##############################################################################
##############################################################################
###
### Running command:
###
### rm -rf iBMQ.buildbin-libdir && mkdir iBMQ.buildbin-libdir && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL --build --library=iBMQ.buildbin-libdir iBMQ_1.39.0.tar.gz
###
##############################################################################
##############################################################################
* installing *source* package 'iBMQ' ...
** using staged installation
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
using C compiler: 'gcc.exe (GCC) 12.2.0'
gcc -I"F:/biocbuild/bbs-3.17-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-3.17-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
gcc -I"F:/biocbuild/bbs-3.17-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-3.17-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:255:33: warning: 'Cfile' may be used uninitialized [-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:83:59: note: 'Cfile' was declared here
83 | FILE *Pfile, *Afile, *Bfile, *Mufile, *Sig2file, *Cfile;
| ^~~~~
main_parallel_sparse.c:255:33: warning: 'Sig2file' may be used uninitialized [-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:83:48: note: 'Sig2file' was declared here
83 | FILE *Pfile, *Afile, *Bfile, *Mufile, *Sig2file, *Cfile;
| ^~~~~~~~
main_parallel_sparse.c:255:33: warning: 'Mufile' may be used uninitialized [-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:83:39: note: 'Mufile' was declared here
83 | FILE *Pfile, *Afile, *Bfile, *Mufile, *Sig2file, *Cfile;
| ^~~~~~
main_parallel_sparse.c:255:33: warning: 'Bfile' may be used uninitialized [-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:83:31: note: 'Bfile' was declared here
83 | FILE *Pfile, *Afile, *Bfile, *Mufile, *Sig2file, *Cfile;
| ^~~~~
main_parallel_sparse.c:255:33: warning: 'Afile' may be used uninitialized [-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:83:23: note: 'Afile' was declared here
83 | FILE *Pfile, *Afile, *Bfile, *Mufile, *Sig2file, *Cfile;
| ^~~~~
main_parallel_sparse.c:255:33: warning: 'Pfile' may be used uninitialized [-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:83:15: note: 'Pfile' was declared here
83 | FILE *Pfile, *Afile, *Bfile, *Mufile, *Sig2file, *Cfile;
| ^~~~~
gcc -I"F:/biocbuild/bbs-3.17-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-3.17-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-3.17-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-3.17-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.17-bioc-rtools43/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_1.39.0.zip
* DONE (iBMQ)