* installing *source* package ‘phylocomr’ ...
** package ‘phylocomr’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using SDK: ‘MacOSX11.3.sdk’
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 -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/io.c -o libphylocom/io.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/new2fy.c -o libphylocom/new2fy.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/traits.c -o libphylocom/traits.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/comstruct.c -o libphylocom/comstruct.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/nrutil.c -o libphylocom/nrutil.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/fy2new.c -o libphylocom/fy2new.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/bladj.c -o libphylocom/bladj.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/comnode.c -o libphylocom/comnode.o
libphylocom/io.c:133:7: warning: variable 'linesread' set but not used [-Wunused-but-set-variable]
int linesread = 0;
^
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/prune.c -o libphylocom/prune.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/comtrait.c -o libphylocom/comtrait.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/stats.c -o libphylocom/stats.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/combase.c -o libphylocom/combase.o
libphylocom/combase.c:1909:10: warning: variable 'sumDist' set but not used [-Wunused-but-set-variable]
double sumDist = 0.0;
^
libphylocom/combase.c:1912:8: warning: variable 'countDist' set but not used [-Wunused-but-set-variable]
long countDist = 0;
^
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/main.c -o libphylocom/main.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/ecomain.c -o libphylocom/ecomain.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c libphylocom/phylomatic.c -o libphylocom/phylomatic.o
libphylocom/ecomain.c:676:13: warning: variable 'k' set but not used [-Wunused-but-set-variable]
int i, j, k, nterm;
^
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c nothing.c -o nothing.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c register.c -o register.o
clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o phylocomr.so nothing.o register.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
1 warning generated.
1 warning generated.
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 -arch x86_64 -I/opt/R/x86_64/include -falign-functions=64 -Wall -g -O2 -o phylocom libphylocom/main.o -Llibphylocom -lphylocom -lm
clang -arch x86_64 -I/opt/R/x86_64/include -falign-functions=64 -Wall -g -O2 -o ecovolve libphylocom/ecomain.o -Llibphylocom -lphylocom -lm
clang -arch x86_64 -I/opt/R/x86_64/include -falign-functions=64 -Wall -g -O2 -o phylomatic libphylocom/phylomatic.o -Llibphylocom -lphylocom -lm
cp -f phylocom ../inst/bin
cp -f ecovolve ../inst/bin
cp -f phylomatic ../inst/bin
installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.3/phylocomr.Rcheck/00LOCK-phylocomr/00new/phylocomr/libs
** generating debug symbols (dSYM)
** 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)