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### Running command:
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### rm -rf snapCGH.buildbin-libdir && mkdir snapCGH.buildbin-libdir && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL --build --library=snapCGH.buildbin-libdir snapCGH_1.69.0.tar.gz
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* installing *source* package 'snapCGH' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 12.2.0'
gcc -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I"c:/rtools42/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c optimizer.c -o optimizer.o
optimizer.c: In function 'fr_two':
optimizer.c:26:30: warning: unused variable 'temp3' [-Wunused-variable]
26 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:26:23: warning: unused variable 'temp2' [-Wunused-variable]
26 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:26:10: warning: unused variable 'denom' [-Wunused-variable]
26 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c: In function 'fr_three':
optimizer.c:195:30: warning: unused variable 'temp3' [-Wunused-variable]
195 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:195:23: warning: unused variable 'temp2' [-Wunused-variable]
195 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:195:10: warning: unused variable 'denom' [-Wunused-variable]
195 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:194:69: warning: unused variable 'alphahat' [-Wunused-variable]
194 | double gammaA[3][3], gammaB[3][3], gammaC[3][3], alpha[3][nrow1], alphahat[3][nrow1], emis_prob[3][nrow1];
| ^~~~~~~~
optimizer.c: In function 'fr_four':
optimizer.c:413:30: warning: unused variable 'temp3' [-Wunused-variable]
413 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:413:23: warning: unused variable 'temp2' [-Wunused-variable]
413 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:413:10: warning: unused variable 'denom' [-Wunused-variable]
413 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:412:69: warning: unused variable 'alphahat' [-Wunused-variable]
412 | double gammaA[4][4], gammaB[4][4], gammaC[4][4], alpha[4][nrow1], alphahat[4][nrow1], emis_prob[4][nrow1];
| ^~~~~~~~
optimizer.c: In function 'fr_five':
optimizer.c:687:30: warning: unused variable 'temp3' [-Wunused-variable]
687 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:687:23: warning: unused variable 'temp2' [-Wunused-variable]
687 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:687:10: warning: unused variable 'denom' [-Wunused-variable]
687 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:686:69: warning: unused variable 'alphahat' [-Wunused-variable]
686 | double gammaA[5][5], gammaB[5][5], gammaC[5][5], alpha[5][nrow1], alphahat[5][nrow1], emis_prob[5][nrow1];
| ^~~~~~~~
gcc -shared -s -static-libgcc -o snapCGH.dll tmp.def optimizer.o -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/snapCGH.buildbin-libdir/00LOCK-snapCGH/00new/snapCGH/libs/x64
** R
** 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 'snapCGH' as snapCGH_1.69.0.zip
* DONE (snapCGH)