Install log for 'excursions'

* installing *source* package ‘excursions’ ...
** package ‘excursions’ successfully unpacked and MD5 sums checked
** using staged installation
checking for gcc... /usr/local/clang18/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/clang18/bin/clang accepts -g... yes
checking for /usr/local/clang18/bin/clang option to enable C11 features... none needed
checking whether the compiler supports GNU C++... yes
checking whether /usr/local/clang18/bin/clang++ -std=gnu++17 accepts -g... yes
checking for /usr/local/clang18/bin/clang++ -std=gnu++17 option to enable C++11 features... none needed
checking for gsl-config... /usr/bin/gsl-config
checking if GSL version >= 2.1... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘clang version 18.1.4’
using C++ compiler: ‘clang version 18.1.4’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src'
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang18/include -I/usr/local/clang/include   -ISuiteSparse_config -ICAMD/Include -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c RngStream.c -o RngStream.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang18/include -I/usr/local/clang/include   -ISuiteSparse_config -ICAMD/Include -I/usr/include -I. -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c excursions_init.c -o excursions_init.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang18/include -I/usr/local/clang/include   -I/usr/include -fopenmp -ISuiteSparse_config -ICAMD/Include -I. -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c integration.cpp -o integration.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang18/include -I/usr/local/clang/include   -I/usr/include -fopenmp -ISuiteSparse_config -ICAMD/Include -I. -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c qinv.cpp -o qinv.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG   -isystem /usr/local/clang18/include -I/usr/local/clang/include   -I/usr/include -fopenmp -ISuiteSparse_config -ICAMD/Include -I. -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c reordering.cpp -o reordering.o
(cd CAMD && \
    make -f "/data/gannet/ripley/R/R-clang/etc/Makeconf" -f Makefile \
    MAKE="make -f \"/data/gannet/ripley/R/R-clang/etc/Makeconf\" -f Makefile" \
    CFLAGS="-O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 " CXXFLAGS="-O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 " \
    library)
make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src/CAMD'
( cd Source    ; make -f "/data/gannet/ripley/R/R-clang/etc/Makeconf" -f Makefile )
make[3]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src/CAMD/Source'
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_aat.c -o camd_i_aat.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_1.c -o camd_i_1.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_2.c -o camd_i_2.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_dump.c -o camd_i_dump.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_postorder.c -o camd_i_postorder.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_defaults.c -o camd_i_defaults.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_order.c -o camd_i_order.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_control.c -o camd_i_control.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_info.c -o camd_i_info.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_valid.c -o camd_i_valid.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDINT -c camd_preprocess.c -o camd_i_preprocess.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_aat.c -o camd_l_aat.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_1.c -o camd_l_1.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_2.c -o camd_l_2.o
(cd SuiteSparse_config && \
    make -f "/data/gannet/ripley/R/R-clang/etc/Makeconf" -f Makefile \
    MAKE="make -f \"/data/gannet/ripley/R/R-clang/etc/Makeconf\" -f Makefile" \
    CFLAGS="-O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 " CXXFLAGS="-O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 " \
    library)
make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src/SuiteSparse_config'
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNTIMER  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c SuiteSparse_config.c -o SuiteSparse_config.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_dump.c -o camd_l_dump.o
ar -rcs ../SuiteSparse_config.a SuiteSparse_config.o
make[2]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src/SuiteSparse_config'
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_postorder.c -o camd_l_postorder.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_defaults.c -o camd_l_defaults.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_order.c -o camd_l_order.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_control.c -o camd_l_control.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_info.c -o camd_l_info.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_valid.c -o camd_l_valid.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -DDLONG -c camd_preprocess.c -o camd_l_preprocess.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../Include -I../../SuiteSparse_config  -isystem /usr/local/clang18/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -I../Include -c camd_global.c -o camd_global.o
ar -rcs ../../CAMD.a camd_i_aat.o camd_i_1.o camd_i_2.o camd_i_dump.o camd_i_postorder.o camd_i_defaults.o camd_i_order.o camd_i_control.o camd_i_info.o camd_i_valid.o camd_i_preprocess.o camd_l_aat.o camd_l_1.o camd_l_2.o camd_l_dump.o camd_l_postorder.o camd_l_defaults.o camd_l_order.o camd_l_control.o camd_l_info.o camd_l_valid.o camd_l_preprocess.o camd_global.o
make[3]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src/CAMD/Source'
make[2]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src/CAMD'
/usr/local/clang18/bin/clang++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o excursions.so RngStream.o excursions_init.o integration.o qinv.o reordering.o CAMD.a SuiteSparse_config.a -lm -fopenmp -lgsl -lgslcblas -lm
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/excursions/src'
installing to /data/gannet/ripley/R/packages/tests-clang/excursions.Rcheck/00LOCK-excursions/00new/excursions/libs
** R
** 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 (excursions)