Install log for 'phylocomr'

* installing to library ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’
* installing *source* package ‘phylocomr’ ...
** package ‘phylocomr’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Debian clang version 18.1.4 (1)’
make[1]: Entering directory '/tmp/Rtmpmk9Nip/R.INSTALL13976f7541d060/phylocomr/src'
rm -Rf phylocomr.so nothing.o register.o libphylocom/io.o libphylocom/new2fy.o  libphylocom/traits.o libphylocom/comstruct.o libphylocom/nrutil.o libphylocom/fy2new.o libphylocom/bladj.o libphylocom/comnode.o libphylocom/prune.o libphylocom/comtrait.o libphylocom/stats.o libphylocom/combase.o libphylocom/libphylocom.a phylocom ecovolve phylomatic
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/io.c -o libphylocom/io.o
libphylocom/io.c:133:7: warning: variable 'linesread' set but not used [-Wunused-but-set-variable]
  133 |   int linesread = 0;
      |       ^
1 warning generated.
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/new2fy.c -o libphylocom/new2fy.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/traits.c -o libphylocom/traits.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/comstruct.c -o libphylocom/comstruct.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/nrutil.c -o libphylocom/nrutil.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/fy2new.c -o libphylocom/fy2new.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/bladj.c -o libphylocom/bladj.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/comnode.c -o libphylocom/comnode.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/prune.c -o libphylocom/prune.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/comtrait.c -o libphylocom/comtrait.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/stats.c -o libphylocom/stats.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/combase.c -o libphylocom/combase.o
libphylocom/combase.c:1909:10: warning: variable 'sumDist' set but not used [-Wunused-but-set-variable]
 1909 |   double sumDist = 0.0;
      |          ^
libphylocom/combase.c:1912:8: warning: variable 'countDist' set but not used [-Wunused-but-set-variable]
 1912 |   long countDist = 0;
      |        ^
2 warnings generated.
mkdir -p ../inst/bin
ar rcs libphylocom/libphylocom.a libphylocom/io.o libphylocom/new2fy.o  libphylocom/traits.o libphylocom/comstruct.o libphylocom/nrutil.o libphylocom/fy2new.o libphylocom/bladj.o libphylocom/comnode.o libphylocom/prune.o libphylocom/comtrait.o libphylocom/stats.o libphylocom/combase.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/main.c -o libphylocom/main.o
clang-18 -I/usr/local/include -g -O3 -Wall -pedantic -o phylocom libphylocom/main.o -Llibphylocom -lphylocom -lm
cp -f phylocom ../inst/bin
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/ecomain.c -o libphylocom/ecomain.o
libphylocom/ecomain.c:676:13: warning: variable 'k' set but not used [-Wunused-but-set-variable]
  676 |   int i, j, k, nterm;
      |             ^
1 warning generated.
clang-18 -I/usr/local/include -g -O3 -Wall -pedantic -o ecovolve libphylocom/ecomain.o -Llibphylocom -lphylocom -lm
cp -f ecovolve ../inst/bin
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c libphylocom/phylomatic.c -o libphylocom/phylomatic.o
clang-18 -I/usr/local/include -g -O3 -Wall -pedantic -o phylomatic libphylocom/phylomatic.o -Llibphylocom -lphylocom -lm
cp -f phylomatic ../inst/bin
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c nothing.c -o nothing.o
clang-18 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic -c register.c -o register.o
clang-18 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o phylocomr.so nothing.o register.o -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR
make[1]: Leaving directory '/tmp/Rtmpmk9Nip/R.INSTALL13976f7541d060/phylocomr/src'
make[1]: Entering directory '/tmp/Rtmpmk9Nip/R.INSTALL13976f7541d060/phylocomr/src'
make[1]: Leaving directory '/tmp/Rtmpmk9Nip/R.INSTALL13976f7541d060/phylocomr/src'
installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-phylocomr/00new/phylocomr/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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
* DONE (phylocomr)