* installing *source* package ‘COveR’ ...
** this is package ‘COveR’ version ‘1.1.0’
** package ‘COveR’ successfully unpacked and MD5 sums checked
** using staged installation
checking for gcc... /usr/local/clang20/bin/clang
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether /usr/local/clang20/bin/clang accepts -g... yes
checking for /usr/local/clang20/bin/clang option to enable C11 features... none needed
checking for gsl-config... /usr/bin/gsl-config
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘clang version 20.1.0-rc2’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/COveR/src'
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/R_icmeans.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/R_icmeans.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/dists/ic_hausdorff.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/dists/ic_hausdorff.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/dists/ic_euclid.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/dists/ic_euclid.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/icmeans.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/icmeans.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/r2okm/r2okm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/r2okm/r2okm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/r2okm/R_r2okm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/r2okm/R_r2okm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/neokm/neokm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/neokm/neokm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/neokm/R_neokm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/neokm/R_neokm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/r1okm/r1okm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/r1okm/r1okm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/r1okm/R_r1okm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/r1okm/R_r1okm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_mean.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_mean.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_join.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_join.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_meet.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_meet.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_sum.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_sum.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/io_hausdorff.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/io_hausdorff.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/io_euclid.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/io_euclid.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_mean.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_mean.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_sum.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_sum.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_join.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_join.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_meet.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_meet.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/iokm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/iokm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/R_iokm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/R_iokm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/helpers.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/helpers.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/COveR-init.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/COveR-init.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/interval.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/interval.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/dists/ik_euclid.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/dists/ik_euclid.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/dists/ik_hausdorff.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/dists/ik_hausdorff.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/ikmeans.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/ikmeans.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/R_ikmeans.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/R_ikmeans.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/ineokm/ineokm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ineokm/ineokm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/ineokm/R_ineokm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ineokm/R_ineokm.o
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/okm/okm.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/okm/okm.o
/data/gannet/ripley/R/packages/tests-clang/COveR/src/okm/okm.c:178:23: warning: variable 'ret2' set but not used [-Wunused-but-set-variable]
  178 |     double ret = 0.0, ret2 = 0.0;
      |                       ^
1 warning generated.
/usr/local/clang20/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang20/include -I/usr/local/clang/include   -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c /data/gannet/ripley/R/packages/tests-clang/COveR/src/distance.c -o /data/gannet/ripley/R/packages/tests-clang/COveR/src/distance.o
/usr/local/clang20/bin/clang -shared -L/usr/local/clang/lib64 -L/usr/local/clang20/lib -L/usr/local/clang20/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o COveR.so /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/R_icmeans.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/dists/ic_hausdorff.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/dists/ic_euclid.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/icmeans/icmeans.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/r2okm/r2okm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/r2okm/R_r2okm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/neokm/neokm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/neokm/R_neokm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/r1okm/r1okm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/r1okm/R_r1okm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_mean.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_join.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_meet.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/hausdorff/io_hausdorff_sum.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/io_hausdorff.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/io_euclid.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_mean.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_sum.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_join.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/dists/euclid/io_euclid_meet.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/iokm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/iokm/R_iokm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/helpers.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/COveR-init.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/interval.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/dists/ik_euclid.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/dists/ik_hausdorff.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/ikmeans.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ikmeans/R_ikmeans.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ineokm/ineokm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/ineokm/R_ineokm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/okm/okm.o /data/gannet/ripley/R/packages/tests-clang/COveR/src/distance.o -lgsl -lgslcblas -lm
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/COveR/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/COveR/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/COveR/src'
installing to /data/gannet/ripley/R/packages/tests-clang/COveR.Rcheck/00LOCK-COveR/00new/COveR/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (COveR)