  
    findFIASignal                           html  
    findMzGroup-proFIAset-method            html  
    getInjectionPeak                        html  
    group.FIA-proFIAset-method              html  
    impute.FIA-proFIAset-method             html  
    impute.KNN_TN-proFIAset-method          html  
    impute.randomForest-proFIAset-method    html  
    makeDataMatrix-proFIAset-method         html  
    noiseEstimation-class                   html  
    peaksGroup-proFIAset-method             html  
    plot                                    html  
    plotFlowgrams-proFIAset-method          html  
    plotNoise                               html  
    plotRaw-proFIAset-method                html  
    plotSamplePeaks-proFIAset-method        html  
    proFIA-package                          html  
    proFIAset-class                         html  
    proFIAset                               html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'proFIA' ...
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c FIABandsExtractionCentroid.c -o FIABandsExtractionCentroid.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c UtilFunc.c -o UtilFunc.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fastMatchPpm.c -o fastMatchPpm.o
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o proFIA.dll tmp.def FIABandsExtractionCentroid.o UtilFunc.o fastMatchPpm.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/proFIA.buildbin-libdir/proFIA/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'proFIA' as proFIA_1.14.0.zip
* DONE (proFIA)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'proFIA' successfully unpacked and MD5 sums checked