Package: SANTA

Version: 2.25.0

Command: rm -rf SANTA.buildbin-libdir && mkdir SANTA.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SANTA.buildbin-libdir SANTA_2.25.0.tar.gz

StartedAt: 2019-12-20 11:17:23 -0500 (Fri, 20 Dec 2019)

EndedAt: 2019-12-20 11:18:07 -0500 (Fri, 20 Dec 2019)

EllapsedTime: 43.8 seconds

RetCode: 0

Status:  OK

PackageFile: SANTA_2.25.0.zip

PackageFileSize: 3.712 MiB

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### Running command:
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###   rm -rf SANTA.buildbin-libdir && mkdir SANTA.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SANTA.buildbin-libdir SANTA_2.25.0.tar.gz
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install for i386

* installing *source* package 'SANTA' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c computenetK_fewzeros.c -o computenetK_fewzeros.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c computenetK_manyzeros.c -o computenetK_manyzeros.o
computenetK_manyzeros.c: In function 'computenetK_manyzeros':
computenetK_manyzeros.c:29:24: warning: assignment from incompatible pointer type
     p_which_vw_nonzero = R_alloc(n_nonzero_vertices, sizeof(int));
                        ^
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c computenodeAUK.c -o computenodeAUK.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c computeweights.c -o computeweights.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o SANTA.dll tmp.def computenetK_fewzeros.o computenetK_manyzeros.o computenodeAUK.o computeweights.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/SANTA.buildbin-libdir/00LOCK-SANTA/00new/SANTA/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'SANTA'
    finding HTML links ... done
    BinGraph                                html  
    Compactness                             html  
    CreateGrid                              html  
    DistGraph                               html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpmyYirr/R.INSTALL3394136c27f8/SANTA/man/DistGraph.Rd:53: file link 'shortest.paths' in package 'igraph' does not exist and so has been treated as a topic
    GraphDiffusion                          html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpmyYirr/R.INSTALL3394136c27f8/SANTA/man/GraphDiffusion.Rd:45: file link 'shortest.paths' in package 'igraph' does not exist and so has been treated as a topic
    GraphMFPT                               html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpmyYirr/R.INSTALL3394136c27f8/SANTA/man/GraphMFPT.Rd:46: file link 'shortest.paths' in package 'igraph' does not exist and so has been treated as a topic
    Knet                                    html  
    Knode                                   html  
    SANTA.data                              html  
    SpreadHits                              html  
    plot.Knet                               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 'SANTA' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c computenetK_fewzeros.c -o computenetK_fewzeros.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c computenetK_manyzeros.c -o computenetK_manyzeros.o
computenetK_manyzeros.c: In function 'computenetK_manyzeros':
computenetK_manyzeros.c:29:24: warning: assignment from incompatible pointer type
     p_which_vw_nonzero = R_alloc(n_nonzero_vertices, sizeof(int));
                        ^
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c computenodeAUK.c -o computenodeAUK.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c computeweights.c -o computeweights.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o SANTA.dll tmp.def computenetK_fewzeros.o computenetK_manyzeros.o computenodeAUK.o computeweights.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/SANTA.buildbin-libdir/SANTA/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SANTA' as SANTA_2.25.0.zip
* DONE (SANTA)