##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf iBMQ.buildbin-libdir && mkdir iBMQ.buildbin-libdir && F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL --build --library=iBMQ.buildbin-libdir iBMQ_1.36.0.tar.gz
###
##############################################################################
##############################################################################


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

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


** libs
gcc  -I"F:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -fopenmp    -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c ARS.c -o ARS.o
gcc  -I"F:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -fopenmp    -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c RngStream.c -o RngStream.o
RngStream.c: In function 'RngStream_CreateStream':
RngStream.c:321:7: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=]
  321 |       strncpy (g->name, name, len + 1);
      |       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
RngStream.c:319:13: note: length computed here
  319 |       len = strlen (name);
      |             ^~~~~~~~~~~~~
gcc  -I"F:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -fopenmp    -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c iBMQ_common.c -o iBMQ_common.o
gcc  -I"F:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -fopenmp    -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c main_parallel_sparse.c -o main_parallel_sparse.o
main_parallel_sparse.c: In function 'iBMQ_main':
main_parallel_sparse.c:255:5: warning: 'Cfile' may be used uninitialized in this function [-Wmaybe-uninitialized]
  255 |     store_mcmc_output(Afile, Bfile, Pfile, Mufile, Sig2file, Cfile,
      |     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  256 |       n_snps, n_genes, A, B, P, Mu, Sig2, C);
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
main_parallel_sparse.c:255:5: warning: 'Sig2file' may be used uninitialized in this function [-Wmaybe-uninitialized]
main_parallel_sparse.c:255:5: warning: 'Mufile' may be used uninitialized in this function [-Wmaybe-uninitialized]
main_parallel_sparse.c:255:5: warning: 'Bfile' may be used uninitialized in this function [-Wmaybe-uninitialized]
main_parallel_sparse.c:255:5: warning: 'Afile' may be used uninitialized in this function [-Wmaybe-uninitialized]
main_parallel_sparse.c:255:5: warning: 'Pfile' may be used uninitialized in this function [-Wmaybe-uninitialized]
gcc  -I"F:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -fopenmp    -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c main_parallel_sparse_constC.c -o main_parallel_sparse_constC.o
gcc  -I"F:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -fopenmp    -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c norm_gamma_generation.c -o norm_gamma_generation.o
gcc  -I"F:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I/src/include -I/x64/include -fopenmp    -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c sparse.c -o sparse.o
gcc -shared -s -static-libgcc -o iBMQ.dll tmp.def ARS.o RngStream.o iBMQ_common.o main_parallel_sparse.o main_parallel_sparse_constC.o norm_gamma_generation.o sparse.o -L/x64/lib -lgsl -lgslcblas -lm -fopenmp -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.15-bioc/meat/iBMQ.buildbin-libdir/00LOCK-iBMQ/00new/iBMQ/libs/x64
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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
* MD5 sums
packaged installation of 'iBMQ' as iBMQ_1.36.0.zip
* DONE (iBMQ)