BioC 3.6: INSTALL report for ncdfFlow on tokay1

Package: ncdfFlow

Version: 2.23.2

Command: rm -rf ncdfFlow.buildbin-libdir && mkdir ncdfFlow.buildbin-libdir && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/ncdfFlow_2.23.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=ncdfFlow.buildbin-libdir --merge-multiarch ncdfFlow_2.23.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL ncdfFlow_2.23.2.zip && rm ncdfFlow_2.23.2.tar.gz ncdfFlow_2.23.2.zip

StartedAt: 2017-08-15 18:26:16 -0400 (Tue, 15 Aug 2017)

EndedAt: 2017-08-15 18:31:55 -0400 (Tue, 15 Aug 2017)

EllapsedTime: 339.8 seconds

RetCode: 0

Status:  OK

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### Running command:
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###   rm -rf ncdfFlow.buildbin-libdir && mkdir ncdfFlow.buildbin-libdir  && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/ncdfFlow_2.23.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=ncdfFlow.buildbin-libdir --merge-multiarch ncdfFlow_2.23.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL ncdfFlow_2.23.2.zip  && rm ncdfFlow_2.23.2.tar.gz ncdfFlow_2.23.2.zip
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install for i386

* installing *source* package 'ncdfFlow' ...
** libs
C:/Rtools/mingw_32/bin/g++  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c bitOps.cpp -o bitOps.o
C:/Rtools/mingw_32/bin/g++  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c hdfFlow.cpp -o hdfFlow.o
hdfFlow.cpp: In function 'void readSlice_cpp(hid_t, hid_t, hid_t, std::vector<unsigned int, std::allocator<unsigned int> >, unsigned int, unsigned int, double*, bool)':
hdfFlow.cpp:484:14: warning: variable 'status' set but not used [-Wunused-but-set-variable]
  herr_t      status;
              ^
C:/Rtools/mingw_32/bin/gcc  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c init.c -o init.o
C:/Rtools/mingw_32/bin/g++  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c readFrame.cpp -o readFrame.o
readFrame.cpp: In function 'Rcpp::S4 readFrame(Rcpp::S4, Rcpp::RObject, Rcpp::RObject, bool)':
readFrame.cpp:87:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(unsigned i = 0; i < j_val.size(); i++){
                          ^
mkdir -p "C:/Users/biocbuild/bbs-3.6-bioc/meat/ncdfFlow.buildbin-libdir/ncdfFlow/lib/i386"
C:/Rtools/mingw_32/bin/ar rs "C:/Users/biocbuild/bbs-3.6-bioc/meat/ncdfFlow.buildbin-libdir/ncdfFlow/lib/i386/libncdfFlow.a" RcppExports.o bitOps.o hdfFlow.o init.o readFrame.o
C:\Rtools\mingw_32\bin\ar.exe: creating C:/Users/biocbuild/bbs-3.6-bioc/meat/ncdfFlow.buildbin-libdir/ncdfFlow/lib/i386/libncdfFlow.a
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o ncdfFlow.dll tmp.def RcppExports.o bitOps.o hdfFlow.o init.o readFrame.o -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/library/Rhdf5lib/lib/i386 -lhdf5 -lszip -lz -lpsapi -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/ncdfFlow.buildbin-libdir/ncdfFlow/libs/i386
** R
** 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 'ncdfFlow' ...
** libs
C:/Rtools/mingw_64/bin/g++  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c bitOps.cpp -o bitOps.o
C:/Rtools/mingw_64/bin/g++  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c hdfFlow.cpp -o hdfFlow.o
hdfFlow.cpp: In function 'void readSlice_cpp(hid_t, hid_t, hid_t, std::vector<unsigned int, std::allocator<unsigned int> >, unsigned int, unsigned int, double*, bool)':
hdfFlow.cpp:484:14: warning: variable 'status' set but not used [-Wunused-but-set-variable]
  herr_t      status;
              ^
C:/Rtools/mingw_64/bin/gcc  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c init.c -o init.o
C:/Rtools/mingw_64/bin/g++  -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/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rhdf5lib/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=core2 -c readFrame.cpp -o readFrame.o
mkdir -p "C:/Users/biocbuild/bbs-3.6-bioc/meat/ncdfFlow.buildbin-libdir/ncdfFlow/lib/x64"
C:/Rtools/mingw_64/bin/ar rs "C:/Users/biocbuild/bbs-3.6-bioc/meat/ncdfFlow.buildbin-libdir/ncdfFlow/lib/x64/libncdfFlow.a" RcppExports.o bitOps.o hdfFlow.o init.o readFrame.o
C:\Rtools\mingw_64\bin\ar.exe: creating C:/Users/biocbuild/bbs-3.6-bioc/meat/ncdfFlow.buildbin-libdir/ncdfFlow/lib/x64/libncdfFlow.a
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o ncdfFlow.dll tmp.def RcppExports.o bitOps.o hdfFlow.o init.o readFrame.o -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/library/Rhdf5lib/lib/x64 -lhdf5 -lszip -lz -lpsapi -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/ncdfFlow.buildbin-libdir/ncdfFlow/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ncdfFlow' as ncdfFlow_2.23.2.zip
* DONE (ncdfFlow)
* installing to library 'C:/Users/biocbuild/bbs-3.6-bioc/R/library'
package 'ncdfFlow' successfully unpacked and MD5 sums checked