Install log for 'rehh'

* installing *source* package ‘rehh’ ...
** package ‘rehh’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 19.1.5’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rehh/src'
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c CALL_ASNEWICK.c -o CALL_ASNEWICK.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c CALL_EHH.c -o CALL_EHH.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c CALL_EHHS.c -o CALL_EHHS.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c CALL_FURCATION.c -o CALL_FURCATION.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c CALL_INTEGRAL.c -o CALL_INTEGRAL.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c CALL_PAIRWISE_HAPLEN.c -o CALL_PAIRWISE_HAPLEN.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c CALL_SCAN_HH.c -o CALL_SCAN_HH.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c CALL_SCAN_HH_FULL.c -o CALL_SCAN_HH_FULL.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c CALL_SFS_TESTS.c -o CALL_SFS_TESTS.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c asnewick.c -o asnewick.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c calc_ehh.c -o calc_ehh.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c calc_ehhs.c -o calc_ehhs.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c calc_furcation.c -o calc_furcation.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c calc_pairwise_haplen.c -o calc_pairwise_haplen.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c calc_sfs_tests.c -o calc_sfs_tests.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c haplotypes.c -o haplotypes.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c haplotypes_with_lengths.c -o haplotypes_with_lengths.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c haplotypes_with_nodes.c -o haplotypes_with_nodes.o
haplotypes_with_nodes.c:58:9: warning: variable 'index' set but not used [-Wunused-but-set-variable]
   58 |     int index = 0;
      |         ^
1 warning generated.
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c homozygosity.c -o homozygosity.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c init.c -o init.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c integrate.c -o integrate.o
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang19/include -I/usr/local/clang/include   -fopenmp -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c sfs_moments.c -o sfs_moments.o
/usr/local/clang19/bin/clang -shared -L/usr/local/clang/lib64 -L/usr/local/clang19/lib -L/usr/local/clang19/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o rehh.so CALL_ASNEWICK.o CALL_EHH.o CALL_EHHS.o CALL_FURCATION.o CALL_INTEGRAL.o CALL_PAIRWISE_HAPLEN.o CALL_SCAN_HH.o CALL_SCAN_HH_FULL.o CALL_SFS_TESTS.o asnewick.o calc_ehh.o calc_ehhs.o calc_furcation.o calc_pairwise_haplen.o calc_sfs_tests.o haplotypes.o haplotypes_with_lengths.o haplotypes_with_nodes.o homozygosity.o init.o integrate.o sfs_moments.o -fopenmp
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/rehh/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rehh/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/rehh/src'
installing to /data/gannet/ripley/R/packages/tests-clang/rehh.Rcheck/00LOCK-rehh/00new/rehh/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
* DONE (rehh)