BioC 3.6: INSTALL report for destiny on tokay1

Package: destiny

Version: 2.5.6

Command: rm -rf destiny.buildbin-libdir && mkdir destiny.buildbin-libdir && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/destiny_2.5.6.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=destiny.buildbin-libdir --merge-multiarch destiny_2.5.6.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL destiny_2.5.6.zip && rm destiny_2.5.6.tar.gz destiny_2.5.6.zip

StartedAt: 2017-08-15 18:31:06 -0400 (Tue, 15 Aug 2017)

EndedAt: 2017-08-15 18:37:17 -0400 (Tue, 15 Aug 2017)

EllapsedTime: 370.7 seconds

RetCode: 0

Status:  OK

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### Running command:
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###   rm -rf destiny.buildbin-libdir && mkdir destiny.buildbin-libdir  && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/destiny_2.5.6.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=destiny.buildbin-libdir --merge-multiarch destiny_2.5.6.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL destiny_2.5.6.zip  && rm destiny_2.5.6.tar.gz destiny_2.5.6.zip
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install for i386

* installing *source* package 'destiny' ...
** libs
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=core2 -c censoring.cpp -o censoring.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=core2 -c no_censoring.cpp -o no_censoring.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o destiny.dll tmp.def RcppExports.o censoring.o no_censoring.o -LC:/local323/lib/i386 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/destiny.buildbin-libdir/destiny/libs/i386
** R
** data
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'destiny' ...
** libs
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=core2 -c censoring.cpp -o censoring.o
censoring.cpp: In function 'Rcpp::NumericMatrix predict_censoring_impl(Rcpp::NumericMatrix, Rcpp::NumericMatrix, double, Rcpp::NumericVector, Rcpp::NumericVector, double)':
censoring.cpp:72:17: warning: 'm1' may be used uninitialized in this function [-Wmaybe-uninitialized]
     / sqrt(m1-m0);
                 ^
censoring.cpp:55:15: note: 'm1' was declared here
    double m0, m1;
               ^
censoring.cpp:71:22: warning: 'm0' may be used uninitialized in this function [-Wmaybe-uninitialized]
     * ( std::erfc((m0-v) / sigma) - std::erfc((m1-v) / sigma) )
                      ^
censoring.cpp:55:11: note: 'm0' was declared here
    double m0, m1;
           ^
censoring.cpp:66:33: warning: 'use_d' may be used uninitialized in this function [-Wmaybe-uninitialized]
    const double v = use_d ? d : c;
                                 ^
censoring.cpp:18:7: note: 'use_d' was declared here
  bool use_d;
       ^
censoring.cpp: In function 'Eigen::SparseMatrix<double, 0, int> censoring_impl(Rcpp::NumericMatrix, Rcpp::NumericVector, Eigen::SparseMatrix<double, 0, int>, SEXP, SEXP, SEXP, Rcpp::Function)':
censoring.cpp:72:17: warning: 'm1' may be used uninitialized in this function [-Wmaybe-uninitialized]
     / sqrt(m1-m0);
                 ^
censoring.cpp:55:15: note: 'm1' was declared here
    double m0, m1;
               ^
censoring.cpp:71:22: warning: 'm0' may be used uninitialized in this function [-Wmaybe-uninitialized]
     * ( std::erfc((m0-v) / sigma) - std::erfc((m1-v) / sigma) )
                      ^
censoring.cpp:55:11: note: 'm0' was declared here
    double m0, m1;
           ^
censoring.cpp:66:33: warning: 'use_d' may be used uninitialized in this function [-Wmaybe-uninitialized]
    const double v = use_d ? d : c;
                                 ^
censoring.cpp:18:7: note: 'use_d' was declared here
  bool use_d;
       ^
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/grDevices/include"   -I"C:/local323/include"  -ggdb   -O2 -Wall  -mtune=core2 -c no_censoring.cpp -o no_censoring.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o destiny.dll tmp.def RcppExports.o censoring.o no_censoring.o -LC:/local323/lib/x64 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/destiny.buildbin-libdir/destiny/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'destiny' as destiny_2.5.6.zip
* DONE (destiny)
* installing to library 'C:/Users/biocbuild/bbs-3.6-bioc/R/library'
package 'destiny' successfully unpacked and MD5 sums checked