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INSTALL report for iClusterPlus on tokay1

This page was generated on 2019-04-13 11:23:29 -0400 (Sat, 13 Apr 2019).

Package 753/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iClusterPlus 1.18.0
Qianxing Mo , Ronglai Shen
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/iClusterPlus
Branch: RELEASE_3_8
Last Commit: 3b2a748
Last Changed Date: 2018-10-30 11:41:52 -0400 (Tue, 30 Oct 2018)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: iClusterPlus
Version: 1.18.0
Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/iClusterPlus_1.18.0.tar.gz && rm -rf iClusterPlus.buildbin-libdir && mkdir iClusterPlus.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=iClusterPlus.buildbin-libdir iClusterPlus_1.18.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL iClusterPlus_1.18.0.zip && rm iClusterPlus_1.18.0.tar.gz iClusterPlus_1.18.0.zip
StartedAt: 2019-04-12 18:23:54 -0400 (Fri, 12 Apr 2019)
EndedAt: 2019-04-12 18:25:31 -0400 (Fri, 12 Apr 2019)
EllapsedTime: 97.3 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/iClusterPlus_1.18.0.tar.gz && rm -rf iClusterPlus.buildbin-libdir && mkdir iClusterPlus.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=iClusterPlus.buildbin-libdir iClusterPlus_1.18.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL iClusterPlus_1.18.0.zip && rm iClusterPlus_1.18.0.tar.gz iClusterPlus_1.18.0.zip
###
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##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 20.2M  100 20.2M    0     0  52.6M      0 --:--:-- --:--:-- --:--:-- 53.1M

install for i386

* installing *source* package 'iClusterPlus' ...

   **********************************************
   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˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c iClusterBayes.c -o iClusterBayes.o
iClusterBayes.c: In function 'bvsPoisson':
iClusterBayes.c:380:27: warning: variable 'k1k1' set but not used [-Wunused-but-set-variable]
   int *gamma_p,i,j,nk1,k1,k1k1,incx,incy,ID,np;
                           ^
iClusterBayes.c: In function 'bvsBinom':
iClusterBayes.c:629:27: warning: variable 'k1k1' set but not used [-Wunused-but-set-variable]
   int *gamma_p,i,j,nk1,k1,k1k1,incx,incy,ID,np;
                           ^
iClusterBayes.c: In function 'mcmcBayes':
iClusterBayes.c:1214:28: 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:1214:20: 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:1216:174: 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:1477:5: warning: 'gb2' may be used uninitialized in this function [-Wmaybe-uninitialized]
     mcmcMix6d(meanZ,lastZ,nkZbd,sdev,
     ^
iClusterBayes.c:1477:5: warning: 'gb1' may be used uninitialized in this function [-Wmaybe-uninitialized]
iClusterBayes.c:1477:5: warning: 'gb0' may be used uninitialized in this function [-Wmaybe-uninitialized]
iClusterBayes.c:1216:179: 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:1216:184: 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˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c iClusterPlus.c -o iClusterPlus.o
iClusterPlus.c: In function 'iClusterCore':
iClusterPlus.c:1101:60: warning: unused variable 'tempm3' [-Wunused-variable]
   double *btp,*btpb, *EXZt,*tempX,*tempm0,*tempm1,*tempm2,*tempm3,*BOld,*PhivecOld, *XtXdiag;
                                                            ^
iClusterPlus.c:1099:18: warning: variable 'pp' set but not used [-Wunused-but-set-variable]
   int i, j,kk,pk,pp,s,t;
                  ^
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/gfortran -shared -s -static-libgcc -o iClusterPlus.dll tmp.def iClusterBayes.o iClusterPlus.o newGLMnet.o -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/iClusterPlus.buildbin-libdir/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
In R CMD INSTALL

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˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c iClusterBayes.c -o iClusterBayes.o
iClusterBayes.c: In function 'bvsPoisson':
iClusterBayes.c:380:27: warning: variable 'k1k1' set but not used [-Wunused-but-set-variable]
   int *gamma_p,i,j,nk1,k1,k1k1,incx,incy,ID,np;
                           ^
iClusterBayes.c: In function 'bvsBinom':
iClusterBayes.c:629:27: warning: variable 'k1k1' set but not used [-Wunused-but-set-variable]
   int *gamma_p,i,j,nk1,k1,k1k1,incx,incy,ID,np;
                           ^
iClusterBayes.c: In function 'mcmcBayes':
iClusterBayes.c:1214:28: 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:1214:20: 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:1216:174: 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:1477:5: warning: 'gb2' may be used uninitialized in this function [-Wmaybe-uninitialized]
     mcmcMix6d(meanZ,lastZ,nkZbd,sdev,
     ^
iClusterBayes.c:1477:5: warning: 'gb1' may be used uninitialized in this function [-Wmaybe-uninitialized]
iClusterBayes.c:1477:5: warning: 'gb0' may be used uninitialized in this function [-Wmaybe-uninitialized]
iClusterBayes.c:1216:179: 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:1216:184: 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˜1.8-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c iClusterPlus.c -o iClusterPlus.o
iClusterPlus.c: In function 'iClusterCore':
iClusterPlus.c:1101:60: warning: unused variable 'tempm3' [-Wunused-variable]
   double *btp,*btpb, *EXZt,*tempX,*tempm0,*tempm1,*tempm2,*tempm3,*BOld,*PhivecOld, *XtXdiag;
                                                            ^
iClusterPlus.c:1099:18: warning: variable 'pp' set but not used [-Wunused-but-set-variable]
   int i, j,kk,pk,pp,s,t;
                  ^
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/gfortran -shared -s -static-libgcc -o iClusterPlus.dll tmp.def iClusterBayes.o iClusterPlus.o newGLMnet.o -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/iClusterPlus.buildbin-libdir/iClusterPlus/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'iClusterPlus' as iClusterPlus_1.18.0.zip
* DONE (iClusterPlus)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'iClusterPlus' successfully unpacked and MD5 sums checked
In R CMD INSTALL