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BUILD BIN report for DeMixT on tokay1

This page was generated on 2020-04-15 12:32:07 -0400 (Wed, 15 Apr 2020).

Package 435/1823HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DeMixT 1.2.5
Shaolong Cao, Peng Yang
Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020)
URL: https://git.bioconductor.org/packages/DeMixT
Branch: RELEASE_3_10
Last Commit: ada2dc5
Last Changed Date: 2020-02-15 22:09:55 -0400 (Sat, 15 Feb 2020)
malbec1 Linux (Ubuntu 18.04.4 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  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: DeMixT
Version: 1.2.5
Command: rm -rf DeMixT.buildbin-libdir && mkdir DeMixT.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DeMixT.buildbin-libdir DeMixT_1.2.5.tar.gz
StartedAt: 2020-04-15 08:34:29 -0400 (Wed, 15 Apr 2020)
EndedAt: 2020-04-15 08:35:44 -0400 (Wed, 15 Apr 2020)
EllapsedTime: 75.3 seconds
RetCode: 0
Status:  OK  
PackageFile: DeMixT_1.2.5.zip
PackageFileSize: 4.792 MiB

Command output

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###
### Running command:
###
###   rm -rf DeMixT.buildbin-libdir && mkdir DeMixT.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DeMixT.buildbin-libdir DeMixT_1.2.5.tar.gz
###
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install for i386

* installing *source* package 'DeMixT' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O3 -Wall  -std=gnu99 -mtune=core2 -c DeMixT.c -o DeMixT.o
DeMixT.c: In function 'Tdemix':
DeMixT.c:265:9: warning: implicit declaration of function 'Rprintf' [-Wimplicit-function-declaration]
         if (nHavepi != 1)  Rprintf("Iteration %d: updating parameters\n", i+1);
         ^
DeMixT.c:36:45: warning: variable 'st2_sig_2' set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
                                             ^
DeMixT.c:36:33: warning: variable 'st1_sig_2' set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
                                 ^
DeMixT.c:36:22: warning: variable 'st2_mu_2' set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
                      ^
DeMixT.c:36:11: warning: variable 'st1_mu_2' set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
           ^
DeMixT.c: In function 'gettumor':
DeMixT.c:587:21: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^
DeMixT.c:587:12: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^
DeMixT.c: In function 'getpi':
DeMixT.c:1276:21: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^
DeMixT.c:1276:12: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^
DeMixT.c: In function 'getspikeinpi':
DeMixT.c:1303:18: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
  double obj_old, obj_new;
                  ^
DeMixT.c:1303:9: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
  double obj_old, obj_new;
         ^
DeMixT.c: In function 'getpiT':
DeMixT.c:1318:21: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^
DeMixT.c:1318:12: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^
DeMixT.c: In function 'Tdemix':
DeMixT.c:191:11: warning: 'Tavgtmp' may be used uninitialized in this function [-Wmaybe-uninitialized]
         if(Tavgtmp <= 0) Tavgtmp = exp(10*log(2.0) + p->Tsigma[j]/2.0*pow(log(2.0), 2.0));
           ^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c Profile_2D.cpp -o Profile_2D.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O3 -Wall  -std=gnu99 -mtune=core2 -c init.c -o init.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O3 -Wall  -std=gnu99 -mtune=core2 -c registerDynamicSymbol.c -o registerDynamicSymbol.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o DeMixT.dll tmp.def DeMixT.o Profile_2D.o RcppExports.o init.o registerDynamicSymbol.o -fopenmp -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/DeMixT.buildbin-libdir/00LOCK-DeMixT/00new/DeMixT/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 'DeMixT'
    finding HTML links ... done
    DeMixT                                  html  
    DeMixT_GS                               html  
    DeMixT_S1                               html  
    DeMixT_S2                               html  
    Optimum_KernelC                         html  
    simulate_2comp                          html  
    simulate_3comp                          html  
    test.data.2comp                         html  
    test.data.3comp                         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 'DeMixT' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -std=gnu99 -mtune=core2 -c DeMixT.c -o DeMixT.o
DeMixT.c: In function 'Tdemix':
DeMixT.c:265:9: warning: implicit declaration of function 'Rprintf' [-Wimplicit-function-declaration]
         if (nHavepi != 1)  Rprintf("Iteration %d: updating parameters\n", i+1);
         ^
DeMixT.c:36:45: warning: variable 'st2_sig_2' set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
                                             ^
DeMixT.c:36:33: warning: variable 'st1_sig_2' set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
                                 ^
DeMixT.c:36:22: warning: variable 'st2_mu_2' set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
                      ^
DeMixT.c:36:11: warning: variable 'st1_mu_2' set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
           ^
DeMixT.c: In function 'gettumor':
DeMixT.c:587:21: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^
DeMixT.c:587:12: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^
DeMixT.c: In function 'getpi':
DeMixT.c:1276:21: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^
DeMixT.c:1276:12: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^
DeMixT.c: In function 'getspikeinpi':
DeMixT.c:1303:18: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
  double obj_old, obj_new;
                  ^
DeMixT.c:1303:9: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
  double obj_old, obj_new;
         ^
DeMixT.c: In function 'getpiT':
DeMixT.c:1318:21: warning: variable 'obj_new' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^
DeMixT.c:1318:12: warning: variable 'obj_old' set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^
DeMixT.c: In function 'Tdemix':
DeMixT.c:191:11: warning: 'Tavgtmp' may be used uninitialized in this function [-Wmaybe-uninitialized]
         if(Tavgtmp <= 0) Tavgtmp = exp(10*log(2.0) + p->Tsigma[j]/2.0*pow(log(2.0), 2.0));
           ^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c Profile_2D.cpp -o Profile_2D.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -std=gnu99 -mtune=core2 -c init.c -o init.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -std=gnu99 -mtune=core2 -c registerDynamicSymbol.c -o registerDynamicSymbol.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o DeMixT.dll tmp.def DeMixT.o Profile_2D.o RcppExports.o init.o registerDynamicSymbol.o -fopenmp -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/DeMixT.buildbin-libdir/DeMixT/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DeMixT' as DeMixT_1.2.5.zip
* DONE (DeMixT)