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INSTALL report for iClusterPlus on tokay2

This page was generated on 2019-10-16 12:29:03 -0400 (Wed, 16 Oct 2019).

Package 790/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iClusterPlus 1.20.0
Qianxing Mo , Ronglai Shen
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/iClusterPlus
Branch: RELEASE_3_9
Last Commit: 8099fb8
Last Changed Date: 2019-05-02 11:53:46 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  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

Summary

Package: iClusterPlus
Version: 1.20.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/iClusterPlus_1.20.0.tar.gz && rm -rf iClusterPlus.buildbin-libdir && mkdir iClusterPlus.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=iClusterPlus.buildbin-libdir iClusterPlus_1.20.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL iClusterPlus_1.20.0.zip && rm iClusterPlus_1.20.0.tar.gz iClusterPlus_1.20.0.zip
StartedAt: 2019-10-15 18:41:06 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 18:42:46 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 99.7 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/iClusterPlus_1.20.0.tar.gz && rm -rf iClusterPlus.buildbin-libdir && mkdir iClusterPlus.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=iClusterPlus.buildbin-libdir iClusterPlus_1.20.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL iClusterPlus_1.20.0.zip && rm iClusterPlus_1.20.0.tar.gz iClusterPlus_1.20.0.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 20.2M  100 20.2M    0     0  43.3M      0 --:--:-- --:--:-- --:--:-- 43.9M

install for i386

* installing *source* package 'iClusterPlus' ...
** using staged installation

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
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 iClusterBayes.c -o iClusterBayes.o
iClusterBayes.c: In function 'mcmcBayes':
iClusterBayes.c:1212:28: warning: variable 'Zdraw' set but not used [-Wunused-but-set-variable]
   int i,j,h,n,k,ID,Zburnin,Zdraw,ndt,nk,thin,nthin,remainder,ty0,p0,ty1,p1,ty2,p2,ty3,p3,ty4,p4,ty5,p5,betaBurnin,betaDraw,p0k,p1k,p2k,p3k,p4k,p5k;
                            ^
iClusterBayes.c:1212:20: warning: variable 'Zburnin' set but not used [-Wunused-but-set-variable]
   int i,j,h,n,k,ID,Zburnin,Zdraw,ndt,nk,thin,nthin,remainder,ty0,p0,ty1,p1,ty2,p2,ty3,p3,ty4,p4,ty5,p5,betaBurnin,betaDraw,p0k,p1k,p2k,p3k,p4k,p5k;
                    ^
iClusterBayes.c:1214:174: warning: 'gb3' may be used uninitialized in this function [-Wmaybe-uninitialized]
   double *sumMeanZ,*suma0,*sumb0,*suma1,*sumb1,*suma2,*sumb2,*suma3,*sumb3,*suma4,*sumb4,*suma5,*sumb5,*sumsig0,*sumsig1,*sumsig2,*sumsig3,*sumsig4,*sumsig5,*gb0,*gb1,*gb2,*gb3,*gb4,*gb5;
                                                                                                                                                                              ^
iClusterBayes.c:1475:5: warning: 'gb2' may be used uninitialized in this function [-Wmaybe-uninitialized]
     mcmcMix6d(meanZ,lastZ,nkZbd,sdev,
     ^
iClusterBayes.c:1475:5: warning: 'gb1' may be used uninitialized in this function [-Wmaybe-uninitialized]
iClusterBayes.c:1475:5: warning: 'gb0' may be used uninitialized in this function [-Wmaybe-uninitialized]
iClusterBayes.c:1214:179: warning: 'gb4' may be used uninitialized in this function [-Wmaybe-uninitialized]
   double *sumMeanZ,*suma0,*sumb0,*suma1,*sumb1,*suma2,*sumb2,*suma3,*sumb3,*suma4,*sumb4,*suma5,*sumb5,*sumsig0,*sumsig1,*sumsig2,*sumsig3,*sumsig4,*sumsig5,*gb0,*gb1,*gb2,*gb3,*gb4,*gb5;
                                                                                                                                                                                   ^
iClusterBayes.c:1214:184: warning: 'gb5' may be used uninitialized in this function [-Wmaybe-uninitialized]
   double *sumMeanZ,*suma0,*sumb0,*suma1,*sumb1,*suma2,*sumb2,*suma3,*sumb3,*suma4,*sumb4,*suma5,*sumb5,*sumsig0,*sumsig1,*sumsig2,*sumsig3,*sumsig4,*sumsig5,*gb0,*gb1,*gb2,*gb3,*gb4,*gb5;
                                                                                                                                                                                        ^
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 iClusterPlus.c -o iClusterPlus.o
C:/Rtools/mingw_32/bin/gfortran   -fdefault-real-8 -ffixed-form   -O3  -mtune=generic -c  newGLMnet.f90 -o newGLMnet.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o iClusterPlus.dll tmp.def iClusterBayes.o iClusterPlus.o newGLMnet.o -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -lgfortran -lm -lquadmath -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/iClusterPlus.buildbin-libdir/00LOCK-iClusterPlus/00new/iClusterPlus/libs/i386
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'iClusterPlus'
    finding HTML links ... done
    CNregions                               html  
    breast.chr17                            html  
    compute.pod                             html  
    coord                                   html  
    gbm                                     html  
    glp                                     html  
    iCluster                                html  
    iCluster2                               html  
    iClusterBayes                           html  
    iClusterPlus                            html  
    plotHMBayes                             html  
    plotHeatmap                             html  
    plotRI                                  html  
    plotiCluster                            html  
    simuResult                              html  
    tune.iCluster2                          html  
    tune.iClusterBayes                      html  
    tune.iClusterPlus                       html  
    utility                                 html  
    variation.hg18.v10.nov.2010             html  
** building package indices
** installing vignettes
   'iClusterPlus.Rnw' using 'UTF-8' 
** 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 'iClusterPlus' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
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 iClusterBayes.c -o iClusterBayes.o
iClusterBayes.c: In function 'mcmcBayes':
iClusterBayes.c:1212:28: warning: variable 'Zdraw' set but not used [-Wunused-but-set-variable]
   int i,j,h,n,k,ID,Zburnin,Zdraw,ndt,nk,thin,nthin,remainder,ty0,p0,ty1,p1,ty2,p2,ty3,p3,ty4,p4,ty5,p5,betaBurnin,betaDraw,p0k,p1k,p2k,p3k,p4k,p5k;
                            ^
iClusterBayes.c:1212:20: warning: variable 'Zburnin' set but not used [-Wunused-but-set-variable]
   int i,j,h,n,k,ID,Zburnin,Zdraw,ndt,nk,thin,nthin,remainder,ty0,p0,ty1,p1,ty2,p2,ty3,p3,ty4,p4,ty5,p5,betaBurnin,betaDraw,p0k,p1k,p2k,p3k,p4k,p5k;
                    ^
iClusterBayes.c:1214:174: warning: 'gb3' may be used uninitialized in this function [-Wmaybe-uninitialized]
   double *sumMeanZ,*suma0,*sumb0,*suma1,*sumb1,*suma2,*sumb2,*suma3,*sumb3,*suma4,*sumb4,*suma5,*sumb5,*sumsig0,*sumsig1,*sumsig2,*sumsig3,*sumsig4,*sumsig5,*gb0,*gb1,*gb2,*gb3,*gb4,*gb5;
                                                                                                                                                                              ^
iClusterBayes.c:1475:5: warning: 'gb2' may be used uninitialized in this function [-Wmaybe-uninitialized]
     mcmcMix6d(meanZ,lastZ,nkZbd,sdev,
     ^
iClusterBayes.c:1475:5: warning: 'gb1' may be used uninitialized in this function [-Wmaybe-uninitialized]
iClusterBayes.c:1475:5: warning: 'gb0' may be used uninitialized in this function [-Wmaybe-uninitialized]
iClusterBayes.c:1214:179: warning: 'gb4' may be used uninitialized in this function [-Wmaybe-uninitialized]
   double *sumMeanZ,*suma0,*sumb0,*suma1,*sumb1,*suma2,*sumb2,*suma3,*sumb3,*suma4,*sumb4,*suma5,*sumb5,*sumsig0,*sumsig1,*sumsig2,*sumsig3,*sumsig4,*sumsig5,*gb0,*gb1,*gb2,*gb3,*gb4,*gb5;
                                                                                                                                                                                   ^
iClusterBayes.c:1214:184: warning: 'gb5' may be used uninitialized in this function [-Wmaybe-uninitialized]
   double *sumMeanZ,*suma0,*sumb0,*suma1,*sumb1,*suma2,*sumb2,*suma3,*sumb3,*suma4,*sumb4,*suma5,*sumb5,*sumsig0,*sumsig1,*sumsig2,*sumsig3,*sumsig4,*sumsig5,*gb0,*gb1,*gb2,*gb3,*gb4,*gb5;
                                                                                                                                                                                        ^
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 iClusterPlus.c -o iClusterPlus.o
C:/Rtools/mingw_64/bin/gfortran   -fdefault-real-8 -ffixed-form   -O2  -mtune=generic -c  newGLMnet.f90 -o newGLMnet.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o iClusterPlus.dll tmp.def iClusterBayes.o iClusterPlus.o newGLMnet.o -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -lgfortran -lm -lquadmath -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/iClusterPlus.buildbin-libdir/iClusterPlus/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'iClusterPlus' as iClusterPlus_1.20.0.zip
* DONE (iClusterPlus)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'iClusterPlus' successfully unpacked and MD5 sums checked