* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’
* installing *source* package ‘pegas’ ...
** package ‘pegas’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp4qf00d/R.INSTALL19007113c49e7a/pegas/src'
gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c mst.c -o mst.o
gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c pegas.c -o pegas.o
gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c readVCFbin.c -o readVCFbin.o
readVCFbin.c: In function ‘read_bin_pegas’:
readVCFbin.c:18:13: warning: variable ‘retval’ set but not used [-Wunused-but-set-variable]
   18 |     int sz, retval;
      |             ^~~~~~
gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c summary_loci_pegas.c -o summary_loci_pegas.o
gcc-13 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o pegas.so mst.o pegas.o readVCFbin.o summary_loci_pegas.o -llapack -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp4qf00d/R.INSTALL19007113c49e7a/pegas/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp4qf00d/R.INSTALL19007113c49e7a/pegas/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp4qf00d/R.INSTALL19007113c49e7a/pegas/src'
installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-pegas/00new/pegas/libs
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* creating tarball
packaged installation of ‘pegas’ as ‘pegas_1.3_R_x86_64-pc-linux-gnu.tar.gz’
* DONE (pegas)