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INSTALL report for switchBox on tokay2

This page was generated on 2019-04-09 12:20:58 -0400 (Tue, 09 Apr 2019).

Package 1586/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
switchBox 1.19.0
Bahman Afsari , Luigi Marchionni
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/switchBox
Branch: master
Last Commit: a83aedd
Last Changed Date: 2018-11-16 08:46:25 -0400 (Fri, 16 Nov 2018)
malbec2 Linux (Ubuntu 18.04.2 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
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK 

Summary

Package: switchBox
Version: 1.19.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/switchBox_1.19.0.tar.gz && rm -rf switchBox.buildbin-libdir && mkdir switchBox.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=switchBox.buildbin-libdir switchBox_1.19.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL switchBox_1.19.0.zip && rm switchBox_1.19.0.tar.gz switchBox_1.19.0.zip
StartedAt: 2019-04-08 19:26:41 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 19:27:27 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 46.0 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/switchBox_1.19.0.tar.gz && rm -rf switchBox.buildbin-libdir && mkdir switchBox.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=switchBox.buildbin-libdir switchBox_1.19.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL switchBox_1.19.0.zip && rm switchBox_1.19.0.tar.gz switchBox_1.19.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  461k  100  461k    0     0  7244k      0 --:--:-- --:--:-- --:--:-- 8094k

install for i386

* installing *source* package 'switchBox' ...
** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c CalculateSignedScoreCore.cc -o CalculateSignedScoreCore.o
CalculateSignedScoreCore.cc: In function 'void CalculateSignedScoreCore(int*, int*, double*, int*, double*, int*, double*, double*, double*, double*, double*, double*, double*)':
CalculateSignedScoreCore.cc:36:26: warning: variable 'pairsNo' set but not used [-Wunused-but-set-variable]
     int i,j,l,countplace,pairsNo;
                          ^
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c CalculateSignedScoreCoreTieHandler.cc -o CalculateSignedScoreCoreTieHandler.o
CalculateSignedScoreCoreTieHandler.cc: In function 'void CalculateSignedScoreCoreTieHandler(int*, int*, double*, int*, double*, int*, double*, double*, double*, double*)':
CalculateSignedScoreCoreTieHandler.cc:49:12: warning: unused variable 'score1' [-Wunused-variable]
     double score1, score2, type;
            ^
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c CalculateSignedScoreRestrictedPairsCore.cc -o CalculateSignedScoreRestrictedPairsCore.o
CalculateSignedScoreRestrictedPairsCore.cc: In function 'void CalculateSignedScoreRestrictedPairsCore(int*, int*, double*, int*, double*, int*, int*, int*, int*, double*, double*, double*)':
CalculateSignedScoreRestrictedPairsCore.cc:22:11: warning: variable 'countplace' set but not used [-Wunused-but-set-variable]
   int i,l,countplace,pairsNo;
           ^
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c CalculateSignedScoreRestrictedPairsCoreTieHandler.cc -o CalculateSignedScoreRestrictedPairsCoreTieHandler.o
CalculateSignedScoreRestrictedPairsCoreTieHandler.cc: In function 'void CalculateSignedScoreRestrictedPairsCoreTieHandler(int*, int*, double*, int*, double*, int*, int*, int*, int*, double*, double*, double*, double*)':
CalculateSignedScoreRestrictedPairsCoreTieHandler.cc:25:11: warning: unused variable 'countplace' [-Wunused-variable]
   int i,l,countplace,pairsNo;
           ^
CalculateSignedScoreRestrictedPairsCoreTieHandler.cc:35:10: warning: unused variable 'score1' [-Wunused-variable]
   double score1, score2, type;
          ^
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c rinit.c -o rinit.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c vect2compC.cc -o vect2compC.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o switchBox.dll tmp.def CalculateSignedScoreCore.o CalculateSignedScoreCoreTieHandler.o CalculateSignedScoreRestrictedPairsCore.o CalculateSignedScoreRestrictedPairsCoreTieHandler.o rinit.o vect2compC.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/switchBox.buildbin-libdir/00LOCK-switchBox/00new/switchBox/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'switchBox'
    finding HTML links ... done
    KTSP.Classify                           html  
    KTSP.Train                              html  
    SWAP.Calculate.BasicTSPScores           html  
    SWAP.Calculate.SignedTSPScores          html  
    SWAP.CalculateScores                    html  
    SWAP.CalculateSignedScore               html  
    SWAP.Filter.Wilcoxon                    html  
    SWAP.GetKTSP.PredictionStats            html  
    SWAP.GetKTSP.Result                     html  
    SWAP.GetKTSP.TrainTestResults           html  
    SWAP.KTSP.CV                            html  
    SWAP.KTSP.Classify                      html  
    SWAP.KTSP.LOO                           html  
    SWAP.KTSP.Statistic                     html  
    SWAP.KTSP.Train                         html  
    SWAP.Kby.Measurement                    html  
    SWAP.Kby.Ttest                          html  
    SWAP.MakeTSPTable                       html  
    SWAP.PlotKTSP.GenePairBoxplot           html  
    SWAP.PlotKTSP.GenePairClassesBoxplot    html  
    SWAP.PlotKTSP.GenePairScatter           html  
    SWAP.PlotKTSP.Genes                     html  
    SWAP.PlotKTSP.TrainTestROC              html  
    finding level-2 HTML links ... done

Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpIdyuOc/R.INSTALL1b5c8c0736d/switchBox/man/SWAP.PlotKTSP.TrainTestROC.Rd:35: missing link 'SWAP.GetkTSPTrainTestResults'
    SWAP.PlotKTSP.Votes                     html  
    SWAP.Train.1TSP                         html  
    SWAP.Train.KTSP                         html  
    matTesting                              html  
    matTraining                             html  
    switchBox-package                       html  
    testingGroup                            html  
    trainingGroup                           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 'switchBox' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c CalculateSignedScoreCore.cc -o CalculateSignedScoreCore.o
CalculateSignedScoreCore.cc: In function 'void CalculateSignedScoreCore(int*, int*, double*, int*, double*, int*, double*, double*, double*, double*, double*, double*, double*)':
CalculateSignedScoreCore.cc:36:26: warning: variable 'pairsNo' set but not used [-Wunused-but-set-variable]
     int i,j,l,countplace,pairsNo;
                          ^
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c CalculateSignedScoreCoreTieHandler.cc -o CalculateSignedScoreCoreTieHandler.o
CalculateSignedScoreCoreTieHandler.cc: In function 'void CalculateSignedScoreCoreTieHandler(int*, int*, double*, int*, double*, int*, double*, double*, double*, double*)':
CalculateSignedScoreCoreTieHandler.cc:49:12: warning: unused variable 'score1' [-Wunused-variable]
     double score1, score2, type;
            ^
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c CalculateSignedScoreRestrictedPairsCore.cc -o CalculateSignedScoreRestrictedPairsCore.o
CalculateSignedScoreRestrictedPairsCore.cc: In function 'void CalculateSignedScoreRestrictedPairsCore(int*, int*, double*, int*, double*, int*, int*, int*, int*, double*, double*, double*)':
CalculateSignedScoreRestrictedPairsCore.cc:22:11: warning: variable 'countplace' set but not used [-Wunused-but-set-variable]
   int i,l,countplace,pairsNo;
           ^
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c CalculateSignedScoreRestrictedPairsCoreTieHandler.cc -o CalculateSignedScoreRestrictedPairsCoreTieHandler.o
CalculateSignedScoreRestrictedPairsCoreTieHandler.cc: In function 'void CalculateSignedScoreRestrictedPairsCoreTieHandler(int*, int*, double*, int*, double*, int*, int*, int*, int*, double*, double*, double*, double*)':
CalculateSignedScoreRestrictedPairsCoreTieHandler.cc:25:11: warning: unused variable 'countplace' [-Wunused-variable]
   int i,l,countplace,pairsNo;
           ^
CalculateSignedScoreRestrictedPairsCoreTieHandler.cc:35:10: warning: unused variable 'score1' [-Wunused-variable]
   double score1, score2, type;
          ^
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c rinit.c -o rinit.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c vect2compC.cc -o vect2compC.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o switchBox.dll tmp.def CalculateSignedScoreCore.o CalculateSignedScoreCoreTieHandler.o CalculateSignedScoreRestrictedPairsCore.o CalculateSignedScoreRestrictedPairsCoreTieHandler.o rinit.o vect2compC.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/switchBox.buildbin-libdir/switchBox/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'switchBox' as switchBox_1.19.0.zip
* DONE (switchBox)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'switchBox' successfully unpacked and MD5 sums checked