Package: GeneGeneInteR

Version: 1.10.0

Command: rm -rf GeneGeneInteR.buildbin-libdir && mkdir GeneGeneInteR.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GeneGeneInteR.buildbin-libdir GeneGeneInteR_1.10.0.tar.gz

StartedAt: 2019-10-16 09:16:48 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 09:18:21 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 92.8 seconds

RetCode: 0

Status:  OK

PackageFile: GeneGeneInteR_1.10.0.zip

PackageFileSize: 1.221 MiB

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### Running command:
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###   rm -rf GeneGeneInteR.buildbin-libdir && mkdir GeneGeneInteR.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GeneGeneInteR.buildbin-libdir GeneGeneInteR_1.10.0.tar.gz
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install for i386

* installing *source* package 'GeneGeneInteR' ...
** using staged installation
** 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 chclust.cpp -o chclust.o
chclust.cpp: In function 'bool Conslink(long int, double**, double**)':
chclust.cpp:82:28: warning: assuming signed overflow does not occur when assuming that (X + c) < X is always false [-Wstrict-overflow]
 #define dc(a,b)  (((a) > (b)) ? (DPtr[(a)-1][(b)-1]) : (DPtr[(b)-1][(a)-1]))
                            ^
chclust.cpp:306:18: note: in expansion of macro 'dc'
       diag[i] =  dc(i,i+1);
                  ^
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o GeneGeneInteR.dll tmp.def chclust.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/GeneGeneInteR.buildbin-libdir/00LOCK-GeneGeneInteR/00new/GeneGeneInteR/libs/i386
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'GeneGeneInteR'
    finding HTML links ... done
    CCA.test                                html  
    CLD.test                                html  
    GBIGM.test                              html  
    GGI                                     html  
    KCCA.test                               html  
    PCA.test                                html  
    PLSPM.test                              html  
    data.SNP                                html  
    gates.test                              html  
    gene.pair                               html  
    importFile                              html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpe6pI7L/R.INSTALL234cf8d3f92/GeneGeneInteR/man/importFile.Rd:42: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    imputeSnpMatrix                         html  
    minP.test                               html  
    plot.GGInetwork                         html  
    print.GGItest                           html  
    selectSnps                              html  
    snpMatrixScour                          html  
    summary.GGInetwork                      html  
    summary.GGItest                         html  
    tProd.test                              html  
    tTS.test                                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 'GeneGeneInteR' ...
** 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 chclust.cpp -o chclust.o
chclust.cpp: In function 'bool Conslink(long int, double**, double**)':
chclust.cpp:82:28: warning: assuming signed overflow does not occur when assuming that (X + c) < X is always false [-Wstrict-overflow]
 #define dc(a,b)  (((a) > (b)) ? (DPtr[(a)-1][(b)-1]) : (DPtr[(b)-1][(a)-1]))
                            ^
chclust.cpp:306:18: note: in expansion of macro 'dc'
       diag[i] =  dc(i,i+1);
                  ^
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o GeneGeneInteR.dll tmp.def chclust.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/GeneGeneInteR.buildbin-libdir/GeneGeneInteR/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GeneGeneInteR' as GeneGeneInteR_1.10.0.zip
* DONE (GeneGeneInteR)