Mock Version: 5.9 Mock Version: 5.9 Mock Version: 5.9 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target ppc64le --nodeps /builddir/build/SPECS/bionetgen.spec'], chrootPath='/var/lib/mock/f40-build-55218908-6533620/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=201600uid=1000gid=425user='mockbuild'unshare_net=TrueprintOutput=Falsenspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.ge9st9t8:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']) Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.ge9st9t8:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'] Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', '6388ce70f0ec442eba87a60a6e2fe2d3', '-D', '/var/lib/mock/f40-build-55218908-6533620/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.ge9st9t8:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;\\007"', '--setenv=PS1= \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target ppc64le --nodeps /builddir/build/SPECS/bionetgen.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False Building target platforms: ppc64le Building for target ppc64le setting SOURCE_DATE_EPOCH=1705968000 Wrote: /builddir/build/SRPMS/bionetgen-2.9.0-3.fc40.src.rpm Child return code was: 0 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target ppc64le --nodeps /builddir/build/SPECS/bionetgen.spec'], chrootPath='/var/lib/mock/f40-build-55218908-6533620/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=201600uid=1000gid=425user='mockbuild'unshare_net=TrueprintOutput=Falsenspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.ge9st9t8:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']) Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.ge9st9t8:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'] Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', 'bc09948488c94c3caae5e1283f5db64c', '-D', '/var/lib/mock/f40-build-55218908-6533620/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.ge9st9t8:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--bind=/dev/fuse', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;\\007"', '--setenv=PS1= \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target ppc64le --nodeps /builddir/build/SPECS/bionetgen.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False Building target platforms: ppc64le Building for target ppc64le setting SOURCE_DATE_EPOCH=1705968000 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.lSGd74 + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf bionetgen-2.9.0 + /usr/bin/mkdir -p bionetgen-2.9.0 + cd bionetgen-2.9.0 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/bionetgen-BioNetGen-2.9.0.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + rm -rf /builddir/build/BUILD/bionetgen-2.9.0-SPECPARTS + /usr/bin/mkdir -p /builddir/build/BUILD/bionetgen-2.9.0-SPECPARTS + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + pushd bionetgen-BioNetGen-2.9.0 ~/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0 ~/build/BUILD/bionetgen-2.9.0 + rm -f bng2/libsource/gsl-1.9.tar.gz bng2/libsource/Mathutils.tar.gz bng2/libsource/muparser_v2_2_4.zip + tar -xvf bng2/libsource/cvode-2.6.0.tar.gz -C bng2/Network3 cvode-2.6.0/README cvode-2.6.0/INSTALL_NOTES cvode-2.6.0/LICENSE cvode-2.6.0/Makefile.in cvode-2.6.0/configure.ac cvode-2.6.0/acinclude.m4 cvode-2.6.0/config.hin cvode-2.6.0/configure cvode-2.6.0/CMakeLists.txt cvode-2.6.0/config/config.guess cvode-2.6.0/config/config.sub cvode-2.6.0/config/install-sh cvode-2.6.0/config/mkinstalldirs cvode-2.6.0/config/rminstalldirs cvode-2.6.0/config/ltmain.sh cvode-2.6.0/config/mod_c.m4 cvode-2.6.0/config/mod_fortran.m4 cvode-2.6.0/config/cust_general.m4 cvode-2.6.0/config/CheckFortranFunctionExists.cmake cvode-2.6.0/config/SundialsFortran.cmake cvode-2.6.0/config/SundialsLapack.cmake cvode-2.6.0/config/SundialsMPIC.cmake cvode-2.6.0/config/SundialsMPIF.cmake cvode-2.6.0/config/FindLAPACK.cmake cvode-2.6.0/config/FindBLAS.cmake cvode-2.6.0/config/FindMPI.cmake cvode-2.6.0/bin/sundials-config.in cvode-2.6.0/bin/fortran-update.in cvode-2.6.0/bin/makefile-update.in cvode-2.6.0/include/sundials/sundials_config.in cvode-2.6.0/include/sundials/sundials_types.h cvode-2.6.0/include/sundials/sundials_math.h cvode-2.6.0/include/sundials/sundials_nvector.h cvode-2.6.0/include/sundials/sundials_fnvector.h cvode-2.6.0/include/sundials/sundials_dense.h cvode-2.6.0/include/sundials/sundials_direct.h cvode-2.6.0/include/sundials/sundials_band.h cvode-2.6.0/include/sundials/sundials_lapack.h cvode-2.6.0/include/sundials/sundials_spgmr.h cvode-2.6.0/include/sundials/sundials_spbcgs.h cvode-2.6.0/include/sundials/sundials_sptfqmr.h cvode-2.6.0/include/sundials/sundials_iterative.h cvode-2.6.0/include/nvector/nvector_serial.h cvode-2.6.0/include/nvector/nvector_parallel.h cvode-2.6.0/src/sundials/README cvode-2.6.0/src/sundials/Makefile.in cvode-2.6.0/src/sundials/CMakeLists.txt cvode-2.6.0/src/sundials/sundials_math.c cvode-2.6.0/src/sundials/sundials_nvector.c cvode-2.6.0/src/sundials/sundials_dense.c cvode-2.6.0/src/sundials/sundials_direct.c cvode-2.6.0/src/sundials/sundials_band.c cvode-2.6.0/src/sundials/sundials_spgmr.c cvode-2.6.0/src/sundials/sundials_spbcgs.c cvode-2.6.0/src/sundials/sundials_sptfqmr.c cvode-2.6.0/src/sundials/sundials_iterative.c cvode-2.6.0/src/nvec_ser/README cvode-2.6.0/src/nvec_ser/Makefile.in cvode-2.6.0/src/nvec_ser/CMakeLists.txt cvode-2.6.0/src/nvec_ser/fnvector_serial.h cvode-2.6.0/src/nvec_ser/nvector_serial.c cvode-2.6.0/src/nvec_ser/fnvector_serial.c cvode-2.6.0/src/nvec_par/README cvode-2.6.0/src/nvec_par/Makefile.in cvode-2.6.0/src/nvec_par/CMakeLists.txt cvode-2.6.0/src/nvec_par/fnvector_parallel.h cvode-2.6.0/src/nvec_par/nvector_parallel.c cvode-2.6.0/src/nvec_par/fnvector_parallel.c cvode-2.6.0/examples/templates/cmakelists_parallel_C_ex.in cvode-2.6.0/examples/templates/cmakelists_parallel_F77_ex.in cvode-2.6.0/examples/templates/cmakelists_serial_C_ex.in cvode-2.6.0/examples/templates/cmakelists_serial_F77_ex.in cvode-2.6.0/examples/templates/makefile_parallel_C_ex.in cvode-2.6.0/examples/templates/makefile_parallel_F77_ex.in cvode-2.6.0/examples/templates/makefile_serial_C_ex.in cvode-2.6.0/examples/templates/makefile_serial_F77_ex.in cvode-2.6.0/doc/cvode/cv_guide.pdf cvode-2.6.0/doc/cvode/cv_examples.pdf cvode-2.6.0/include/cvode/cvode.h cvode-2.6.0/include/cvode/cvode_direct.h cvode-2.6.0/include/cvode/cvode_dense.h cvode-2.6.0/include/cvode/cvode_band.h cvode-2.6.0/include/cvode/cvode_lapack.h cvode-2.6.0/include/cvode/cvode_diag.h cvode-2.6.0/include/cvode/cvode_spgmr.h cvode-2.6.0/include/cvode/cvode_spbcgs.h cvode-2.6.0/include/cvode/cvode_sptfqmr.h cvode-2.6.0/include/cvode/cvode_spils.h cvode-2.6.0/include/cvode/cvode_bandpre.h cvode-2.6.0/include/cvode/cvode_bbdpre.h cvode-2.6.0/src/cvode/LICENSE cvode-2.6.0/src/cvode/README cvode-2.6.0/src/cvode/Makefile.in cvode-2.6.0/src/cvode/CMakeLists.txt cvode-2.6.0/src/cvode/cvode.c cvode-2.6.0/src/cvode/cvode_io.c cvode-2.6.0/src/cvode/cvode_direct.c cvode-2.6.0/src/cvode/cvode_dense.c cvode-2.6.0/src/cvode/cvode_band.c cvode-2.6.0/src/cvode/cvode_lapack.c cvode-2.6.0/src/cvode/cvode_diag.c cvode-2.6.0/src/cvode/cvode_spils.c cvode-2.6.0/src/cvode/cvode_spgmr.c cvode-2.6.0/src/cvode/cvode_spbcgs.c cvode-2.6.0/src/cvode/cvode_sptfqmr.c cvode-2.6.0/src/cvode/cvode_bandpre.c cvode-2.6.0/src/cvode/cvode_bbdpre.c cvode-2.6.0/src/cvode/cvode_impl.h cvode-2.6.0/src/cvode/cvode_direct_impl.h cvode-2.6.0/src/cvode/cvode_diag_impl.h cvode-2.6.0/src/cvode/cvode_spils_impl.h cvode-2.6.0/src/cvode/cvode_bandpre_impl.h cvode-2.6.0/src/cvode/cvode_bbdpre_impl.h cvode-2.6.0/src/cvode/fcmix/Makefile.in cvode-2.6.0/src/cvode/fcmix/CMakeLists.txt cvode-2.6.0/src/cvode/fcmix/fcvode.c cvode-2.6.0/src/cvode/fcmix/fcvewt.c cvode-2.6.0/src/cvode/fcmix/fcvpreco.c cvode-2.6.0/src/cvode/fcmix/fcvjtimes.c cvode-2.6.0/src/cvode/fcmix/fcvband.c cvode-2.6.0/src/cvode/fcmix/fcvdense.c cvode-2.6.0/src/cvode/fcmix/fcvlapack.c cvode-2.6.0/src/cvode/fcmix/fcvlapband.c cvode-2.6.0/src/cvode/fcmix/fcvlapdense.c cvode-2.6.0/src/cvode/fcmix/fcvbp.c cvode-2.6.0/src/cvode/fcmix/fcvbbd.c cvode-2.6.0/src/cvode/fcmix/fcvroot.c cvode-2.6.0/src/cvode/fcmix/fcvode.h cvode-2.6.0/src/cvode/fcmix/fcvbp.h cvode-2.6.0/src/cvode/fcmix/fcvbbd.h cvode-2.6.0/src/cvode/fcmix/fcvroot.h cvode-2.6.0/examples/cvode/serial/README cvode-2.6.0/examples/cvode/serial/Makefile.in cvode-2.6.0/examples/cvode/serial/CMakeLists.txt cvode-2.6.0/examples/cvode/serial/cvAdvDiff_bnd.c cvode-2.6.0/examples/cvode/serial/cvAdvDiff_bndL.c cvode-2.6.0/examples/cvode/serial/cvAdvDiff_bndL.out cvode-2.6.0/examples/cvode/serial/cvAdvDiff_bnd.out cvode-2.6.0/examples/cvode/serial/cvDirectDemo_ls.c cvode-2.6.0/examples/cvode/serial/cvDirectDemo_ls.out cvode-2.6.0/examples/cvode/serial/cvDiurnal_kry_bp.c cvode-2.6.0/examples/cvode/serial/cvDiurnal_kry_bp.out cvode-2.6.0/examples/cvode/serial/cvDiurnal_kry.c cvode-2.6.0/examples/cvode/serial/cvDiurnal_kry.out cvode-2.6.0/examples/cvode/serial/cvKrylovDemo_ls.c cvode-2.6.0/examples/cvode/serial/cvKrylovDemo_ls.out cvode-2.6.0/examples/cvode/serial/cvKrylovDemo_prec.c cvode-2.6.0/examples/cvode/serial/cvKrylovDemo_prec.out cvode-2.6.0/examples/cvode/serial/cvRoberts_dns.c cvode-2.6.0/examples/cvode/serial/cvRoberts_dnsL.c cvode-2.6.0/examples/cvode/serial/cvRoberts_dnsL.out cvode-2.6.0/examples/cvode/serial/cvRoberts_dns.out cvode-2.6.0/examples/cvode/serial/cvRoberts_dns_uw.c cvode-2.6.0/examples/cvode/serial/cvRoberts_dns_uw.out cvode-2.6.0/examples/cvode/fcmix_serial/README cvode-2.6.0/examples/cvode/fcmix_serial/Makefile.in cvode-2.6.0/examples/cvode/fcmix_serial/CMakeLists.txt cvode-2.6.0/examples/cvode/fcmix_serial/fcvAdvDiff_bnd.f cvode-2.6.0/examples/cvode/fcmix_serial/fcvAdvDiff_bnd.out cvode-2.6.0/examples/cvode/fcmix_serial/fcvDiurnal_kry_bp.f cvode-2.6.0/examples/cvode/fcmix_serial/fcvDiurnal_kry_bp.out cvode-2.6.0/examples/cvode/fcmix_serial/fcvDiurnal_kry.f cvode-2.6.0/examples/cvode/fcmix_serial/fcvDiurnal_kry.out cvode-2.6.0/examples/cvode/fcmix_serial/fcvRoberts_dns.f cvode-2.6.0/examples/cvode/fcmix_serial/fcvRoberts_dnsL.f cvode-2.6.0/examples/cvode/fcmix_serial/fcvRoberts_dnsL.out cvode-2.6.0/examples/cvode/fcmix_serial/fcvRoberts_dns.out cvode-2.6.0/examples/cvode/parallel/README cvode-2.6.0/examples/cvode/parallel/Makefile.in cvode-2.6.0/examples/cvode/parallel/CMakeLists.txt cvode-2.6.0/examples/cvode/parallel/cvAdvDiff_non_p.c cvode-2.6.0/examples/cvode/parallel/cvAdvDiff_non_p.out cvode-2.6.0/examples/cvode/parallel/cvDiurnal_kry_bbd_p.c cvode-2.6.0/examples/cvode/parallel/cvDiurnal_kry_bbd_p.out cvode-2.6.0/examples/cvode/parallel/cvDiurnal_kry_p.c cvode-2.6.0/examples/cvode/parallel/cvDiurnal_kry_p.out cvode-2.6.0/examples/cvode/fcmix_parallel/README cvode-2.6.0/examples/cvode/fcmix_parallel/Makefile.in cvode-2.6.0/examples/cvode/fcmix_parallel/CMakeLists.txt cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_non_p.f cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_non_p.out cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_kry_bbd_p.f cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_kry_bbd_p.out cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_kry_p.f cvode-2.6.0/examples/cvode/fcmix_parallel/fcvDiag_kry_p.out + tar -xvf bng2/libsource/muparser_v2_2_4.tar.gz -C bng2/Network3 muparser_v2_2_4/._Changes.txt muparser_v2_2_4/Changes.txt muparser_v2_2_4/._Install.txt muparser_v2_2_4/Install.txt muparser_v2_2_4/._License.txt muparser_v2_2_4/License.txt muparser_v2_2_4/._Makefile.in muparser_v2_2_4/Makefile.in muparser_v2_2_4/._build muparser_v2_2_4/build/ muparser_v2_2_4/build/._autoconf muparser_v2_2_4/build/autoconf/ muparser_v2_2_4/build/._bakefiles muparser_v2_2_4/build/bakefiles/ muparser_v2_2_4/build/._makefile.mingw muparser_v2_2_4/build/makefile.mingw muparser_v2_2_4/build/._makefile.vc muparser_v2_2_4/build/makefile.vc muparser_v2_2_4/build/._msvc2013 muparser_v2_2_4/build/msvc2013/ muparser_v2_2_4/build/._obj muparser_v2_2_4/build/obj/ muparser_v2_2_4/build/msvc2013/._muparser.sln muparser_v2_2_4/build/msvc2013/muparser.sln muparser_v2_2_4/build/msvc2013/._muparser_example1.vcxproj muparser_v2_2_4/build/msvc2013/muparser_example1.vcxproj muparser_v2_2_4/build/msvc2013/._muparser_example1.vcxproj.filters muparser_v2_2_4/build/msvc2013/muparser_example1.vcxproj.filters muparser_v2_2_4/build/msvc2013/._muparser_example2.vcxproj muparser_v2_2_4/build/msvc2013/muparser_example2.vcxproj muparser_v2_2_4/build/msvc2013/._muparser_example2.vcxproj.filters muparser_v2_2_4/build/msvc2013/muparser_example2.vcxproj.filters muparser_v2_2_4/build/msvc2013/._muparser_muParser.vcxproj muparser_v2_2_4/build/msvc2013/muparser_muParser.vcxproj muparser_v2_2_4/build/msvc2013/._muparser_muParser.vcxproj.filters muparser_v2_2_4/build/msvc2013/muparser_muParser.vcxproj.filters muparser_v2_2_4/build/bakefiles/._Bakefiles.bkgen muparser_v2_2_4/build/bakefiles/Bakefiles.bkgen muparser_v2_2_4/build/bakefiles/._howto.txt muparser_v2_2_4/build/bakefiles/howto.txt muparser_v2_2_4/build/bakefiles/._muparser.bkl muparser_v2_2_4/build/bakefiles/muparser.bkl muparser_v2_2_4/build/bakefiles/._presets muparser_v2_2_4/build/bakefiles/presets/ muparser_v2_2_4/build/bakefiles/presets/._debugopt.bkl muparser_v2_2_4/build/bakefiles/presets/debugopt.bkl muparser_v2_2_4/build/bakefiles/presets/._setbuilddir.bkl muparser_v2_2_4/build/bakefiles/presets/setbuilddir.bkl muparser_v2_2_4/build/bakefiles/presets/._sharedopt.bkl muparser_v2_2_4/build/bakefiles/presets/sharedopt.bkl muparser_v2_2_4/build/bakefiles/presets/._unicodeopt.bkl muparser_v2_2_4/build/bakefiles/presets/unicodeopt.bkl muparser_v2_2_4/build/autoconf/._aclocal.m4 muparser_v2_2_4/build/autoconf/aclocal.m4 muparser_v2_2_4/build/autoconf/._acregen.sh muparser_v2_2_4/build/autoconf/acregen.sh muparser_v2_2_4/build/autoconf/._autoconf_inc.m4 muparser_v2_2_4/build/autoconf/autoconf_inc.m4 muparser_v2_2_4/build/autoconf/._bakefile-presets.m4 muparser_v2_2_4/build/autoconf/bakefile-presets.m4 muparser_v2_2_4/build/autoconf/._config.guess muparser_v2_2_4/build/autoconf/config.guess muparser_v2_2_4/build/autoconf/._config.sub muparser_v2_2_4/build/autoconf/config.sub muparser_v2_2_4/build/autoconf/._configure.ac muparser_v2_2_4/build/autoconf/configure.ac muparser_v2_2_4/build/autoconf/._install-sh muparser_v2_2_4/build/autoconf/install-sh muparser_v2_2_4/build/autoconf/._muparser.pc.in muparser_v2_2_4/build/autoconf/muparser.pc.in muparser_v2_2_4/._configure muparser_v2_2_4/configure muparser_v2_2_4/._docs muparser_v2_2_4/docs/ muparser_v2_2_4/docs/._Doxyfile muparser_v2_2_4/docs/Doxyfile muparser_v2_2_4/docs/._muparser_doc.html muparser_v2_2_4/docs/muparser_doc.html muparser_v2_2_4/._include muparser_v2_2_4/include/ muparser_v2_2_4/include/._muParser.h muparser_v2_2_4/include/muParser.h muparser_v2_2_4/include/._muParserBase.h muparser_v2_2_4/include/muParserBase.h muparser_v2_2_4/include/._muParserBytecode.h muparser_v2_2_4/include/muParserBytecode.h muparser_v2_2_4/include/._muParserCallback.h muparser_v2_2_4/include/muParserCallback.h muparser_v2_2_4/include/._muParserDef.h muparser_v2_2_4/include/muParserDef.h muparser_v2_2_4/include/._muParserDLL.h muparser_v2_2_4/include/muParserDLL.h muparser_v2_2_4/include/._muParserError.h muparser_v2_2_4/include/muParserError.h muparser_v2_2_4/include/._muParserFixes.h muparser_v2_2_4/include/muParserFixes.h muparser_v2_2_4/include/._muParserInt.h muparser_v2_2_4/include/muParserInt.h muparser_v2_2_4/include/._muParserStack.h muparser_v2_2_4/include/muParserStack.h muparser_v2_2_4/include/._muParserTemplateMagic.h muparser_v2_2_4/include/muParserTemplateMagic.h muparser_v2_2_4/include/._muParserTest.h muparser_v2_2_4/include/muParserTest.h muparser_v2_2_4/include/._muParserToken.h muparser_v2_2_4/include/muParserToken.h muparser_v2_2_4/include/._muParserTokenReader.h muparser_v2_2_4/include/muParserTokenReader.h muparser_v2_2_4/._lib muparser_v2_2_4/lib/ muparser_v2_2_4/lib/._Readme.txt muparser_v2_2_4/lib/Readme.txt muparser_v2_2_4/._samples muparser_v2_2_4/samples/ muparser_v2_2_4/samples/._example1 muparser_v2_2_4/samples/example1/ muparser_v2_2_4/samples/._example2 muparser_v2_2_4/samples/example2/ muparser_v2_2_4/samples/example2/._example2.c muparser_v2_2_4/samples/example2/example2.c muparser_v2_2_4/samples/example2/._muparser32.dll muparser_v2_2_4/samples/example2/muparser32.dll muparser_v2_2_4/samples/example2/._muparser32.lib muparser_v2_2_4/samples/example2/muparser32.lib muparser_v2_2_4/samples/example2/._muparser64.dll muparser_v2_2_4/samples/example2/muparser64.dll muparser_v2_2_4/samples/example2/._muparser64.lib muparser_v2_2_4/samples/example2/muparser64.lib muparser_v2_2_4/samples/example2/._muparserd32.dll muparser_v2_2_4/samples/example2/muparserd32.dll muparser_v2_2_4/samples/example2/._muparserd32.lib muparser_v2_2_4/samples/example2/muparserd32.lib muparser_v2_2_4/samples/example2/._muparserd64.dll muparser_v2_2_4/samples/example2/muparserd64.dll muparser_v2_2_4/samples/example2/._muparserd64.lib muparser_v2_2_4/samples/example2/muparserd64.lib muparser_v2_2_4/samples/example2/._Readme.txt muparser_v2_2_4/samples/example2/Readme.txt muparser_v2_2_4/samples/example1/._example1.cpp muparser_v2_2_4/samples/example1/example1.cpp muparser_v2_2_4/._src muparser_v2_2_4/src/ muparser_v2_2_4/src/._muParser.cpp muparser_v2_2_4/src/muParser.cpp muparser_v2_2_4/src/._muParserBase.cpp muparser_v2_2_4/src/muParserBase.cpp muparser_v2_2_4/src/._muParserBytecode.cpp muparser_v2_2_4/src/muParserBytecode.cpp muparser_v2_2_4/src/._muParserCallback.cpp muparser_v2_2_4/src/muParserCallback.cpp muparser_v2_2_4/src/._muParserDLL.cpp muparser_v2_2_4/src/muParserDLL.cpp muparser_v2_2_4/src/._muParserError.cpp muparser_v2_2_4/src/muParserError.cpp muparser_v2_2_4/src/._muParserInt.cpp muparser_v2_2_4/src/muParserInt.cpp muparser_v2_2_4/src/._muParserTest.cpp muparser_v2_2_4/src/muParserTest.cpp muparser_v2_2_4/src/._muParserTokenReader.cpp muparser_v2_2_4/src/muParserTokenReader.cpp Patch #0 (bionetgen-fix_linker.patch): + echo 'Patch #0 (bionetgen-fix_linker.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .backup --fuzz=0 patching file bng2/Network3/CMakeLists.txt Patch #1 (bionetgen-fix_cmake_minimum.patch): + echo 'Patch #1 (bionetgen-fix_cmake_minimum.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .backup --fuzz=0 patching file bng2/Network3/CMakeLists.txt patching file bng2/Network3/cvode-2.6.0/CMakeLists.txt Patch #2 (bionetgen-cmake-c99.patch): + echo 'Patch #2 (bionetgen-cmake-c99.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .c99 --fuzz=0 patching file bng2/Network3/cvode-2.6.0/config/SundialsFortran.cmake + rm -f bng2/libsource/cvode-2.6.0.tar.gz bng2/libsource/muparser_v2_2_4.tar.gz ~/build/BUILD/bionetgen-2.9.0 + popd + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.SGsckK + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS ~/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 ~/build/BUILD/bionetgen-2.9.0 + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd bionetgen-2.9.0 + pushd bionetgen-BioNetGen-2.9.0/bng2/Network3 + cd muparser_v2_2_4 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']' ++ find . -type f -name configure -print + for file in $(find . -type f -name configure -print) + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + '[' 1 = 1 ']' +++ dirname ./configure ++ find . -name config.guess -o -name config.sub + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./build/autoconf/config.guess + '[' -f /usr/lib/rpm/redhat/config.guess ']' + /usr/bin/rm -f ./build/autoconf/config.guess ++ basename ./build/autoconf/config.guess + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./build/autoconf/config.guess '/usr/lib/rpm/redhat/config.guess' -> './build/autoconf/config.guess' + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./build/autoconf/config.sub + '[' -f /usr/lib/rpm/redhat/config.sub ']' + /usr/bin/rm -f ./build/autoconf/config.sub ++ basename ./build/autoconf/config.sub + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./build/autoconf/config.sub '/usr/lib/rpm/redhat/config.sub' -> './build/autoconf/config.sub' + '[' 1 = 1 ']' + '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']' ++ find . -name ltmain.sh ++ grep -q runstatedir=DIR ./configure + ./configure --build=ppc64le-redhat-linux-gnu --host=ppc64le-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info --enable-shared=no --enable-static=yes --enable-samples=no configure: WARNING: unrecognized options: --enable-static checking build system type... powerpc64le-redhat-linux-gnu checking host system type... powerpc64le-redhat-linux-gnu checking target system type... powerpc64le-redhat-linux-gnu checking for gawk... gawk checking for a BSD-compatible install... /usr/bin/install -c checking whether ln -s works... yes checking for ppc64le-redhat-linux-gnu-ranlib... no checking for ranlib... ranlib checking for ppc64le-redhat-linux-gnu-gcc... gcc 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 we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking how to run the C++ preprocessor... g++ -E checking for the --enable-debug option... no checking for the --enable-shared option... no checking for the --enable-samples option... no checking whether we are using the Intel C compiler... no checking whether we are using the Intel C++ compiler... no checking whether we are using the Sun C++ compiler... no checking for ppc64le-redhat-linux-gnu-ranlib... ranlib checking whether ln -s works... yes checking whether make sets $(MAKE)... yes checking for ppc64le-redhat-linux-gnu-ar... no checking for ar... ar checking for ppc64le-redhat-linux-gnu-strip... no checking for strip... strip checking for ppc64le-redhat-linux-gnu-nm... no checking for nm... nm checking for command to install directories... /usr/bin/install -c -d checking if make is GNU make... egrep: warning: egrep is obsolescent; using grep -E yes checking for dependency tracking method... disabled configure: creating ./config.status config.status: creating Makefile config.status: creating build/autoconf/muparser.pc ---------------------------------------------------------------- Configuration for muparser 2.2.4 successfully completed. Summary of main configuration settings for muparser: - STATIC mode - RELEASE build - SAMPLES disabled Now, just run make. ---------------------------------------------------------------- configure: WARNING: unrecognized options: --enable-static + /usr/bin/make -O -j8 V=1 VERBOSE=1 g++ -c -o muParser_lib_muParserDLL.o -DNDEBUG -I./include -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ./src/muParserDLL.cpp g++ -c -o muParser_lib_muParserCallback.o -DNDEBUG -I./include -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ./src/muParserCallback.cpp g++ -c -o muParser_lib_muParser.o -DNDEBUG -I./include -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ./src/muParser.cpp In file included from ./include/muParserStack.h:35, from ./include/muParserBase.h:39, from ./include/muParser.h:32, from ./src/muParser.cpp:26: ./include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ./include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ./include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ g++ -c -o muParser_lib_muParserError.o -DNDEBUG -I./include -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ./src/muParserError.cpp g++ -c -o muParser_lib_muParserInt.o -DNDEBUG -I./include -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ./src/muParserInt.cpp In file included from ./include/muParserStack.h:35, from ./include/muParserBase.h:39, from ./include/muParserInt.h:29, from ./src/muParserInt.cpp:26: ./include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ./include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ./include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ g++ -c -o muParser_lib_muParserBytecode.o -DNDEBUG -I./include -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ./src/muParserBytecode.cpp In file included from ./include/muParserBytecode.h:35, from ./src/muParserBytecode.cpp:26: ./include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ./include/muParserError.h:34, from ./include/muParserBytecode.h:34: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ./src/muParserBytecode.cpp: In member function ‘void mu::ParserByteCode::AddOp(mu::ECmdCode)’: ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmLE’ not handled in switch [-Wswitch] 213 | switch(a_Oprt) | ^ ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmGE’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmNEQ’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmEQ’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmLT’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmGT’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmLAND’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmLOR’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmASSIGN’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmBO’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmBC’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmIF’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmELSE’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmENDIF’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmARG_SEP’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVAR’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVAL’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVARPOW2’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVARPOW3’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVARPOW4’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmVARMUL’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmPOW2’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmFUNC’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmFUNC_STR’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmFUNC_BULK’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmSTRING’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmOPRT_BIN’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmOPRT_POSTFIX’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmOPRT_INFIX’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmEND’ not handled in switch [-Wswitch] ./src/muParserBytecode.cpp:213:15: warning: enumeration value ‘cmUNKNOWN’ not handled in switch [-Wswitch] g++ -c -o muParser_lib_muParserTokenReader.o -DNDEBUG -I./include -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ./src/muParserTokenReader.cpp In file included from ./include/muParserTokenReader.h:39, from ./src/muParserTokenReader.cpp:32: ./include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ./include/muParserTokenReader.h:34: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from ./src/muParserTokenReader.cpp:33: ./include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ./src/muParserTokenReader.cpp: In member function ‘mu::ParserTokenReader* mu::ParserTokenReader::Clone(mu::ParserBase*) const’: ./src/muParserTokenReader.cpp:150:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 150 | std::auto_ptr ptr(new ParserTokenReader(*this)); | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ g++ -c -o muParser_lib_muParserBase.o -DNDEBUG -I./include -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ./src/muParserBase.cpp In file included from ./include/muParserStack.h:35, from ./include/muParserBase.h:39, from ./src/muParserBase.cpp:26: ./include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ./include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ./include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ./src/muParserBase.cpp: In member function ‘void mu::ParserBase::ApplyFunc(mu::ParserStack > >&, mu::ParserStack > >&, int) const’: ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmLE’ not handled in switch [-Wswitch] 838 | switch(funTok.GetCode()) | ^ ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmGE’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmNEQ’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmEQ’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmLT’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmGT’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmADD’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmSUB’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmMUL’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmDIV’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmPOW’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmLAND’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmLOR’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmASSIGN’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmBO’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmBC’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmIF’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmELSE’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmENDIF’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmARG_SEP’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVAR’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVAL’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVARPOW2’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVARPOW3’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVARPOW4’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmVARMUL’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmPOW2’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmSTRING’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmEND’ not handled in switch [-Wswitch] ./src/muParserBase.cpp:838:11: warning: enumeration value ‘cmUNKNOWN’ not handled in switch [-Wswitch] g++ -c -o muParser_lib_muParserTest.o -DNDEBUG -I./include -O2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ./src/muParserTest.cpp ./src/muParserTest.cpp:1387: warning: ignoring ‘#pragma warning ’ [-Wunknown-pragmas] 1387 | #pragma warning(push) ./src/muParserTest.cpp:1388: warning: ignoring ‘#pragma warning ’ [-Wunknown-pragmas] 1388 | #pragma warning(disable:4127) ./src/muParserTest.cpp:1390: warning: ignoring ‘#pragma warning ’ [-Wunknown-pragmas] 1390 | #pragma warning(pop) In file included from ./include/muParserStack.h:35, from ./include/muParserBase.h:39, from ./include/muParser.h:32, from ./include/muParserTest.h:32, from ./src/muParserTest.cpp:26: ./include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ./include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ./include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ./src/muParserTest.cpp: In member function ‘int mu::Test::ParserTester::EqnTest(const mu::string_type&, double, bool)’: ./src/muParserTest.cpp:1261:14: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 1261 | std::auto_ptr p1; | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ rm -f lib/libmuparser.a ar rcu lib/libmuparser.a muParser_lib_muParser.o muParser_lib_muParserBase.o muParser_lib_muParserBytecode.o muParser_lib_muParserCallback.o muParser_lib_muParserDLL.o muParser_lib_muParserError.o muParser_lib_muParserInt.o muParser_lib_muParserTest.o muParser_lib_muParserTokenReader.o ranlib lib/libmuparser.a + cd ../ + make -j1 -C src/util/mathutils make: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/mathutils' gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o allocate.o allocate.c allocate.c: In function ‘ALLOC_MATRIX’: allocate.c:9:20: warning: unused variable ‘j’ [-Wunused-variable] 9 | register int i,j; | ^ allocate.c: In function ‘IALLOC_MATRIX’: allocate.c:100:20: warning: unused variable ‘j’ [-Wunused-variable] 100 | register int i,j; | ^ allocate.c: In function ‘ZALLOC_MATRIX’: allocate.c:191:20: warning: unused variable ‘j’ [-Wunused-variable] 191 | register int i,j; | ^ In file included from allocate.c:1: mathutils.h: At top level: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a allocate.o ar: creating libmathutils.a a - allocate.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o cabs.o cabs.c In file included from cabs.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a cabs.o a - cabs.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o cadd.o cadd.c In file included from cadd.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a cadd.o a - cadd.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o cconj.o cconj.c In file included from cconj.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a cconj.o a - cconj.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o cmult.o cmult.c In file included from cmult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a cmult.o a - cmult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o complex_zero.o complex_zero.c In file included from complex_zero.c:2: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a complex_zero.o a - complex_zero.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o copy_vector.o copy_vector.c In file included from copy_vector.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a copy_vector.o a - copy_vector.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o cprob.o cprob.c In file included from cprob.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a cprob.o a - cprob.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o csub.o csub.c In file included from csub.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a csub.o a - csub.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o dotp.o dotp.c In file included from dotp.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a dotp.o a - dotp.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o eigensystem.o eigensystem.c In file included from eigensystem.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a eigensystem.o a - eigensystem.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o expi.o expi.c In file included from expi.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a expi.o a - expi.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o gram_schmidt.o gram_schmidt.c In file included from gram_schmidt.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a gram_schmidt.o a - gram_schmidt.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o herm_matrix_mult.o herm_matrix_mult.c In file included from herm_matrix_mult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a herm_matrix_mult.o a - herm_matrix_mult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o herm_matrix_vector_mult.o herm_matrix_vector_mult.c In file included from herm_matrix_vector_mult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a herm_matrix_vector_mult.o a - herm_matrix_vector_mult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o icmult.o icmult.c In file included from icmult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a icmult.o a - icmult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o init.o init.c In file included from init.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a init.o a - init.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o integration.o integration.c In file included from integration.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a integration.o a - integration.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o linsolve.o linsolve.c linsolve.c: In function ‘LINSOLVE’: linsolve.c:16:20: warning: unused variable ‘j’ [-Wunused-variable] 16 | register int i,j; | ^ linsolve.c:16:18: warning: unused variable ‘i’ [-Wunused-variable] 16 | register int i,j; | ^ In file included from linsolve.c:1: mathutils.h: At top level: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a linsolve.o a - linsolve.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o matherr.o matherr.c In file included from matherr.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a matherr.o a - matherr.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o matrix_add.o matrix_add.c In file included from matrix_add.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a matrix_add.o a - matrix_add.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o matrix_elt.o matrix_elt.c In file included from matrix_elt.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a matrix_elt.o a - matrix_elt.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o matrix_mult.o matrix_mult.c In file included from matrix_mult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a matrix_mult.o a - matrix_mult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o matrix_sub.o matrix_sub.c In file included from matrix_sub.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a matrix_sub.o a - matrix_sub.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o matrix_transpose.o matrix_transpose.c In file included from matrix_transpose.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a matrix_transpose.o a - matrix_transpose.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o matrix_vector_mult.o matrix_vector_mult.c In file included from matrix_vector_mult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a matrix_vector_mult.o a - matrix_vector_mult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o matrixexp.o matrixexp.c In file included from matrixexp.c:5: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a matrixexp.o a - matrixexp.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o minimum.o minimum.c minimum.c: In function ‘MIN_BRACKET’: minimum.c:17:26: warning: unused variable ‘dum’ [-Wunused-variable] 17 | double ulim,u,r,q,fu,dum; | ^~~ In file included from minimum.c:3: mathutils.h: At top level: mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a minimum.o a - minimum.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o norm.o norm.c norm.c: In function ‘NORM’: norm.c:14:12: warning: unused variable ‘norm’ [-Wunused-variable] 14 | double norm; | ^~~~ In file included from norm.c:1: mathutils.h: At top level: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a norm.o a - norm.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o normsq.o normsq.c normsq.c: In function ‘NORMSQ’: normsq.c:13:12: warning: unused variable ‘norm’ [-Wunused-variable] 13 | double norm; | ^~~~ In file included from normsq.c:1: mathutils.h: At top level: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a normsq.o a - normsq.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o project.o project.c In file included from project.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a project.o a - project.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o random.o random.c In file included from random.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a random.o a - random.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o rcmult.o rcmult.c In file included from rcmult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a rcmult.o a - rcmult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o rect_transpose.o rect_transpose.c rect_transpose.c: In function ‘RECT_TRANSPOSE’: rect_transpose.c:5:26: warning: unused variable ‘Atptr’ [-Wunused-variable] 5 | double **At, *Aptr, *Atptr; | ^~~~~ rect_transpose.c:5:19: warning: unused variable ‘Aptr’ [-Wunused-variable] 5 | double **At, *Aptr, *Atptr; | ^~~~ In file included from rect_transpose.c:1: mathutils.h: At top level: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a rect_transpose.o a - rect_transpose.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o roots.o roots.c In file included from roots.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ roots.c: In function ‘ROOT_FIND’: roots.c:55:13: warning: ‘e’ may be used uninitialized [-Wmaybe-uninitialized] 55 | if (fabs(e) >= tol1 && fabs(fa) > fabs(fb)) { | ^~~~~~~ roots.c:32:29: note: ‘e’ was declared here 32 | double a=x1,b=x2,c=x2,d,e,min1,min2; | ^ ar -rv libmathutils.a roots.o a - roots.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o runge-kutta.o runge-kutta.c In file included from runge-kutta.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a runge-kutta.o a - runge-kutta.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o scale_vector.o scale_vector.c In file included from scale_vector.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a scale_vector.o a - scale_vector.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o splines.o splines.c In file included from splines.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a splines.o a - splines.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o sum_vector.o sum_vector.c In file included from sum_vector.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a sum_vector.o a - sum_vector.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o svd.o svd.c In file included from svd.c:2: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ ar -rv libmathutils.a svd.o a - svd.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o sym_linsolve.o sym_linsolve.c In file included from sym_linsolve.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a sym_linsolve.o a - sym_linsolve.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o sym_matrix_mult.o sym_matrix_mult.c In file included from sym_matrix_mult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a sym_matrix_mult.o a - sym_matrix_mult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o sym_matrix_vector_mult.o sym_matrix_vector_mult.c In file included from sym_matrix_vector_mult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a sym_matrix_vector_mult.o a - sym_matrix_vector_mult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o sympos_linsolve.o sympos_linsolve.c In file included from sympos_linsolve.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a sympos_linsolve.o a - sympos_linsolve.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o vector_add.o vector_add.c In file included from vector_add.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a vector_add.o a - vector_add.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o vector_dist.o vector_dist.c In file included from vector_dist.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a vector_dist.o a - vector_dist.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zcopy_vector.o zcopy_vector.c In file included from zcopy_vector.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zcopy_vector.o a - zcopy_vector.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zdotc.o zdotc.c In file included from zdotc.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zdotc.o a - zdotc.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zdotu.o zdotu.c In file included from zdotu.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zdotu.o a - zdotu.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zmatrix_mult.o zmatrix_mult.c In file included from zmatrix_mult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zmatrix_mult.o a - zmatrix_mult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zmatrix_transpose.o zmatrix_transpose.c In file included from zmatrix_transpose.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zmatrix_transpose.o a - zmatrix_transpose.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zmatrix_vector_mult.o zmatrix_vector_mult.c In file included from zmatrix_vector_mult.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zmatrix_vector_mult.o a - zmatrix_vector_mult.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o znorm.o znorm.c In file included from znorm.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a znorm.o a - znorm.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o znormsq.o znormsq.c In file included from znormsq.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a znormsq.o a - znormsq.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zrscale_vector.o zrscale_vector.c In file included from zrscale_vector.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zrscale_vector.o a - zrscale_vector.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zscale_vector.o zscale_vector.c In file included from zscale_vector.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zscale_vector.o a - zscale_vector.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zsum_vector.o zsum_vector.c In file included from zsum_vector.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zsum_vector.o a - zsum_vector.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zsym_linsolve.o zsym_linsolve.c In file included from zsym_linsolve.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zsym_linsolve.o a - zsym_linsolve.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zmatrix_add.o zmatrix_add.c In file included from zmatrix_add.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zmatrix_add.o a - zmatrix_add.o gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -c -o zmatrix_sub.o zmatrix_sub.c In file included from zmatrix_sub.c:1: mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ ar -rv libmathutils.a zmatrix_sub.o a - zmatrix_sub.o ranlib ./libmathutils.a make: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/mathutils' ++ echo '-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection' ++ sed -e s/-Werror=format-security/-Wno-error=format-security/g + SETOPT_FLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection' + export 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection' + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection' + mkdir -p cvode-2.6.0/build + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + /usr/bin/cmake -S . -B cvode-2.6.0/build -DCMAKE_C_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_CXX_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_Fortran_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON -DCMAKE_INSTALL_DO_STRIP:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=/usr -DINCLUDE_INSTALL_DIR:PATH=/usr/include -DLIB_INSTALL_DIR:PATH=/usr/lib64 -DSYSCONF_INSTALL_DIR:PATH=/etc -DSHARE_INSTALL_PREFIX:PATH=/usr/share -DLIB_SUFFIX=64 -DBUILD_SHARED_LIBS:BOOL=ON -S cvode-2.6.0 -B cvode-2.6.0/build '-DCMAKE_MODULE_LINKER_FLAGS:STRING=-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' -DCMAKE_INSTALL_PREFIX=/usr -DEXAMPLES_ENABLE=OFF -DEXAMPLES_INSTALL=OFF -DBUILD_SHARED_LIBS:BOOL=OFF -DBUILD_STATIC_LIBS:BOOL=ON -DMPI_ENABLE:BOOL=OFF -DFCMIX_ENABLE:BOOL=ON CMake Warning: Ignoring extra path from command line: "/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3" -- The C compiler identification is GNU 14.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- The Fortran compiler identification is GNU 14.2.1 -- Searching for a Fortran compiler... /usr/bin/gfortran CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT): cmake_minimum_required() should be called prior to this top-level project() call. Please see the cmake-commands(7) manual for usage documentation of both commands. This warning is for project developers. Use -Wno-dev to suppress it. -- Trying to compile and link a simple Fortran program... OK CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT): cmake_minimum_required() should be called prior to this top-level project() call. Please see the cmake-commands(7) manual for usage documentation of both commands. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) in /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt: No cmake_minimum_required command is present. A line of code such as cmake_minimum_required(VERSION 3.30) should be added at the top of the file. The version specified may be lower if you wish to support older CMake versions for this project. For more information run "cmake --help-policy CMP0000". This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT): cmake_minimum_required() should be called prior to this top-level project() call. Please see the cmake-commands(7) manual for usage documentation of both commands. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) in /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt: No cmake_minimum_required command is present. A line of code such as cmake_minimum_required(VERSION 3.30) should be added at the top of the file. The version specified may be lower if you wish to support older CMake versions for this project. For more information run "cmake --help-policy CMP0000". This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT): cmake_minimum_required() should be called prior to this top-level project() call. Please see the cmake-commands(7) manual for usage documentation of both commands. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) in /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt: No cmake_minimum_required command is present. A line of code such as cmake_minimum_required(VERSION 3.30) should be added at the top of the file. The version specified may be lower if you wish to support older CMake versions for this project. For more information run "cmake --help-policy CMP0000". This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt:1 (PROJECT): cmake_minimum_required() should be called prior to this top-level project() call. Please see the cmake-commands(7) manual for usage documentation of both commands. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) in /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/FortranTest/CMakeLists.txt: No cmake_minimum_required command is present. A line of code such as cmake_minimum_required(VERSION 3.30) should be added at the top of the file. The version specified may be lower if you wish to support older CMake versions for this project. For more information run "cmake --help-policy CMP0000". This warning is for project developers. Use -Wno-dev to suppress it. -- Determining Fortran name-mangling scheme... OK -- Added NVECTOR_SERIAL module -- Added CVODE module -- Added CVODE FCMIX module -- Configuring done (2.4s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_CXX_FLAGS_RELEASE CMAKE_INSTALL_DO_STRIP CMAKE_MODULE_LINKER_FLAGS INCLUDE_INSTALL_DIR LIB_INSTALL_DIR LIB_SUFFIX SHARE_INSTALL_PREFIX SYSCONF_INSTALL_DIR -- Build files have been written to: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build + /usr/bin/cmake --build cvode-2.6.0/build -j8 --verbose Change Dir: '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' Run Build Command(s): /usr/bin/cmake -E env VERBOSE=1 /usr/bin/gmake -f Makefile -j8 /usr/bin/cmake -S/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 -B/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/CMakeFiles /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build//CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' /usr/bin/gmake -f src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/build.make src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/depend /usr/bin/gmake -f src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/build.make src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/depend /usr/bin/gmake -f src/cvode/CMakeFiles/sundials_cvode_static.dir/build.make src/cvode/CMakeFiles/sundials_cvode_static.dir/depend /usr/bin/gmake -f src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/build.make src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/DependInfo.cmake "--color=" gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/DependInfo.cmake "--color=" gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/DependInfo.cmake "--color=" gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0 /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/CMakeFiles/sundials_cvode_static.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' /usr/bin/gmake -f src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/build.make src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/build gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' /usr/bin/gmake -f src/cvode/CMakeFiles/sundials_cvode_static.dir/build.make src/cvode/CMakeFiles/sundials_cvode_static.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' /usr/bin/gmake -f src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/build.make src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/build /usr/bin/gmake -f src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/build.make src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/build gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' [ 5%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o [ 5%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvewt.c [ 8%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvband.c cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvbbd.c [ 13%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o [ 13%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode.c cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvdense.c [ 16%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o [ 18%] Building C object src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvbp.c [ 21%] Building C object src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o -MF CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o.d -o CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/nvector_serial.c cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/nvec_ser/CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o -MF CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o.d -o CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/fnvector_serial.c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvdense.c: In function ‘fcvdensesetjac_’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvdense.c:48:12: warning: variable ‘cv_mem’ set but not used [-Wunused-but-set-variable] 48 | CVodeMem cv_mem; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvband.c: In function ‘fcvbandsetjac_’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvband.c:48:12: warning: variable ‘cv_mem’ set but not used [-Wunused-but-set-variable] 48 | CVodeMem cv_mem; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvewt.c: In function ‘fcvewtset_’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvewt.c:46:12: warning: variable ‘cv_mem’ set but not used [-Wunused-but-set-variable] 46 | CVodeMem cv_mem; | ^~~~~~ [ 24%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvjtimes.c [ 27%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_io.c [ 29%] Building C object src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/nvec_ser/. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o -MF CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o.d -o CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_math.c [ 32%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvode.c [ 35%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvpreco.c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvjtimes.c: In function ‘fcvspilssetjac_’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvjtimes.c:52:12: warning: variable ‘cv_mem’ set but not used [-Wunused-but-set-variable] 52 | CVodeMem cv_mem; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvpreco.c: In function ‘fcvspilssetprec_’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvpreco.c:59:12: warning: variable ‘cv_mem’ set but not used [-Wunused-but-set-variable] 59 | CVodeMem cv_mem; | ^~~~~~ [ 37%] Linking C static library libsundials_fnvecserial.a cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/cmake -P CMakeFiles/sundials_fnvecserial_static.dir/cmake_clean_target.cmake cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/cmake -E cmake_link_script CMakeFiles/sundials_fnvecserial_static.dir/link.txt --verbose=1 [ 40%] Building C object src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/.. -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/fcmix/CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o -MF CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o.d -o CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvroot.c [ 43%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_direct.c /usr/bin/ar qc libsundials_fnvecserial.a CMakeFiles/sundials_fnvecserial_static.dir/fnvector_serial.c.o [ 45%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_band.c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvroot.c: In function ‘fcvrootinit_’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/fcmix/fcvroot.c:44:12: warning: variable ‘cv_mem’ set but not used [-Wunused-but-set-variable] 44 | CVodeMem cv_mem; | ^~~~~~ /usr/bin/ranlib libsundials_fnvecserial.a [ 48%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_dense.c [ 51%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_diag.c [ 54%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_spils.c [ 56%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_spbcgs.c [ 59%] Linking C static library libsundials_nvecserial.a cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/cmake -P CMakeFiles/sundials_nvecserial_static.dir/cmake_clean_target.cmake [ 62%] Linking C static library libsundials_fcvode.a cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/cmake -P CMakeFiles/sundials_fcvode_static.dir/cmake_clean_target.cmake cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/nvec_ser && /usr/bin/cmake -E cmake_link_script CMakeFiles/sundials_nvecserial_static.dir/link.txt --verbose=1 [ 64%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_spgmr.c cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode/fcmix && /usr/bin/cmake -E cmake_link_script CMakeFiles/sundials_fcvode_static.dir/link.txt --verbose=1 /usr/bin/ar qc libsundials_nvecserial.a CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.o CMakeFiles/sundials_nvecserial_static.dir/__/sundials/sundials_math.c.o /usr/bin/ar qc libsundials_fcvode.a CMakeFiles/sundials_fcvode_static.dir/fcvband.c.o CMakeFiles/sundials_fcvode_static.dir/fcvbbd.c.o CMakeFiles/sundials_fcvode_static.dir/fcvbp.c.o CMakeFiles/sundials_fcvode_static.dir/fcvdense.c.o CMakeFiles/sundials_fcvode_static.dir/fcvewt.c.o CMakeFiles/sundials_fcvode_static.dir/fcvjtimes.c.o CMakeFiles/sundials_fcvode_static.dir/fcvode.c.o CMakeFiles/sundials_fcvode_static.dir/fcvpreco.c.o CMakeFiles/sundials_fcvode_static.dir/fcvroot.c.o [ 67%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_sptfqmr.c [ 70%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_bandpre.c [ 72%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o -MF CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o.d -o CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/cvode_bbdpre.c [ 75%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_nvector.c [ 78%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_math.c [ 81%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_direct.c [ 83%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_band.c [ 86%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_dense.c [ 89%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_iterative.c [ 91%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_spbcgs.c [ 94%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_spgmr.c [ 97%] Building C object src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/gcc -DBUILD_SUNDIALS_LIBRARY -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/. -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/cvode/../sundials -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -MD -MT src/cvode/CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o -MF CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o.d -o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_sptfqmr.c [100%] Linking C static library libsundials_cvode.a cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/cmake -P CMakeFiles/sundials_cvode_static.dir/cmake_clean_target.cmake cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/src/cvode && /usr/bin/cmake -E cmake_link_script CMakeFiles/sundials_cvode_static.dir/link.txt --verbose=1 /usr/bin/ar qc libsundials_cvode.a CMakeFiles/sundials_cvode_static.dir/cvode.c.o CMakeFiles/sundials_cvode_static.dir/cvode_io.c.o CMakeFiles/sundials_cvode_static.dir/cvode_direct.c.o CMakeFiles/sundials_cvode_static.dir/cvode_band.c.o CMakeFiles/sundials_cvode_static.dir/cvode_dense.c.o CMakeFiles/sundials_cvode_static.dir/cvode_diag.c.o CMakeFiles/sundials_cvode_static.dir/cvode_spils.c.o CMakeFiles/sundials_cvode_static.dir/cvode_spbcgs.c.o CMakeFiles/sundials_cvode_static.dir/cvode_spgmr.c.o CMakeFiles/sundials_cvode_static.dir/cvode_sptfqmr.c.o CMakeFiles/sundials_cvode_static.dir/cvode_bandpre.c.o CMakeFiles/sundials_cvode_static.dir/cvode_bbdpre.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_nvector.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_math.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_direct.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_band.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_dense.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_iterative.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spbcgs.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_spgmr.c.o CMakeFiles/sundials_cvode_static.dir/__/sundials/sundials_sptfqmr.c.o /usr/bin/ranlib libsundials_nvecserial.a /usr/bin/ranlib libsundials_fcvode.a /usr/bin/ranlib libsundials_cvode.a gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_spgmr.c: In function ‘SpgmrFree’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_spgmr.c:439:29: warning: variable ‘yg’ set but not used [-Wunused-but-set-variable] 439 | realtype **Hes, *givens, *yg; | ^~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/src/sundials/sundials_spgmr.c:439:20: warning: variable ‘givens’ set but not used [-Wunused-but-set-variable] 439 | realtype **Hes, *givens, *yg; | ^~~~~~ [100%] Built target sundials_fnvecserial_static gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' [100%] Built target sundials_nvecserial_static gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' [100%] Built target sundials_fcvode_static [100%] Built target sundials_cvode_static gmake[1]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/cvode-2.6.0/build/CMakeFiles 0 ++ sed -e s/-Werror=format-security/-Wno-error=format-security/g ++ echo '-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection' + SETOPT_FLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection' + export 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../muparser_v2_2_4/include' + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../muparser_v2_2_4/include' + export 'CXXFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser' + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser' + mkdir -p build + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../muparser_v2_2_4/include' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + /usr/bin/cmake -S . -B build -DCMAKE_C_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_CXX_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_Fortran_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON -DCMAKE_INSTALL_DO_STRIP:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=/usr -DINCLUDE_INSTALL_DIR:PATH=/usr/include -DLIB_INSTALL_DIR:PATH=/usr/lib64 -DSYSCONF_INSTALL_DIR:PATH=/etc -DSHARE_INSTALL_PREFIX:PATH=/usr/share -DLIB_SUFFIX=64 -DBUILD_SHARED_LIBS:BOOL=ON -DCMAKE_SKIP_RPATH:BOOL=YES -DCMAKE_SKIP_INSTALL_RPATH:BOOL=YES -DBUILD_SHARED_LIBS:BOOL=OFF -DBUILD_STATIC_LIBS:BOOL=ON -- The C compiler identification is GNU 14.2.1 -- The CXX compiler identification is GNU 14.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Configuring done (1.1s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: BUILD_SHARED_LIBS BUILD_STATIC_LIBS CMAKE_CXX_FLAGS_RELEASE CMAKE_C_FLAGS_RELEASE CMAKE_Fortran_FLAGS_RELEASE CMAKE_INSTALL_DO_STRIP CMAKE_SKIP_INSTALL_RPATH INCLUDE_INSTALL_DIR LIB_INSTALL_DIR LIB_SUFFIX SHARE_INSTALL_PREFIX SYSCONF_INSTALL_DIR -- Build files have been written to: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build + /usr/bin/cmake --build build -j8 --verbose Change Dir: '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build' Run Build Command(s): /usr/bin/cmake -E env VERBOSE=1 /usr/bin/gmake -f Makefile -j8 /usr/bin/cmake -S/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -B/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build/CMakeFiles /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build//CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build' /usr/bin/gmake -f CMakeFiles/run_network.dir/build.make CMakeFiles/run_network.dir/depend gmake[2]: Entering directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build' cd /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build/CMakeFiles/run_network.dir/DependInfo.cmake "--color=" gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build' /usr/bin/gmake -f CMakeFiles/run_network.dir/build.make CMakeFiles/run_network.dir/build gmake[2]: Entering directory 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-I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base 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-I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta 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-I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/pla/PLA.cpp.o -MF CMakeFiles/run_network.dir/src/pla/PLA.cpp.o.d -o CMakeFiles/run_network.dir/src/pla/PLA.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/PLA.cpp In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/function.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/function.cpp:8: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:36, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network3.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:46: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:36, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network3.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network3.cpp:8: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:36, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:54: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp: In function ‘int main(int, char**)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:95:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 95 | register int i/*, j*/; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:735:84: warning: variable ‘n_deriv_calls_last’ set but not used [-Wunused-but-set-variable] 735 | long int /*n_steps = 0, n_steps_last = 0,*/ n_rate_calls_last = 0, n_deriv_calls_last = 0; | ^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void read_functions_array(const char*, Elt_array*&, std::map, double*>&, std::map, int>, std::map, int>, double*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:440:13: warning: variable ‘index’ set but not used [-Wunused-but-set-variable] 440 | int index; | ^~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘Rxn* new_Rxn(int, int, int, int*, int*, int, int, int*, double, Elt_array*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:1132:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 1132 | register int i; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int* read_indices_Rxn(char*, int*, Elt_array*, int)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:1543:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 1543 | register int i; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void print_Rxn_array(FILE*, Rxn_array*, Elt_array*, Elt_array*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:1925:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 1925 | register int i; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:1927:15: warning: variable ‘sarr’ set but not used [-Wunused-but-set-variable] 1927 | Elt **sarr, **rarr; | ^~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int n_species_active()’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2068:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 2068 | register int i; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int get_conc_network(double*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2088:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 2088 | register int i; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int set_conc_network(double*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2110:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 2110 | register int i, n_species; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2110:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 2110 | register int i, n_species; | ^~~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int rxn_rates_network(double*, int)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2729:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 2729 | register int i; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void derivs_network(double, double*, double*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2782:15: warning: unused variable ‘rarray’ [-Wunused-variable] 2782 | Rxn **rarray, *rxn; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2783:15: warning: variable ‘rates’ set but not used [-Wunused-but-set-variable] 2783 | Elt** rates; | ^~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int print_derivs_network(FILE*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2957:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 2957 | register int i/*,j*/; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int print_derivs_species_network(FILE*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2990:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 2990 | register int i/*,j*/; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int print_rates_network(FILE*, int)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3019:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3019 | register int i; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void sparse_jac_matlab(FILE*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3198:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3198 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3198:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3198 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3198:28: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3198 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3198:31: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3198 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3204:15: warning: variable ‘rates’ set but not used [-Wunused-but-set-variable] 3204 | Elt** rates; | ^~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void CVjac_network(long int, DlsMat, realtype, N_Vector, N_Vector, void*, N_Vector, N_Vector, N_Vector)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3272:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3272 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3272:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3272 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3272:28: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3272 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3272:31: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3272 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3277:15: warning: variable ‘rates’ set but not used [-Wunused-but-set-variable] 3277 | Elt** rates; | ^~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int CVjtimes(N_Vector, N_Vector, realtype, N_Vector, N_Vector, void*, N_Vector)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3333:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3333 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3333:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3333 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3333:28: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3333 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3333:31: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 3333 | register int i, j, r, n; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3338:15: warning: variable ‘rates’ set but not used [-Wunused-but-set-variable] 3338 | Elt** rates; | ^~~~~ [ 18%] Building CXX object CMakeFiles/run_network.dir/src/util/conversion.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/util/conversion.cpp.o -MF CMakeFiles/run_network.dir/src/util/conversion.cpp.o.d -o CMakeFiles/run_network.dir/src/util/conversion.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/conversion.cpp /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int print_flux_network(FILE*, double, int)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4037:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 4037 | register int i; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void print_rxn_update_list(FILE*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4376:29: warning: variable ‘rxn’ set but not used [-Wunused-but-set-variable] 4376 | Rxn /* **rarray,*/ *rxn; | ^~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void print_as_reactant_list(FILE*)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4410:13: warning: variable ‘offset’ set but not used [-Wunused-but-set-variable] 4410 | int offset; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int create_update_lists()’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4757:37: warning: unused variable ‘pp’ [-Wunused-variable] 4757 | int pp = GSP.func_param_affect.at(ff)-1; | ^~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int init_gillespie_direct_network(int, int)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4837:15: warning: unused variable ‘rarray’ [-Wunused-variable] 4837 | Rxn** rarray; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int init_adaptive_scaling_network(int, int, double, bool)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4905:15: warning: unused variable ‘rarray’ [-Wunused-variable] 4905 | Rxn** rarray; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int update_gillespie_direct_network(int, int)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4978:13: warning: unused variable ‘ip’ [-Wunused-variable] 4978 | int ip, ir, is, irxn; | ^~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4978:17: warning: unused variable ‘ir’ [-Wunused-variable] 4978 | int ip, ir, is, irxn; | ^~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4978:21: warning: unused variable ‘is’ [-Wunused-variable] 4978 | int ip, ir, is, irxn; | ^~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4978:25: warning: unused variable ‘irxn’ [-Wunused-variable] 4978 | int ip, ir, is, irxn; | ^~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4980:14: warning: unused variable ‘rxn_dep’ [-Wunused-variable] 4980 | int *rxn_dep/*, *rxn_dep2, *rxn_dep3*/; /* boolean arrays to keep track of dependent | ^~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4983:17: warning: unused variable ‘arl’ [-Wunused-variable] 4983 | iarray *arl, *apl, *rul; /* species and reaction update lists */ | ^~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4983:23: warning: unused variable ‘apl’ [-Wunused-variable] 4983 | iarray *arl, *apl, *rul; /* species and reaction update lists */ | ^~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4983:29: warning: unused variable ‘rul’ [-Wunused-variable] 4983 | iarray *arl, *apl, *rul; /* species and reaction update lists */ | ^~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4984:13: warning: unused variable ‘offset’ [-Wunused-variable] 4984 | int offset, r_index, p_index; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4984:21: warning: unused variable ‘r_index’ [-Wunused-variable] 4984 | int offset, r_index, p_index; | ^~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4984:30: warning: unused variable ‘p_index’ [-Wunused-variable] 4984 | int offset, r_index, p_index; | ^~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4985:15: warning: unused variable ‘rarray’ [-Wunused-variable] 4985 | Rxn **rarray, *rxn; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:4985:24: warning: unused variable ‘rxn’ [-Wunused-variable] 4985 | Rxn **rarray, *rxn; | ^~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘int update_adaptive_scaling_network(int, int)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5160:13: warning: unused variable ‘ip’ [-Wunused-variable] 5160 | int ip, ir, is, irxn; | ^~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5160:17: warning: unused variable ‘ir’ [-Wunused-variable] 5160 | int ip, ir, is, irxn; | ^~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5160:21: warning: unused variable ‘is’ [-Wunused-variable] 5160 | int ip, ir, is, irxn; | ^~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5160:25: warning: unused variable ‘irxn’ [-Wunused-variable] 5160 | int ip, ir, is, irxn; | ^~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5162:14: warning: unused variable ‘rxn_dep’ [-Wunused-variable] 5162 | int *rxn_dep/*, *rxn_dep2, *rxn_dep3*/; /* boolean arrays to keep track of dependent | ^~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5165:17: warning: unused variable ‘arl’ [-Wunused-variable] 5165 | iarray *arl, *apl, *rul; /* species and reaction update lists */ | ^~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5165:23: warning: unused variable ‘apl’ [-Wunused-variable] 5165 | iarray *arl, *apl, *rul; /* species and reaction update lists */ | ^~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5165:29: warning: unused variable ‘rul’ [-Wunused-variable] 5165 | iarray *arl, *apl, *rul; /* species and reaction update lists */ | ^~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5166:13: warning: unused variable ‘offset’ [-Wunused-variable] 5166 | int offset, r_index, p_index; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5166:21: warning: unused variable ‘r_index’ [-Wunused-variable] 5166 | int offset, r_index, p_index; | ^~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5166:30: warning: unused variable ‘p_index’ [-Wunused-variable] 5166 | int offset, r_index, p_index; | ^~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5167:15: warning: unused variable ‘rarray’ [-Wunused-variable] 5167 | Rxn **rarray, *rxn; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5167:24: warning: unused variable ‘rxn’ [-Wunused-variable] 5167 | Rxn **rarray, *rxn; | ^~~ [ 20%] Building CXX object CMakeFiles/run_network.dir/src/util/misc.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/util/misc.cpp.o -MF CMakeFiles/run_network.dir/src/util/misc.cpp.o.d -o CMakeFiles/run_network.dir/src/util/misc.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/misc.cpp /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void update_rxn_rates(int)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5683:27: warning: variable ‘c’ set but not used [-Wunused-but-set-variable] 5683 | double *a, anew, *c; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘void update_rxn_rates_has(int, double, bool)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:5747:27: warning: variable ‘c’ set but not used [-Wunused-but-set-variable] 5747 | double *a, anew, *c; | ^ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h: At global scope: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:262:23: warning: ‘mu::value_type Mratio(mu::value_type, mu::value_type, mu::value_type)’ defined but not used [-Wunused-function] 262 | static mu::value_type Mratio(mu::value_type a, mu::value_type b, mu::value_type z){ | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:258:23: warning: ‘mu::value_type If(mu::value_type, mu::value_type, mu::value_type)’ defined but not used [-Wunused-function] 258 | static mu::value_type If(mu::value_type v1, mu::value_type v2, mu::value_type v3){ | ^~ In file included from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:39: ../src/util/mathutils/mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ ../src/util/mathutils/mathutils.h:359:20: warning: ‘imarg2’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ ../src/util/mathutils/mathutils.h:359:12: warning: ‘imarg1’ defined but not used [-Wunused-variable] 359 | static int imarg1, imarg2; | ^~~~~~ ../src/util/mathutils/mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ ../src/util/mathutils/mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ ../src/util/mathutils/mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ ../src/util/mathutils/mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ [ 21%] Building CXX object CMakeFiles/run_network.dir/src/util/rand.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/util/rand.cpp.o -MF CMakeFiles/run_network.dir/src/util/rand.cpp.o.d -o CMakeFiles/run_network.dir/src/util/rand.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand.cpp /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:262:23: warning: ‘mu::value_type Mratio(mu::value_type, mu::value_type, mu::value_type)’ defined but not used [-Wunused-function] 262 | static mu::value_type Mratio(mu::value_type a, mu::value_type b, mu::value_type z){ | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.h:258:23: warning: ‘mu::value_type If(mu::value_type, mu::value_type, mu::value_type)’ defined but not used [-Wunused-function] 258 | static mu::value_type If(mu::value_type v1, mu::value_type v2, mu::value_type v3){ | ^~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: At global scope: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3332:12: warning: ‘int CVjtimes(N_Vector, N_Vector, realtype, N_Vector, N_Vector, void*, N_Vector)’ defined but not used [-Wunused-function] 3332 | static int CVjtimes(N_Vector v, N_Vector Jv, realtype t, N_Vector y, N_Vector fy, void* jac_data, N_Vector tmp) { | ^~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:3270:13: warning: ‘void CVjac_network(long int, DlsMat, realtype, N_Vector, N_Vector, void*, N_Vector, N_Vector, N_Vector)’ defined but not used [-Wunused-function] 3270 | static void CVjac_network(long int N, DlsMat J, realtype t, N_Vector y, N_Vector fy, void* jac_data, N_Vector tmp1, N_Vector tmp2, | ^~~~~~~~~~~~~ In file included from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:38: ../src/util/mathutils/mathutils.h:364:15: warning: ‘dswap’ defined but not used [-Wunused-variable] 364 | static double dswap; | ^~~~~ ../src/util/mathutils/mathutils.h:356:22: warning: ‘marg2’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ ../src/util/mathutils/mathutils.h:356:15: warning: ‘marg1’ defined but not used [-Wunused-variable] 356 | static double marg1, marg2; | ^~~~~ ../src/util/mathutils/mathutils.h:354:12: warning: ‘isqrarg’ defined but not used [-Wunused-variable] 354 | static int isqrarg; | ^~~~~~~ ../src/util/mathutils/mathutils.h:352:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 352 | static double sqrarg; | ^~~~~~ [ 23%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o -MF CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o.d -o CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions/rateElementary.cpp [ 25%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o -MF CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o.d -o CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions/rateHill.cpp [ 27%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateMM.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/rateExpressions/rateMM.cpp.o -MF CMakeFiles/run_network.dir/src/model/rateExpressions/rateMM.cpp.o.d -o CMakeFiles/run_network.dir/src/model/rateExpressions/rateMM.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions/rateMM.cpp [ 29%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateMuParser.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/rateExpressions/rateMuParser.cpp.o -MF CMakeFiles/run_network.dir/src/model/rateExpressions/rateMuParser.cpp.o.d -o CMakeFiles/run_network.dir/src/model/rateExpressions/rateMuParser.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions/rateMuParser.cpp [ 30%] Building CXX object CMakeFiles/run_network.dir/src/model/rateExpressions/rateSaturation.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/rateExpressions/rateSaturation.cpp.o -MF CMakeFiles/run_network.dir/src/model/rateExpressions/rateSaturation.cpp.o.d -o CMakeFiles/run_network.dir/src/model/rateExpressions/rateSaturation.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions/rateSaturation.cpp /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp: In function ‘main’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:588:20: warning: ‘sample_time’ may be used uninitialized [-Wmaybe-uninitialized] 588 | else t_end = t_start + (double)n_sample*sample_time; | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:106:12: note: ‘sample_time’ was declared here 106 | double sample_time, *sample_times = 0x0/*, *st, t1*/; | ^~~~~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:1014:47: warning: ‘derivs’ may be used uninitialized [-Wmaybe-uninitialized] 1014 | derivs_network(t, conc, derivs); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:117:32: note: ‘derivs’ was declared here 117 | double *conc, *conc_last, *derivs; | ^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:1010:45: warning: ‘conc_last’ may be used uninitialized [-Wmaybe-uninitialized] 1010 | delta = sqrt(VECTOR_DIST(conc, conc_last, n_species_network())) / n_species_network(); | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:117:20: note: ‘conc_last’ was declared here 117 | double *conc, *conc_last, *derivs; | ^~~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:1009:49: warning: ‘conc’ may be used uninitialized [-Wmaybe-uninitialized] 1009 | get_conc_network(conc); | ~~~~~~~~~~~~~~~~^~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/run_network.cpp:117:13: note: ‘conc’ was declared here 117 | double *conc, *conc_last, *derivs; | ^~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘rxn_rate_scaled(RXN*, double*, int, double&, double, bool) [clone .constprop.0]’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2703:22: warning: ‘rate’ may be used uninitialized [-Wmaybe-uninitialized] 2703 | if (discrete && rate < 0.0){ | ~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2328:16: note: ‘rate’ was declared here 2328 | double rate; | ^~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp: In function ‘rxn_rate(RXN*, double*, int)’: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2303:22: warning: ‘rate’ may be used uninitialized [-Wmaybe-uninitialized] 2303 | if (discrete && rate < 0.0){ | ~~~~~~~~~^~~~~~~~~~~~~ /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/network.cpp:2126:16: note: ‘rate’ was declared here 2126 | double rate; | ^~~~ In file included from ../muparser_v2_2_4/include/../include/muParserStack.h:35, from ../muparser_v2_2_4/include/../include/muParserBase.h:39, from ../muparser_v2_2_4/include/../include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions/rateMuParser.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions/rateMuParser.cpp:8: ../muparser_v2_2_4/include/../include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/../include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ [ 32%] Building CXX object CMakeFiles/run_network.dir/src/model/reactions/bioNetGenRxn.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/reactions/bioNetGenRxn.cpp.o -MF CMakeFiles/run_network.dir/src/model/reactions/bioNetGenRxn.cpp.o.d -o CMakeFiles/run_network.dir/src/model/reactions/bioNetGenRxn.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/bioNetGenRxn.cpp ../muparser_v2_2_4/include/../include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ [ 34%] Building CXX object CMakeFiles/run_network.dir/src/model/reactions/elementaryRxn.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/reactions/elementaryRxn.cpp.o -MF CMakeFiles/run_network.dir/src/model/reactions/elementaryRxn.cpp.o.d -o CMakeFiles/run_network.dir/src/model/reactions/elementaryRxn.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/elementaryRxn.cpp [ 36%] Building CXX object CMakeFiles/run_network.dir/src/model/reactions/functionalRxn.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler 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-I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/reactions/hillRxn.cpp.o -MF CMakeFiles/run_network.dir/src/model/reactions/hillRxn.cpp.o.d -o CMakeFiles/run_network.dir/src/model/reactions/hillRxn.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/hillRxn.cpp [ 40%] Building CXX object CMakeFiles/run_network.dir/src/model/reactions/michaelisMentenRxn.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/reactions/michaelisMentenRxn.cpp.o -MF CMakeFiles/run_network.dir/src/model/reactions/michaelisMentenRxn.cpp.o.d -o CMakeFiles/run_network.dir/src/model/reactions/michaelisMentenRxn.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/michaelisMentenRxn.cpp In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/../function.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/bioNetGenRxn.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/bioNetGenRxn.cpp:8: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/../function.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/bioNetGenRxn.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/elementaryRxn.cpp:8: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ [ 41%] Building CXX object CMakeFiles/run_network.dir/src/model/reactions/saturationRxn.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/model/reactions/saturationRxn.cpp.o -MF CMakeFiles/run_network.dir/src/model/reactions/saturationRxn.cpp.o.d -o CMakeFiles/run_network.dir/src/model/reactions/saturationRxn.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/saturationRxn.cpp In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/../function.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/bioNetGenRxn.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/functionalRxn.cpp:8: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/../function.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/bioNetGenRxn.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/hillRxn.cpp:8: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/../function.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/bioNetGenRxn.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/michaelisMentenRxn.cpp:8: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ [ 43%] Building CXX object CMakeFiles/run_network.dir/src/pla/base/firingGenerator.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/pla/base/firingGenerator.cpp.o -MF CMakeFiles/run_network.dir/src/pla/base/firingGenerator.cpp.o.d -o CMakeFiles/run_network.dir/src/pla/base/firingGenerator.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base/firingGenerator.cpp In file included from ../muparser_v2_2_4/include/muParserStack.h:35, from ../muparser_v2_2_4/include/muParserBase.h:39, from ../muparser_v2_2_4/include/muParser.h:32, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/../function.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/bioNetGenRxn.hh:12, from /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions/saturationRxn.cpp:8: ../muparser_v2_2_4/include/muParserToken.h:72:12: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 72 | std::auto_ptr m_pCallback; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ../muparser_v2_2_4/include/muParserBase.h:33: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ ../muparser_v2_2_4/include/muParserBase.h:291:10: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 291 | std::auto_ptr m_pTokenReader; ///< Managed pointer to the token reader object. | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ [ 45%] Building CXX object CMakeFiles/run_network.dir/src/pla/base/postleapChecker.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/pla/base/postleapChecker.cpp.o -MF CMakeFiles/run_network.dir/src/pla/base/postleapChecker.cpp.o.d -o CMakeFiles/run_network.dir/src/pla/base/postleapChecker.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base/postleapChecker.cpp [ 47%] Building CXX object CMakeFiles/run_network.dir/src/pla/base/rxnClassifier.cpp.o /usr/bin/g++ -DRUN_NETWORK_VERSION=\"3.0\" -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3 -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/cvode -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/nvector -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/include/sundials -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/pla/base/rxnClassifier.cpp.o -MF 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-I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/ssa -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/rateExpressions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/model/reactions -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/fEuler -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/base -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/pla/eRungeKutta/util -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/MTrand -I/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -MD -MT CMakeFiles/run_network.dir/src/util/rand2/rand2.cpp.o -MF CMakeFiles/run_network.dir/src/util/rand2/rand2.cpp.o.d -o CMakeFiles/run_network.dir/src/util/rand2/rand2.cpp.o -c /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/src/util/rand2/rand2.cpp [100%] Linking CXX executable run_network /usr/bin/cmake -E cmake_link_script CMakeFiles/run_network.dir/link.txt --verbose=1 /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wno-complain-wrong-lang -Wno-error=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I../src/util/mathutils -I../cvode-2.6.0/include -I../cvode-2.6.0/include/cvode -I../cvode-2.6.0/build/include -I../cvode-2.6.0/src/cvode/fcmix -L../src/util/mathutils -I../muparser_v2_2_4/include -L../muparser_v2_2_4/lib -L../cvode-2.6.0/build/src/cvode/fcmix -L../cvode-2.6.0/build/src/sundials -L../cvode-2.6.0/build/src/cvode -L../cvode-2.6.0/build/src/nvec_ser -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes CMakeFiles/run_network.dir/src/network.cpp.o CMakeFiles/run_network.dir/src/network3.cpp.o CMakeFiles/run_network.dir/src/run_network.cpp.o CMakeFiles/run_network.dir/src/model/function.cpp.o CMakeFiles/run_network.dir/src/model/observable.cpp.o CMakeFiles/run_network.dir/src/model/rateExpression.cpp.o CMakeFiles/run_network.dir/src/model/reaction.cpp.o CMakeFiles/run_network.dir/src/model/simpleSpecies.cpp.o CMakeFiles/run_network.dir/src/pla/PLA.cpp.o CMakeFiles/run_network.dir/src/util/conversion.cpp.o CMakeFiles/run_network.dir/src/util/misc.cpp.o CMakeFiles/run_network.dir/src/util/rand.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateElementary.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateHill.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateMM.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateMuParser.cpp.o CMakeFiles/run_network.dir/src/model/rateExpressions/rateSaturation.cpp.o CMakeFiles/run_network.dir/src/model/reactions/bioNetGenRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/elementaryRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/functionalRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/hillRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/michaelisMentenRxn.cpp.o CMakeFiles/run_network.dir/src/model/reactions/saturationRxn.cpp.o CMakeFiles/run_network.dir/src/pla/base/firingGenerator.cpp.o CMakeFiles/run_network.dir/src/pla/base/postleapChecker.cpp.o CMakeFiles/run_network.dir/src/pla/base/rxnClassifier.cpp.o 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-L/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/lib -Wl,-Bstatic -lmathutils -lmuparser -lsundials_cvode -lsundials_fcvode -lsundials_nvecserial -Wl,-Bdynamic gmake[2]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build' [100%] Built target run_network gmake[1]: Leaving directory '/builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build/CMakeFiles 0 ~/build/BUILD/bionetgen-2.9.0 + popd + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.LBY0zp + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le '!=' / ']' + rm -rf /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le ++ dirname /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' ~/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Network3/build ~/build/BUILD/bionetgen-2.9.0 + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd bionetgen-2.9.0 + pushd bionetgen-BioNetGen-2.9.0/bng2/Network3/build + mkdir -vp /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/bin mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr' mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/bin' + install -pm 755 run_network /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/bin/ ~/build/BUILD/bionetgen-2.9.0 + popd + mkdir -vp /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/perl5/vendor_perl/BioNetGen mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share' mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/perl5' mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/perl5/vendor_perl' mkdir: created directory '/builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/perl5/vendor_perl/BioNetGen' + cp -r bionetgen-BioNetGen-2.9.0/bng2/Perl2 /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/perl5/vendor_perl/BioNetGen/ + cp -r bionetgen-BioNetGen-2.9.0/bng2/BNG2.pl /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/perl5/vendor_perl/BioNetGen/ + cp -a bionetgen-BioNetGen-2.9.0/bng2/Models2 /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/perl5/vendor_perl/BioNetGen/ + rm -f /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/perl5/vendor_perl/BioNetGen/Models2/bin/run_network_ppc64le-linux + rm -f /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/perl5/vendor_perl/BioNetGen/Models2/run_network + /usr/bin/find-debuginfo -j8 --strict-build-id -m -i --build-id-seed 2.9.0-3.fc40 --unique-debug-suffix -2.9.0-3.fc40.ppc64le --unique-debug-src-base bionetgen-2.9.0-3.fc40.ppc64le --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/bionetgen-2.9.0 find-debuginfo: starting Extracting debug info from 1 files DWARF-compressing 1 files sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match. Creating .debug symlinks for symlinks to ELF files Copying sources found by 'debugedit -l' to /usr/src/debug/bionetgen-2.9.0-3.fc40.ppc64le 2296 blocks find-debuginfo: done + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs + /usr/lib/rpm/brp-remove-la-files + env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j8 + /usr/lib/rpm/redhat/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.RbEhlC + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mcpu=power8 -mtune=power8 -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn' + export RUSTFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd bionetgen-2.9.0 ~/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Models2 ~/build/BUILD/bionetgen-2.9.0 + pushd bionetgen-BioNetGen-2.9.0/bng2/Models2 + install -pm 755 ../Network3/build/run_network -D ./bin/run_network_ppc64le-linux + install -pm 755 ../Network3/build/run_network -D ../bin/run_network_ppc64le-linux Running some tests ... + echo 'Running some tests ...' + ../BNG2.pl CaOscillate_Func.bngl CaOscillate_Sat.bngl catalysis.bngl egfr_net.bngl egfr_net_red.bngl egfr_path.bngl energy_example1.bngl fceri_ji.bngl test_continue.bngl BioNetGen version 2.9.0 Reading from file CaOscillate_Func.bngl (level 0) Read 17 parameters. Read 4 molecule types. Read 4 species. Read 4 observable(s). Read 8 reaction rule(s). ACTION: generate_network( CaOscillate_Func ) Iteration 0: 4 species 0 rxns 0.00e+00 CPU s Iteration 1: 4 species 8 rxns 1.00e-02 CPU s Cumulative CPU time for each rule Rule 1: 1 reactions 1.00e-02 CPU s 1.00e-02 CPU s/rxn Rule 2: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 3: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 4: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 5: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 6: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 7: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 8: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Total : 8 reactions 1.00e-02 CPU s 1.25e-03 CPU s/rxn Wrote network in net format to ./CaOscillate_Func.net. CPU TIME: generate_network 0.01 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./CaOscillate_Func.net. Wrote network in net format to ./CaOscillate_Func.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./CaOscillate_Func -p cvode -a 1e-12 -r 1e-12 --cdat 1 --fdat 0 -v -g ./CaOscillate_Func.net ./CaOscillate_Func.net 0.1 200 [simulation PID is: 3088] run_network 3.0 Read 17 parameters from ./CaOscillate_Func.net Read 4 species from ./CaOscillate_Func.net Read 4 group(s) from ./CaOscillate_Func.net Read 4 function(s) from ./CaOscillate_Func.net Read 8 reaction(s) from ./CaOscillate_Func.net 8 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using dense LU time n_steps n_deriv_calls 0.00 0 0 0.10 719 851 0.20 753 889 0.30 788 924 0.40 822 962 0.50 857 997 0.60 891 1035 0.70 926 1070 0.80 960 1108 0.90 995 1147 1.00 1029 1181 1.10 1064 1221 1.20 1098 1257 1.30 1133 1299 1.40 1167 1335 1.50 1215 1393 1.60 1263 1449 1.70 1324 1520 1.80 1389 1596 1.90 1460 1680 2.00 1544 1781 2.10 1620 1865 2.20 1697 1946 2.30 1749 2005 2.40 1800 2063 2.50 1854 2128 2.60 1993 2299 2.70 2464 2852 2.80 2562 2973 2.90 2607 3025 3.00 2657 3086 3.10 2718 3156 3.20 2779 3224 3.30 2839 3290 3.40 2900 3355 3.50 2961 3420 3.60 3018 3482 3.70 3071 3550 3.80 3200 3708 3.90 3345 3881 4.00 3456 4003 4.10 3521 4073 4.20 3572 4129 4.30 3624 4186 4.40 3671 4234 4.50 3707 4279 4.60 3753 4333 4.70 3799 4383 4.80 3856 4451 4.90 3913 4526 5.00 3969 4585 5.10 4010 4632 5.20 4047 4675 5.30 4080 4709 5.40 4105 4739 5.50 4129 4764 5.60 4154 4797 5.70 4178 4823 5.80 4201 4848 5.90 4221 4871 6.00 4241 4897 6.10 4261 4918 6.20 4281 4943 6.30 4294 4956 6.40 4307 4970 6.50 4321 4984 6.60 4334 4997 6.70 4347 5014 6.80 4356 5024 6.90 4365 5033 7.00 4374 5042 7.10 4383 5052 7.20 4392 5062 7.30 4401 5071 7.40 4410 5086 7.50 4419 5095 7.60 4427 5103 7.70 4436 5113 7.80 4445 5123 7.90 4457 5142 8.00 4469 5165 8.10 4481 5179 8.20 4491 5192 8.30 4504 5211 8.40 4522 5240 8.50 4543 5268 8.60 4568 5298 8.70 4607 5350 8.80 4663 5420 8.90 4772 5555 9.00 5104 5945 9.10 5399 6270 9.20 5507 6389 9.30 5546 6435 9.40 5561 6451 9.50 5573 6463 9.60 5585 6475 9.70 5597 6492 9.80 5608 6503 9.90 5620 6516 10.00 5632 6528 10.10 5644 6541 10.20 5656 6558 10.30 5668 6570 10.40 5680 6584 10.50 5692 6596 10.60 5703 6609 10.70 5715 6626 10.80 5727 6639 10.90 5739 6653 11.00 5751 6665 11.10 5767 6683 11.20 5783 6704 11.30 5799 6721 11.40 5815 6738 11.50 5831 6754 11.60 5847 6776 11.70 5863 6794 11.80 5879 6812 11.90 5895 6834 12.00 5911 6850 12.10 5927 6868 12.20 5943 6886 12.30 5959 6908 12.40 5975 6926 12.50 5991 6942 12.60 6012 6967 12.70 6034 6994 12.80 6056 7020 12.90 6078 7048 13.00 6100 7072 13.10 6128 7108 13.20 6158 7140 13.30 6188 7177 13.40 6223 7216 13.50 6263 7264 13.60 6311 7322 13.70 6366 7387 13.80 6435 7464 13.90 6507 7550 14.00 6594 7646 14.10 6673 7738 14.20 6750 7820 14.30 6803 7880 14.40 6856 7939 14.50 6911 8005 14.60 7038 8162 14.70 7513 8728 14.80 7634 8876 14.90 7681 8925 15.00 7731 8985 15.10 7793 9054 15.20 7848 9121 15.30 7904 9185 15.40 7960 9246 15.50 8016 9306 15.60 8072 9366 15.70 8129 9434 15.80 8253 9587 15.90 8393 9752 16.00 8510 9880 16.10 8578 9953 16.20 8634 10013 16.30 8690 10073 16.40 8738 10126 16.50 8776 10172 16.60 8820 10221 16.70 8870 10277 16.80 8928 10346 16.90 8988 10415 17.00 9046 10480 17.10 9088 10524 17.20 9126 10568 17.30 9160 10607 17.40 9185 10632 17.50 9211 10659 17.60 9236 10692 17.70 9261 10718 17.80 9284 10747 17.90 9304 10769 18.00 9325 10791 18.10 9346 10817 18.20 9365 10837 18.30 9376 10850 18.40 9385 10859 18.50 9394 10874 18.60 9404 10884 18.70 9413 10894 18.80 9422 10903 18.90 9431 10912 19.00 9440 10921 19.10 9449 10930 19.20 9459 10945 19.30 9468 10954 19.40 9477 10964 19.50 9486 10973 19.60 9495 10984 19.70 9505 10994 19.80 9514 11012 19.90 9523 11021 20.00 9532 11031 Time course of concentrations written to file ./CaOscillate_Func.cdat. Time course of groups written to file ./CaOscillate_Func.gdat. Propagation took 4.00e-02 CPU seconds Program times: 0.04 CPU s 0.00 clock s Updating species concentrations from ./CaOscillate_Func.cdat CPU TIME: simulate 0.05 s. Finished processing file CaOscillate_Func.bngl. CPU TIME: total 0.08 s. BioNetGen version 2.9.0 Reading from file CaOscillate_Sat.bngl (level 0) Read 17 parameters. Read 4 molecule types. Read 4 species. Read 4 observable(s). Read 8 reaction rule(s). ACTION: generate_network( CaOscillate_Sat ) Iteration 0: 4 species 0 rxns 0.00e+00 CPU s Iteration 1: 4 species 8 rxns 0.00e+00 CPU s Cumulative CPU time for each rule Rule 1: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 2: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 3: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 4: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 5: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 6: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 7: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 8: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Total : 8 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Wrote network in net format to ./CaOscillate_Sat.net. CPU TIME: generate_network 0.01 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./CaOscillate_Sat.net. Wrote network in net format to ./CaOscillate_Sat.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./CaOscillate_Sat -p cvode -a 1e-12 -r 1e-12 --cdat 1 --fdat 0 -v -g ./CaOscillate_Sat.net ./CaOscillate_Sat.net 0.1 200 [simulation PID is: 3090] run_network 3.0 Read 17 parameters from ./CaOscillate_Sat.net Read 4 species from ./CaOscillate_Sat.net Read 4 group(s) from ./CaOscillate_Sat.net Read 0 function(s) from ./CaOscillate_Sat.net Read 8 reaction(s) from ./CaOscillate_Sat.net 8 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using dense LU time n_steps n_deriv_calls 0.00 0 0 0.10 717 850 0.20 741 879 0.30 765 904 0.40 790 930 0.50 814 960 0.60 838 985 0.70 863 1015 0.80 887 1040 0.90 911 1066 1.00 936 1099 1.10 961 1129 1.20 993 1171 1.30 1025 1207 1.40 1064 1257 1.50 1108 1309 1.60 1155 1366 1.70 1210 1431 1.80 1284 1514 1.90 1358 1601 2.00 1442 1703 2.10 1521 1789 2.20 1596 1869 2.30 1649 1928 2.40 1701 1987 2.50 1757 2053 2.60 1896 2222 2.70 2360 2768 2.80 2463 2900 2.90 2511 2957 3.00 2560 3015 3.10 2618 3082 3.20 2677 3148 3.30 2735 3213 3.40 2793 3275 3.50 2852 3338 3.60 2910 3400 3.70 2969 3470 3.80 3099 3626 3.90 3243 3798 4.00 3343 3906 4.10 3413 3985 4.20 3479 4055 4.30 3546 4126 4.40 3590 4175 4.50 3634 4222 4.60 3679 4275 4.70 3723 4327 4.80 3778 4394 4.90 3835 4465 5.00 3890 4527 5.10 3930 4571 5.20 3966 4613 5.30 3999 4651 5.40 4023 4676 5.50 4047 4702 5.60 4071 4732 5.70 4095 4759 5.80 4117 4787 5.90 4138 4811 6.00 4158 4833 6.10 4178 4854 6.20 4198 4879 6.30 4211 4892 6.40 4225 4907 6.50 4238 4924 6.60 4252 4938 6.70 4265 4951 6.80 4274 4961 6.90 4283 4970 7.00 4292 4979 7.10 4301 4989 7.20 4310 5003 7.30 4319 5012 7.40 4328 5022 7.50 4337 5031 7.60 4345 5040 7.70 4354 5050 7.80 4363 5064 7.90 4372 5079 8.00 4381 5088 8.10 4390 5099 8.20 4400 5115 8.30 4412 5134 8.40 4431 5179 8.50 4456 5205 8.60 4483 5240 8.70 4519 5286 8.80 4575 5356 8.90 4682 5482 9.00 5014 5875 9.10 5309 6200 9.20 5417 6315 9.30 5456 6361 9.40 5471 6377 9.50 5482 6388 9.60 5493 6404 9.70 5505 6417 9.80 5516 6428 9.90 5527 6440 10.00 5539 6452 10.10 5550 6468 10.20 5561 6479 10.30 5573 6493 10.40 5584 6504 10.50 5595 6517 10.60 5607 6535 10.70 5618 6546 10.80 5630 6560 10.90 5643 6575 11.00 5658 6595 11.10 5673 6610 11.20 5689 6627 11.30 5704 6644 11.40 5719 6665 11.50 5735 6681 11.60 5750 6698 11.70 5765 6715 11.80 5781 6737 11.90 5796 6753 12.00 5811 6769 12.10 5827 6787 12.20 5842 6808 12.30 5857 6825 12.40 5873 6841 12.50 5892 6863 12.60 5913 6889 12.70 5934 6912 12.80 5955 6935 12.90 5975 6961 13.00 6001 6992 13.10 6029 7028 13.20 6057 7058 13.30 6095 7112 13.40 6133 7157 13.50 6171 7203 13.60 6220 7263 13.70 6275 7328 13.80 6345 7407 13.90 6415 7492 14.00 6497 7592 14.10 6572 7678 14.20 6647 7757 14.30 6703 7819 14.40 6753 7876 14.50 6805 7938 14.60 6932 8095 14.70 7381 8618 14.80 7498 8747 14.90 7552 8807 15.00 7599 8867 15.10 7663 8938 15.20 7718 9002 15.30 7774 9065 15.40 7831 9127 15.50 7887 9187 15.60 7944 9244 15.70 8001 9317 15.80 8126 9469 15.90 8281 9649 16.00 8392 9771 16.10 8457 9841 16.20 8507 9898 16.30 8557 9954 16.40 8604 10006 16.50 8640 10047 16.60 8685 10100 16.70 8730 10154 16.80 8785 10215 16.90 8841 10289 17.00 8895 10347 17.10 8935 10395 17.20 8971 10437 17.30 9004 10471 17.40 9028 10499 17.50 9051 10525 17.60 9075 10551 17.70 9098 10580 17.80 9120 10605 17.90 9140 10629 18.00 9160 10655 18.10 9181 10677 18.20 9200 10701 18.30 9210 10716 18.40 9221 10728 18.50 9232 10740 18.60 9243 10751 18.70 9254 10762 18.80 9265 10773 18.90 9276 10788 19.00 9287 10799 19.10 9298 10810 19.20 9309 10821 19.30 9320 10832 19.40 9331 10847 19.50 9342 10858 19.60 9353 10869 19.70 9364 10880 19.80 9375 10891 19.90 9386 10903 20.00 9397 10919 Time course of concentrations written to file ./CaOscillate_Sat.cdat. Time course of groups written to file ./CaOscillate_Sat.gdat. Propagation took 3.00e-02 CPU seconds Program times: 0.03 CPU s 0.00 clock s Updating species concentrations from ./CaOscillate_Sat.cdat CPU TIME: simulate 0.04 s. Finished processing file CaOscillate_Sat.bngl. CPU TIME: total 0.08 s. BioNetGen version 2.9.0 Reading from file catalysis.bngl (level 0) CPU TIME: version 0.00 s. Warning: Parameter Gf_S_kinase is set to a negative value: -41.5 Warning: Parameter Gf_S_pptase is set to a negative value: -41.5 Warning: Parameter Ea0_S_kinase is set to a negative value: -7.7 Warning: Parameter Ea0_S_pptase is set to a negative value: -7.7 Warning: Parameter Ea0_cat_kinase is set to a negative value: -11.9 Read 17 parameters. Read 1 compartments. Read 5 molecule types. Read 5 species. Read 4 reaction rule(s). Read 4 energy patterns(s). Read 6 observable(s). ACTION: generate_network( catalysis ) Iteration 0: 5 species 0 rxns 0.00e+00 CPU s Iteration 1: 7 species 2 rxns 0.00e+00 CPU s Iteration 2: 9 species 6 rxns 1.00e-02 CPU s Iteration 3: 10 species 10 rxns 1.00e-02 CPU s Iteration 4: 10 species 12 rxns 0.00e+00 CPU s Cumulative CPU time for each rule Rule 1: 4 reactions 1.00e-02 CPU s 2.50e-03 CPU s/rxn Rule 2: 4 reactions 1.00e-02 CPU s 2.50e-03 CPU s/rxn Rule 3: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 4: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Total : 12 reactions 2.00e-02 CPU s 1.67e-03 CPU s/rxn Wrote network in net format to ./catalysis.net. CPU TIME: generate_network 0.04 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./catalysis.net. Wrote network in net format to ./catalysis.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./catalysis -p cvode -a 0.001 -r 1e-07 --cdat 1 --fdat 0 -g ./catalysis.net ./catalysis.net 30 120 [simulation PID is: 3092] run_network 3.0 Read 30 parameters from ./catalysis.net @C::$ATP() is a fixed (boundaryCondition) variable @C::$ADP() is a fixed (boundaryCondition) variable Read 10 species from ./catalysis.net Read 6 group(s) from ./catalysis.net Read 0 function(s) from ./catalysis.net Read 12 reaction(s) from ./catalysis.net 12 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using dense LU Time course of concentrations written to file ./catalysis.cdat. Time course of groups written to file ./catalysis.gdat. Propagation took 1.00e-02 CPU seconds Program times: 0.01 CPU s 0.00 clock s Updating species concentrations from ./catalysis.cdat CPU TIME: simulate 0.02 s. Finished processing file catalysis.bngl. CPU TIME: total 0.08 s. BioNetGen version 2.9.0 Reading from file egfr_net.bngl (level 0) Read 48 parameters. Read 5 molecule types. Read 6 species. Read 23 reaction rule(s). Read 15 observable(s). ACTION: generate_network( egfr_net ) Iteration 0: 6 species 0 rxns 0.00e+00 CPU s Iteration 1: 7 species 3 rxns 2.00e-02 CPU s Iteration 2: 8 species 5 rxns 0.00e+00 CPU s Iteration 3: 10 species 8 rxns 2.00e-02 CPU s Iteration 4: 19 species 21 rxns 5.00e-02 CPU s Iteration 5: 37 species 76 rxns 2.00e-01 CPU s Iteration 6: 69 species 213 rxns 5.20e-01 CPU s Iteration 7: 131 species 494 rxns 9.80e-01 CPU s Iteration 8: 295 species 1260 rxns 3.21e+00 CPU s Iteration 9: 356 species 3088 rxns 9.64e+00 CPU s Iteration 10: 356 species 3749 rxns 3.76e+00 CPU s Cumulative CPU time for each rule Rule 1: 48 reactions 3.00e-01 CPU s 6.25e-03 CPU s/rxn Rule 2: 600 reactions 5.06e+00 CPU s 8.43e-03 CPU s/rxn Rule 3: 144 reactions 6.30e-01 CPU s 4.38e-03 CPU s/rxn Rule 4: 96 reactions 3.10e-01 CPU s 3.23e-03 CPU s/rxn Rule 5: 156 reactions 4.60e-01 CPU s 2.95e-03 CPU s/rxn Rule 6: 104 reactions 2.80e-01 CPU s 2.69e-03 CPU s/rxn Rule 7: 96 reactions 3.60e-01 CPU s 3.75e-03 CPU s/rxn Rule 8: 104 reactions 3.30e-01 CPU s 3.17e-03 CPU s/rxn Rule 9: 312 reactions 1.26e+00 CPU s 4.04e-03 CPU s/rxn Rule 10: 312 reactions 1.27e+00 CPU s 4.07e-03 CPU s/rxn Rule 11: 312 reactions 1.42e+00 CPU s 4.55e-03 CPU s/rxn Rule 12: 208 reactions 8.70e-01 CPU s 4.18e-03 CPU s/rxn Rule 13: 208 reactions 7.90e-01 CPU s 3.80e-03 CPU s/rxn Rule 14: 208 reactions 9.90e-01 CPU s 4.76e-03 CPU s/rxn Rule 15: 208 reactions 1.01e+00 CPU s 4.86e-03 CPU s/rxn Rule 16: 208 reactions 8.80e-01 CPU s 4.23e-03 CPU s/rxn Rule 17: 208 reactions 9.60e-01 CPU s 4.62e-03 CPU s/rxn Rule 18: 208 reactions 8.80e-01 CPU s 4.23e-03 CPU s/rxn Rule 19: 2 reactions 8.00e-02 CPU s 4.00e-02 CPU s/rxn Rule 20: 2 reactions 7.00e-02 CPU s 3.50e-02 CPU s/rxn Rule 21: 1 reactions 4.00e-02 CPU s 4.00e-02 CPU s/rxn Rule 22: 2 reactions 8.00e-02 CPU s 4.00e-02 CPU s/rxn Rule 23: 2 reactions 7.00e-02 CPU s 3.50e-02 CPU s/rxn Total : 3749 reactions 1.84e+01 CPU s 4.91e-03 CPU s/rxn Wrote network in net format to ./egfr_net.net. CPU TIME: generate_network 18.67 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./egfr_net.net. Wrote network in net format to ./egfr_net.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./egfr_net -p cvode -a 1e-08 -r 1e-08 -b --cdat 1 --fdat 0 -g ./egfr_net.net ./egfr_net.net 0.8 50 [simulation PID is: 3094] run_network 3.0 Read 48 parameters from ./egfr_net.net Read 356 species from ./egfr_net.net Read 15 group(s) from ./egfr_net.net Read 0 function(s) from ./egfr_net.net Read 3749 reaction(s) from ./egfr_net.net 3749 reaction(s) have nonzero rate Initialization took 0.05 CPU seconds Propagating with cvode using GMRES Time course of concentrations written to file ./egfr_net.cdat. Time course of groups written to file ./egfr_net.gdat. Propagation took 2.10e-01 CPU seconds Program times: 0.26 CPU s 0.00 clock s Updating species concentrations from ./egfr_net.cdat CPU TIME: simulate 0.53 s. Finished processing file egfr_net.bngl. CPU TIME: total 19.31 s. BioNetGen version 2.9.0 Reading from file egfr_net_red.bngl (level 0) Read 48 parameters. Read 7 molecule types. Read 7 species. Read 14 observable(s). Read 26 reaction rule(s). ACTION: generate_network( egfr_net_red ) Iteration 0: 7 species 0 rxns 0.00e+00 CPU s Iteration 1: 11 species 4 rxns 1.00e-02 CPU s Iteration 2: 13 species 10 rxns 2.00e-02 CPU s Iteration 3: 15 species 14 rxns 2.00e-02 CPU s Iteration 4: 20 species 21 rxns 2.00e-02 CPU s Iteration 5: 26 species 39 rxns 6.00e-02 CPU s Iteration 6: 33 species 62 rxns 8.00e-02 CPU s Iteration 7: 38 species 90 rxns 1.20e-01 CPU s Iteration 8: 40 species 115 rxns 1.00e-01 CPU s Iteration 9: 40 species 123 rxns 2.00e-02 CPU s Cumulative CPU time for each rule Rule 1: 2 reactions 3.00e-02 CPU s 1.50e-02 CPU s/rxn Rule 2: 8 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 3: 12 reactions 3.00e-02 CPU s 2.50e-03 CPU s/rxn Rule 4: 8 reactions 3.00e-02 CPU s 3.75e-03 CPU s/rxn Rule 5: 12 reactions 4.00e-02 CPU s 3.33e-03 CPU s/rxn Rule 6: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 7: 1 reactions 1.00e-02 CPU s 1.00e-02 CPU s/rxn Rule 8: 3 reactions 2.00e-02 CPU s 6.67e-03 CPU s/rxn Rule 9: 3 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 10: 1 reactions 1.00e-02 CPU s 1.00e-02 CPU s/rxn Rule 11: 3 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 12: 6 reactions 2.00e-02 CPU s 3.33e-03 CPU s/rxn Rule 13: 6 reactions 4.00e-02 CPU s 6.67e-03 CPU s/rxn Rule 14: 6 reactions 4.00e-02 CPU s 6.67e-03 CPU s/rxn Rule 15: 6 reactions 1.00e-02 CPU s 1.67e-03 CPU s/rxn Rule 16: 6 reactions 2.00e-02 CPU s 3.33e-03 CPU s/rxn Rule 17: 6 reactions 3.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 18: 6 reactions 2.00e-02 CPU s 3.33e-03 CPU s/rxn Rule 19: 6 reactions 3.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 20: 6 reactions 3.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 21: 6 reactions 1.00e-02 CPU s 1.67e-03 CPU s/rxn Rule 22: 2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 23: 2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 24: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 25: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 26: 2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn Total : 123 reactions 4.50e-01 CPU s 3.66e-03 CPU s/rxn Wrote network in net format to ./egfr_net_red.net. CPU TIME: generate_network 0.49 s. Set concentration of species egf(r) to value 0 CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./egfr_net_red.net. Wrote network in net format to ./egfr_net_red.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./egfr_net_red -p cvode -a 1e-08 -r 1e-08 -b -c --cdat 1 --fdat 0 -g ./egfr_net_red.net ./egfr_net_red.net 10000 10 [simulation PID is: 3096] run_network 3.0 Read 48 parameters from ./egfr_net_red.net Read 40 species from ./egfr_net_red.net Read 14 group(s) from ./egfr_net_red.net Read 3 function(s) from ./egfr_net_red.net Read 123 reaction(s) from ./egfr_net_red.net 123 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using GMRES Time course of concentrations written to file ./egfr_net_red.cdat. Time course of groups written to file ./egfr_net_red.gdat. Propagation took 1.00e-02 CPU seconds Program times: 0.01 CPU s 0.00 clock s Simulation reached steady state by t_end=100000 Updating species concentrations from ./egfr_net_red.cdat CPU TIME: simulate 0.02 s. Set concentration of species egf(r) to value egf_tot CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./egfr_net_red.net. Wrote network in net format to ./egfr_net_red.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./egfr_net_red -p cvode -a 1e-08 -r 1e-08 -b --cdat 1 --fdat 0 -g ./egfr_net_red.net ./egfr_net_red.net 1 120 [simulation PID is: 3098] run_network 3.0 Read 48 parameters from ./egfr_net_red.net Read 40 species from ./egfr_net_red.net Read 14 group(s) from ./egfr_net_red.net Read 3 function(s) from ./egfr_net_red.net Read 123 reaction(s) from ./egfr_net_red.net 123 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using GMRES Time course of concentrations written to file ./egfr_net_red.cdat. Time course of groups written to file ./egfr_net_red.gdat. Propagation took 1.00e-02 CPU seconds Program times: 0.01 CPU s 1.00 clock s Updating species concentrations from ./egfr_net_red.cdat CPU TIME: simulate 0.05 s. Finished processing file egfr_net_red.bngl. CPU TIME: total 0.69 s. BioNetGen version 2.9.0 Reading from file egfr_path.bngl (level 0) Read 48 parameters. Read 18 species. Read 19 reaction rule(s). Read 11 observable(s). ACTION: generate_network( egfr_path ) Iteration 0: 18 species 0 rxns 0.00e+00 CPU s Iteration 1: 18 species 37 rxns 5.00e-02 CPU s Cumulative CPU time for each rule Rule 1: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 2: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 3: 2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 4: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 5: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 6: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 7: 2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 8: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 9: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 10: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 11: 2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 12: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 13: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 14: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 15: 2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 16: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 17: 1 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 18: 2 reactions 0.00e+00 CPU s 0.00e+00 CPU s/rxn Rule 19: 2 reactions 1.00e-02 CPU s 5.00e-03 CPU s/rxn Total : 37 reactions 5.00e-02 CPU s 1.35e-03 CPU s/rxn Wrote network in net format to ./egfr_path.net. CPU TIME: generate_network 0.09 s. Set concentration of species EGF() to value 0 CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./egfr_path.net. Wrote network in net format to ./egfr_path.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./egfr_path -p cvode -a 1e-08 -r 1e-08 -c --cdat 1 --fdat 0 -g ./egfr_path.net ./egfr_path.net 10000 10 [simulation PID is: 3100] run_network 3.0 Read 48 parameters from ./egfr_path.net Read 18 species from ./egfr_path.net Read 11 group(s) from ./egfr_path.net Read 0 function(s) from ./egfr_path.net Read 37 reaction(s) from ./egfr_path.net 37 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using dense LU Time course of concentrations written to file ./egfr_path.cdat. Time course of groups written to file ./egfr_path.gdat. Propagation took 1.00e-02 CPU seconds Program times: 0.01 CPU s 0.00 clock s Simulation reached steady state by t_end=100000 Updating species concentrations from ./egfr_path.cdat CPU TIME: simulate 0.02 s. Set concentration of species EGF() to value EGF_tot CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./egfr_path.net. Wrote network in net format to ./egfr_path.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./egfr_path -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -g ./egfr_path.net ./egfr_path.net 1 120 [simulation PID is: 3102] run_network 3.0 Read 48 parameters from ./egfr_path.net Read 18 species from ./egfr_path.net Read 11 group(s) from ./egfr_path.net Read 0 function(s) from ./egfr_path.net Read 37 reaction(s) from ./egfr_path.net 37 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using dense LU Time course of concentrations written to file ./egfr_path.cdat. Time course of groups written to file ./egfr_path.gdat. Propagation took 0.00e+00 CPU seconds Program times: 0.00 CPU s 0.00 clock s Updating species concentrations from ./egfr_path.cdat CPU TIME: simulate 0.01 s. Finished processing file egfr_path.bngl. CPU TIME: total 0.21 s. BioNetGen version 2.9.0 Reading from file energy_example1.bngl (level 0) CPU TIME: version 0.00 s. Warning: Parameter Gf_SA is set to a negative value: -47.5 Warning: Parameter Gf_SB is set to a negative value: -47.5 Warning: Parameter Gf_SC is set to a negative value: -47.5 Warning: Parameter Gf_SBC is set to a negative value: -5.9 Warning: Parameter Gf_SABC is set to a negative value: -1.8 Warning: Parameter Ea0_SA is set to a negative value: -17.8 Warning: Parameter Ea0_SB is set to a negative value: -17.8 Warning: Parameter Ea0_SC is set to a negative value: -17.8 Read 19 parameters. Read 1 compartments. Read 4 molecule types. Read 4 species. Read 6 energy patterns(s). Read 11 observable(s). Read 3 reaction rule(s). ACTION: generate_network( energy_example1 ) Iteration 0: 4 species 0 rxns 0.00e+00 CPU s Iteration 1: 7 species 3 rxns 1.00e-02 CPU s Iteration 2: 10 species 12 rxns 3.00e-02 CPU s Iteration 3: 11 species 21 rxns 3.00e-02 CPU s Iteration 4: 11 species 24 rxns 1.00e-02 CPU s Cumulative CPU time for each rule Rule 1: 8 reactions 2.00e-02 CPU s 2.50e-03 CPU s/rxn Rule 2: 8 reactions 4.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 3: 8 reactions 2.00e-02 CPU s 2.50e-03 CPU s/rxn Total : 24 reactions 8.00e-02 CPU s 3.33e-03 CPU s/rxn Wrote network in net format to ./energy_example1.net. CPU TIME: generate_network 0.09 s. Wrote SBML to ./energy_example1_sbml.xml. CPU TIME: writeSBML 0.01 s. Finished processing file energy_example1.bngl. CPU TIME: total 0.15 s. BioNetGen version 2.9.0 Reading from file fceri_ji.bngl (level 0) Read 26 parameters. Read 4 species. Adding pY as allowed state of component b of molecule Rec Adding pY as allowed state of component g of molecule Rec Adding pY as allowed state of component l of molecule Syk Adding pY as allowed state of component a of molecule Syk Read 19 reaction rule(s). Read 10 observable(s). ACTION: generate_network( fceri_ji ) Iteration 0: 4 species 0 rxns 0.00e+00 CPU s Iteration 1: 6 species 2 rxns 1.00e-02 CPU s Iteration 2: 9 species 8 rxns 1.00e-02 CPU s Iteration 3: 12 species 20 rxns 3.00e-02 CPU s Iteration 4: 22 species 36 rxns 6.00e-02 CPU s Iteration 5: 43 species 100 rxns 1.40e-01 CPU s Iteration 6: 78 species 255 rxns 3.90e-01 CPU s Iteration 7: 139 species 586 rxns 8.70e-01 CPU s Iteration 8: 199 species 1190 rxns 1.69e+00 CPU s Iteration 9: 303 species 1841 rxns 2.28e+00 CPU s Iteration 10: 354 species 3143 rxns 4.15e+00 CPU s Iteration 11: 354 species 3680 rxns 1.93e+00 CPU s Cumulative CPU time for each rule Rule 1: 48 reactions 2.40e-01 CPU s 5.00e-03 CPU s/rxn Rule 2: 1152 reactions 3.08e+00 CPU s 2.67e-03 CPU s/rxn Rule 3: 312 reactions 8.80e-01 CPU s 2.82e-03 CPU s/rxn Rule 4: 36 reactions 2.10e-01 CPU s 5.83e-03 CPU s/rxn Rule 5: 24 reactions 1.60e-01 CPU s 6.67e-03 CPU s/rxn Rule 6: 312 reactions 9.30e-01 CPU s 2.98e-03 CPU s/rxn Rule 7: 36 reactions 2.00e-01 CPU s 5.56e-03 CPU s/rxn Rule 8: 24 reactions 1.70e-01 CPU s 7.08e-03 CPU s/rxn Rule 9: 832 reactions 2.59e+00 CPU s 3.11e-03 CPU s/rxn Rule 10: 48 reactions 2.30e-01 CPU s 4.79e-03 CPU s/rxn Rule 11: 48 reactions 2.20e-01 CPU s 4.58e-03 CPU s/rxn Rule 12: 64 reactions 3.80e-01 CPU s 5.94e-03 CPU s/rxn Rule 13: 64 reactions 3.20e-01 CPU s 5.00e-03 CPU s/rxn Rule 14: 156 reactions 4.10e-01 CPU s 2.63e-03 CPU s/rxn Rule 15: 104 reactions 2.40e-01 CPU s 2.31e-03 CPU s/rxn Rule 16: 208 reactions 6.00e-01 CPU s 2.88e-03 CPU s/rxn Rule 17: 208 reactions 6.30e-01 CPU s 3.03e-03 CPU s/rxn Rule 18: 2 reactions 2.00e-02 CPU s 1.00e-02 CPU s/rxn Rule 19: 2 reactions 4.00e-02 CPU s 2.00e-02 CPU s/rxn Total : 3680 reactions 1.15e+01 CPU s 3.14e-03 CPU s/rxn Wrote network in net format to ./fceri_ji.net. CPU TIME: generate_network 11.79 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./fceri_ji.net. Wrote network in net format to ./fceri_ji.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./fceri_ji -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -g ./fceri_ji.net ./fceri_ji.net 60 10 [simulation PID is: 3106] run_network 3.0 Read 26 parameters from ./fceri_ji.net Read 354 species from ./fceri_ji.net Read 10 group(s) from ./fceri_ji.net Read 0 function(s) from ./fceri_ji.net Read 3680 reaction(s) from ./fceri_ji.net Removed 600 reactions with zero rate 3080 reaction(s) have nonzero rate Initialization took 0.06 CPU seconds Propagating with cvode using dense LU Time course of concentrations written to file ./fceri_ji.cdat. Time course of groups written to file ./fceri_ji.gdat. Propagation took 1.16e+00 CPU seconds Program times: 1.22 CPU s 1.00 clock s Updating species concentrations from ./fceri_ji.cdat CPU TIME: simulate 1.45 s. Finished processing file fceri_ji.bngl. CPU TIME: total 13.34 s. BioNetGen version 2.9.0 Reading from file test_continue.bngl (level 0) Read 19 parameters. Read 5 molecule types. Read 4 species. Read 6 observable(s). Read 6 reaction rule(s). ACTION: generate_network( test_continue ) Iteration 0: 4 species 0 rxns 0.00e+00 CPU s Iteration 1: 6 species 2 rxns 1.00e-02 CPU s Iteration 2: 7 species 5 rxns 1.00e-02 CPU s Iteration 3: 8 species 7 rxns 1.00e-02 CPU s Iteration 4: 12 species 12 rxns 1.00e-02 CPU s Iteration 5: 17 species 30 rxns 7.00e-02 CPU s Iteration 6: 22 species 59 rxns 9.00e-02 CPU s Iteration 7: 22 species 76 rxns 8.00e-02 CPU s Cumulative CPU time for each rule Rule 1: 8 reactions 3.00e-02 CPU s 3.75e-03 CPU s/rxn Rule 2: 20 reactions 9.00e-02 CPU s 4.50e-03 CPU s/rxn Rule 3: 4 reactions 2.00e-02 CPU s 5.00e-03 CPU s/rxn Rule 4: 6 reactions 2.00e-02 CPU s 3.33e-03 CPU s/rxn Rule 5: 24 reactions 6.00e-02 CPU s 2.50e-03 CPU s/rxn Rule 6: 14 reactions 6.00e-02 CPU s 4.29e-03 CPU s/rxn Total : 76 reactions 2.80e-01 CPU s 3.68e-03 CPU s/rxn Wrote network in net format to ./test_continue.net. CPU TIME: generate_network 0.29 s. Set concentration of species EGF(R) to value EGF_init CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./test_continue.net. Wrote network in net format to ./test_continue.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./test_continue -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -g ./test_continue.net ./test_continue.net 2.5 40 [simulation PID is: 3108] run_network 3.0 Read 19 parameters from ./test_continue.net Read 22 species from ./test_continue.net Read 6 group(s) from ./test_continue.net Read 0 function(s) from ./test_continue.net Read 76 reaction(s) from ./test_continue.net 76 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using dense LU Time course of concentrations written to file ./test_continue.cdat. Time course of groups written to file ./test_continue.gdat. Propagation took 1.00e-02 CPU seconds Program times: 0.01 CPU s 0.00 clock s Updating species concentrations from ./test_continue.cdat CPU TIME: simulate 0.02 s. Set concentration of species EGF(R) to value 10*EGF_init CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./test_continue.net. Wrote network in net format to ./test_continue.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./test_continue -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -x -i 1.000000000000e+02 -g ./test_continue.net ./test_continue.net 2.5 40 [simulation PID is: 3110] run_network 3.0 Read 20 parameters from ./test_continue.net Read 22 species from ./test_continue.net Read 6 group(s) from ./test_continue.net Read 0 function(s) from ./test_continue.net Read 76 reaction(s) from ./test_continue.net 76 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using dense LU Time course of concentrations written to file ./test_continue.cdat. Time course of groups written to file ./test_continue.gdat. Propagation took 1.00e-02 CPU seconds Program times: 0.01 CPU s 0.00 clock s Updating species concentrations from ./test_continue.cdat CPU TIME: simulate 0.03 s. Set concentration of species EGF(R) to value 0.1*EGF_init CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"cvode" ) Network simulation using cvode WARNING: writeFile(): Overwriting existing file ./test_continue.net. Wrote network in net format to ./test_continue.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./test_continue -p cvode -a 1e-08 -r 1e-08 --cdat 1 --fdat 0 -x -i 2.000000000000e+02 -g ./test_continue.net ./test_continue.net 2.5 40 [simulation PID is: 3112] run_network 3.0 Read 21 parameters from ./test_continue.net Read 22 species from ./test_continue.net Read 6 group(s) from ./test_continue.net Read 0 function(s) from ./test_continue.net Read 76 reaction(s) from ./test_continue.net 76 reaction(s) have nonzero rate Initialization took 0.00 CPU seconds Propagating with cvode using dense LU Time course of concentrations written to file ./test_continue.cdat. Time course of groups written to file ./test_continue.gdat. Propagation took 1.00e-02 CPU seconds Program times: 0.01 CPU s 0.00 clock s Updating species concentrations from ./test_continue.cdat CPU TIME: simulate 0.03 s. Reset species concentrations to "DEFAULT" saved values. CPU TIME: resetConcentrations 0.00 s. Set concentration of species EGF(R) to value EGF_init CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"ssa" ) Network simulation using ssa Wrote network in net format to ./test_continue_ssa.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./test_continue_ssa -p ssa -h 854474790 --cdat 1 --fdat 0 -g ./test_continue_ssa.net ./test_continue_ssa.net 2.5 40 [simulation PID is: 3114] run_network 3.0 Read 21 parameters from ./test_continue_ssa.net Read 22 species from ./test_continue_ssa.net Read 6 group(s) from ./test_continue_ssa.net Read 0 function(s) from ./test_continue_ssa.net Read 76 reaction(s) from ./test_continue_ssa.net 76 reaction(s) have nonzero rate rxn_rate_update_interval=1 Average number of update rxns is 14.17 Initialization took 0.00 CPU seconds Stochastic simulation using direct Gillespie algorithm TOTAL STEPS: 70445 Time course of concentrations written to file ./test_continue_ssa.cdat. Time course of groups written to file ./test_continue_ssa.gdat. Propagation took 3.00e-02 CPU seconds Program times: 0.03 CPU s 0.00 clock s Updating species concentrations from ./test_continue_ssa.cdat CPU TIME: simulate 0.05 s. Set concentration of species EGF(R) to value 10*EGF_init CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"ssa" ) Network simulation using ssa WARNING: writeFile(): Overwriting existing file ./test_continue_ssa.net. Wrote network in net format to ./test_continue_ssa.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./test_continue_ssa -p ssa -h 888203940 --cdat 1 --fdat 0 -x -i 1.000000000000e+02 -g ./test_continue_ssa.net ./test_continue_ssa.net 2.5 40 [simulation PID is: 3116] run_network 3.0 Read 22 parameters from ./test_continue_ssa.net Read 22 species from ./test_continue_ssa.net Read 6 group(s) from ./test_continue_ssa.net Read 0 function(s) from ./test_continue_ssa.net Read 76 reaction(s) from ./test_continue_ssa.net 76 reaction(s) have nonzero rate rxn_rate_update_interval=1 Average number of update rxns is 14.17 Initialization took 0.00 CPU seconds Stochastic simulation using direct Gillespie algorithm TOTAL STEPS: 130034 Time course of concentrations written to file ./test_continue_ssa.cdat. Time course of groups written to file ./test_continue_ssa.gdat. Propagation took 6.00e-02 CPU seconds Program times: 0.06 CPU s 0.00 clock s Updating species concentrations from ./test_continue_ssa.cdat CPU TIME: simulate 0.09 s. Set concentration of species EGF(R) to value 0.1*EGF_init CPU TIME: setConcentration 0.00 s. ACTION: simulate( method=>"ssa" ) Network simulation using ssa WARNING: writeFile(): Overwriting existing file ./test_continue_ssa.net. Wrote network in net format to ./test_continue_ssa.net. Can't exec "hostname": No such file or directory at /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/Perl2/BNGAction.pm line 548. Running run_network on full command: /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/bin/run_network_ppc64le-linux -o ./test_continue_ssa -p ssa -h 2072590280 --cdat 1 --fdat 0 -x -i 2.000000000000e+02 -g ./test_continue_ssa.net ./test_continue_ssa.net 2.5 40 [simulation PID is: 3118] run_network 3.0 Read 23 parameters from ./test_continue_ssa.net Read 22 species from ./test_continue_ssa.net Read 6 group(s) from ./test_continue_ssa.net Read 0 function(s) from ./test_continue_ssa.net Read 76 reaction(s) from ./test_continue_ssa.net 76 reaction(s) have nonzero rate rxn_rate_update_interval=1 Average number of update rxns is 14.17 Initialization took 0.00 CPU seconds Stochastic simulation using direct Gillespie algorithm TOTAL STEPS: 106359 Time course of concentrations written to file ./test_continue_ssa.cdat. Time course of groups written to file ./test_continue_ssa.gdat. Propagation took 5.00e-02 CPU seconds Program times: 0.05 CPU s 0.00 clock s Updating species concentrations from ./test_continue_ssa.cdat CPU TIME: simulate 0.07 s. Finished processing file test_continue.bngl. CPU TIME: total 0.64 s. Tests finished. + echo 'Tests finished.' + RPM_EC=0 ++ jobs -p + exit 0 Processing files: bionetgen-2.9.0-3.fc40.ppc64le Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.dE6Ajf + umask 022 + cd /builddir/build/BUILD + cd bionetgen-2.9.0 + DOCDIR=/builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/doc/bionetgen + export LC_ALL= + LC_ALL= + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/doc/bionetgen + cp -pr /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/README.md /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/doc/bionetgen + cp -pr /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/CREDITS.txt /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/doc/bionetgen + cp -pr /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/CHANGES.txt /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/doc/bionetgen + cp -pr /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/bng2/VERSION /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/doc/bionetgen + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.cmYHZ9 + umask 022 + cd /builddir/build/BUILD + cd bionetgen-2.9.0 + LICENSEDIR=/builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/licenses/bionetgen + export LC_ALL= + LC_ALL= + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/licenses/bionetgen + cp -pr /builddir/build/BUILD/bionetgen-2.9.0/bionetgen-BioNetGen-2.9.0/LICENSE /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le/usr/share/licenses/bionetgen + RPM_EC=0 ++ jobs -p + exit 0 Provides: bionetgen = 2.9.0-3.fc40 bionetgen(ppc-64) = 2.9.0-3.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.17)(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.32)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) rtld(GNU_HASH) Processing files: bionetgen-perl-2.9.0-3.fc40.noarch Provides: bionetgen-perl = 2.9.0-3.fc40 bundled(XML-TreePP) = 0.41 perl(Viz) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/perl perl(Carp) perl(Class::Struct) perl(Config) perl(Cwd) perl(Data::Dumper) perl(Exporter) perl(File::Basename) perl(File::Path) perl(File::Spec) perl(File::Spec::Win32) perl(FindBin) perl(Getopt::Long) perl(IO::Handle) perl(IO::Select) perl(IPC::Open3) perl(List::Util) perl(Math::Trig) perl(POSIX) perl(Scalar::Util) perl(Storable) perl(Symbol) perl(constant) perl(lib) perl(strict) perl(vars) perl(warnings) perl-libs Processing files: bionetgen-debugsource-2.9.0-3.fc40.ppc64le Provides: bionetgen-debugsource = 2.9.0-3.fc40 bionetgen-debugsource(ppc-64) = 2.9.0-3.fc40 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: bionetgen-debuginfo-2.9.0-3.fc40.ppc64le Provides: bionetgen-debuginfo = 2.9.0-3.fc40 bionetgen-debuginfo(ppc-64) = 2.9.0-3.fc40 debuginfo(build-id) = f5ce17a7cb5beb5853951597798e2482ed9fe2dd Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: bionetgen-debugsource(ppc-64) = 2.9.0-3.fc40 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/bionetgen-2.9.0-3.fc40.ppc64le Wrote: /builddir/build/RPMS/bionetgen-2.9.0-3.fc40.ppc64le.rpm Wrote: /builddir/build/RPMS/bionetgen-debugsource-2.9.0-3.fc40.ppc64le.rpm Wrote: /builddir/build/RPMS/bionetgen-perl-2.9.0-3.fc40.noarch.rpm Wrote: /builddir/build/RPMS/bionetgen-debuginfo-2.9.0-3.fc40.ppc64le.rpm Child return code was: 0