Mock Version: 5.5 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/openbabel.spec'], chrootPath='/var/lib/mock/fedorarebuild-x86_64-Fz9RufyK0G/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=0uid=11527gid=900user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.jbbkafnd:/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']unshare_net=TrueprintOutput=False) Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.jbbkafnd:/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', '700ece11de05495caacd8cbd2e0b1297', '-D', '/var/lib/mock/fedorarebuild-x86_64-Fz9RufyK0G/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.jbbkafnd:/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 --target x86_64 --nodeps /builddir/build/SPECS/openbabel.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 sh: line 1: perl: command not found warning: %patchN is deprecated (9 usages found), use %patch N (or %patch -P N) warning: bogus date in %changelog: Thu Mar 28 2023 Antonio Trande - 3.1.1-25 error: %changelog not in descending chronological order Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1713484800 Wrote: /builddir/build/SRPMS/openbabel-3.1.1-26.fc41.src.rpm RPM build warnings: %patchN is deprecated (9 usages found), use %patch N (or %patch -P N) bogus date in %changelog: Thu Mar 28 2023 Antonio Trande - 3.1.1-25 Child return code was: 0 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/openbabel.spec'], chrootPath='/var/lib/mock/fedorarebuild-x86_64-Fz9RufyK0G/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=0uid=11527gid=900user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.jbbkafnd:/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']unshare_net=TrueprintOutput=False) Using nspawn with args ['--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.jbbkafnd:/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', '4c83f081d5eb443788bb505bb86b1453', '-D', '/var/lib/mock/fedorarebuild-x86_64-Fz9RufyK0G/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.jbbkafnd:/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 --target x86_64 --nodeps /builddir/build/SPECS/openbabel.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 warning: %patchN is deprecated (9 usages found), use %patch N (or %patch -P N) warning: bogus date in %changelog: Thu Mar 28 2023 Antonio Trande - 3.1.1-25 error: %changelog not in descending chronological order Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1713484800 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.FGDHgq + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf openbabel-openbabel-3-1-1 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/openbabel-openbabel-3-1-1.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd openbabel-openbabel-3-1-1 + rm -rf /builddir/build/BUILD/openbabel-openbabel-3-1-1-SPECPARTS + /usr/bin/mkdir -p /builddir/build/BUILD/openbabel-openbabel-3-1-1-SPECPARTS + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + echo 'Patch #0 (openbabel-perl.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .perl_path --fuzz=0 Patch #0 (openbabel-perl.patch): patching file scripts/CMakeLists.txt Hunk #1 succeeded at 367 (offset 31 lines). Patch #1 (openbabel-plugindir.patch): + echo 'Patch #1 (openbabel-plugindir.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .plugindir --fuzz=0 patching file CMakeLists.txt patching file OpenBabel3Config.cmake.in Patch #2 (openbabel-noswig-rubymethod.patch): + echo 'Patch #2 (openbabel-noswig-rubymethod.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .noswig_ruby --fuzz=0 patching file scripts/CMakeLists.txt Hunk #1 succeeded at 416 (offset 42 lines). Patch #3 (openbabel-ruby19-vendorarch.patch): + echo 'Patch #3 (openbabel-ruby19-vendorarch.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .ruby_vendor --fuzz=0 patching file scripts/CMakeLists.txt Hunk #1 succeeded at 447 (offset 47 lines). Patch #5 (openbabel-fix-libdir-in-pkgconfig.patch): + echo 'Patch #5 (openbabel-fix-libdir-in-pkgconfig.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .s390x --fuzz=0 patching file openbabel-3.pc.cmake Patch #7 (openbabel-3.1.1-fix_bug2223.patch): + echo 'Patch #7 (openbabel-3.1.1-fix_bug2223.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .backup --fuzz=0 patching file src/forcefields/forcefielduff.cpp Patch #8 (openbabel-3.1.1-fix_bug2217.patch): + echo 'Patch #8 (openbabel-3.1.1-fix_bug2217.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .backup --fuzz=0 patching file test/testdistgeom.py Patch #9 (openbabel-3.1.1-bug2378.patch): + echo 'Patch #9 (openbabel-3.1.1-bug2378.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .backup --fuzz=0 patching file scripts/CMakeLists.txt Hunk #1 succeeded at 102 (offset -4 lines). Patch #10 (openbabel-3.1.1-bug2493.patch): + echo 'Patch #10 (openbabel-3.1.1-bug2493.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .backup --fuzz=0 patching file src/config.h.cmake + rm -rf src/formats/libinchi + dos2unix -k data/chemdrawcdx.h include/openbabel/tautomer.h include/openbabel/math/align.h src/math/align.cpp test/testsmartssym.py dos2unix: converting file data/chemdrawcdx.h to Unix format... dos2unix: converting file include/openbabel/tautomer.h to Unix format... dos2unix: converting file include/openbabel/math/align.h to Unix format... dos2unix: converting file src/math/align.cpp to Unix format... dos2unix: converting file test/testsmartssym.py to Unix format... + convert src/GUI/babel.xpm -transparent white babel.png + pushd doc ~/build/BUILD/openbabel-openbabel-3-1-1/doc ~/build/BUILD/openbabel-openbabel-3-1-1 + for man in *.1 ++ basename obabel.1 .1 + html=obabel.html + '[' -f obabel.html ']' + rm obabel.html + for man in *.1 ++ basename obchiral.1 .1 + html=obchiral.html + '[' -f obchiral.html ']' + rm obchiral.html + for man in *.1 ++ basename obconformer.1 .1 + html=obconformer.html + '[' -f obconformer.html ']' + rm obconformer.html + for man in *.1 ++ basename obdistgen.1 .1 + html=obdistgen.html + '[' -f obdistgen.html ']' + for man in *.1 ++ basename obenergy.1 .1 + html=obenergy.html + '[' -f obenergy.html ']' + rm obenergy.html + for man in *.1 ++ basename obfit.1 .1 + html=obfit.html + '[' -f obfit.html ']' + rm obfit.html + for man in *.1 ++ basename obgen.1 .1 + html=obgen.html + '[' -f obgen.html ']' + rm obgen.html + for man in *.1 ++ basename obgrep.1 .1 + html=obgrep.html + '[' -f obgrep.html ']' + rm obgrep.html + for man in *.1 ++ basename obgui.1 .1 + html=obgui.html + '[' -f obgui.html ']' + rm obgui.html + for man in *.1 ++ basename obminimize.1 .1 + html=obminimize.html + '[' -f obminimize.html ']' + rm obminimize.html + for man in *.1 ++ basename obprobe.1 .1 + html=obprobe.html + '[' -f obprobe.html ']' + rm obprobe.html + for man in *.1 ++ basename obprop.1 .1 + html=obprop.html + '[' -f obprop.html ']' + rm obprop.html + for man in *.1 ++ basename obrms.1 .1 + html=obrms.html + '[' -f obrms.html ']' + for man in *.1 ++ basename obrotamer.1 .1 + html=obrotamer.html + '[' -f obrotamer.html ']' + rm obrotamer.html + for man in *.1 ++ basename obrotate.1 .1 + html=obrotate.html + '[' -f obrotate.html ']' + rm obrotate.html + for man in *.1 ++ basename obspectrophore.1 .1 + html=obspectrophore.html + '[' -f obspectrophore.html ']' + rm obspectrophore.html + for man in *.1 ++ basename obsym.1 .1 + html=obsym.html + '[' -f obsym.html ']' + for man in *.1 ++ basename obtautomer.1 .1 + html=obtautomer.html + '[' -f obtautomer.html ']' + for man in *.1 ++ basename obthermo.1 .1 + html=obthermo.html + '[' -f obthermo.html ']' + for man in *.1 ++ basename roundtrip.1 .1 + html=roundtrip.html + '[' -f roundtrip.html ']' ~/build/BUILD/openbabel-openbabel-3-1-1 + popd + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.dnisCZ + 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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + 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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + 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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -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-errors -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 openbabel-openbabel-3-1-1 + mkdir -p x86_64-redhat-linux-gnu + 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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + 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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer ' + 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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cstrip=none -Cforce-frame-pointers=yes -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-errors -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 redhat-linux-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 -B x86_64-redhat-linux-gnu -Wno-dev -DCMAKE_SKIP_RPATH:BOOL=ON -DBUILD_GUI:BOOL=ON -DPYTHON_BINDINGS:BOOL=ON -DPYTHON_EXECUTABLE=/usr/bin/python3 -DPERL_BINDINGS:BOOL=ON -DRUBY_BINDINGS:BOOL=ON -DWITH_MAEPARSER:BOOL=OFF -DWITH_COORDGEN:BOOL=OFF -DOB_PLUGIN_INSTALL_DIR:PATH=lib64/openbabel3 -DOPENBABEL_USE_SYSTEM_INCHI=true -DINCHI_INCLUDE_DIR:PATH=/usr/include/inchi -DINCHI_LIBRARY:FILEPATH=/usr/lib64/libinchi.so -DENABLE_VERSIONED_FORMATS=false -DRUN_SWIG=true -DENABLE_TESTS:BOOL=ON -DOPTIMIZE_NATIVE=OFF -DGLIBC_24_COMPATIBLE:BOOL=OFF -- The C compiler identification is GNU 14.0.1 -- The CXX compiler identification is GNU 14.0.1 -- 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 -- Found LibXml2: /usr/lib64/libxml2.so (found version "2.12.6") -- Found ZLIB: /usr/lib64/libz.so (found version "1.3.0") -- Found wxWidgets: -pthread;;;-lwx_baseu-3.2;-lwx_gtk3u_core-3.2 (found version "3.2.4") -- Looking for conio.h -- Looking for conio.h - not found -- Looking for sys/time.h -- Looking for sys/time.h - found -- Looking for time.h -- Looking for time.h - found -- Looking for strings.h -- Looking for strings.h - found -- Looking for rpc/xdr.h -- Looking for rpc/xdr.h - not found -- Looking for regex.h -- Looking for regex.h - found -- Looking for C++ include sstream -- Looking for C++ include sstream - found -- Looking for rint -- Looking for rint - not found -- Looking for snprintf -- Looking for snprintf - found -- Looking for sranddev -- Looking for sranddev - not found -- Looking for strcasecmp -- Looking for strcasecmp - found -- Looking for strncasecmp -- Looking for strncasecmp - found -- Looking for dlopen in dl -- Looking for dlopen in dl - found -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of clock_t -- Check size of clock_t - done -- Performing Test SCANDIR_NEEDS_CONST -- Performing Test SCANDIR_NEEDS_CONST - Failed -- Performing Test HAVE_GCC_VISIBILITY -- Performing Test HAVE_GCC_VISIBILITY - Success -- Checking available shared pointer... -- Performing Test HAVE_STD_SHARED_PTR -- Performing Test HAVE_STD_SHARED_PTR - Success -- Performing Test HAVE_STD_TR1_SHARED_PTR -- Performing Test HAVE_STD_TR1_SHARED_PTR - Failed -- Performing Test HAVE_STD_TR1_SHARED_PTR_IN_TR1_HEADER -- Performing Test HAVE_STD_TR1_SHARED_PTR_IN_TR1_HEADER - Success -- Use std::shared_ptr in memory -- Found Boost: /usr/lib64/cmake/Boost-1.83.0/BoostConfig.cmake (found version "1.83.0") found components: program_options iostreams -- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0") -- Found Boost: /usr/lib64/cmake/Boost-1.83.0/BoostConfig.cmake (found version "1.83.0") found components: filesystem iostreams unit_test_framework -- Maestro formats will NOT be supported. Please install Boost to enable Maestro formats. -- Coordinate generation with Coordgen will NOT be supported. Please install Boost to enable Maestro formats. -- Found PkgConfig: /usr/bin/pkg-config (found version "2.1.0") -- Found RapidJSON: /usr/include (found suitable version "1.1.0", minimum required is "1.1.0") -- JSON formats will be supported. Using RapidJSON 1.1.0 at /usr/include -- Checking for module 'cairo' -- Found cairo, version 1.18.0 -- Found Cairo: /usr/lib64/libcairo.so -- Cairo found. PNG output will be supported. -- Found Boost: /usr/lib64/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable version "1.83.0", minimum required is "1.45.0") found components: system -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Found Boost: /usr/lib64/cmake/Boost-1.83.0/BoostConfig.cmake (found version "1.83.0") found components: program_options iostreams -- Looking for getopt -- Looking for getopt - found -- Attempting to build the GUI -- wxWidgets found => GUI will be built -- Found PythonInterp: /usr/bin/python3 (found version "3.12.3") -- Found SWIG: /usr/bin/swig (found version "4.2.1") -- Found SWIG: /usr/bin/swig (found suitable version "4.2.1", minimum required is "2.0") -- Found PythonLibs: /usr/lib64/libpython3.12.so (found version "3.12.3") -- Python bindings will be compiled -- Found Perl: /usr/bin/perl (found version "5.38.2") -- Found PerlLibs: /usr/lib64/libperl.so (found version "5.38.2") -- Perl bindings will be compiled -- Found Ruby: /usr/bin/ruby (found suitable version "3.3.0", minimum required is "1.8.0") -- Ruby bindings will be compiled -- Configuring done (15.4s) -- Generating done (0.4s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_C_FLAGS_RELEASE CMAKE_Fortran_FLAGS_RELEASE CMAKE_INSTALL_DO_STRIP INCLUDE_INSTALL_DIR SHARE_INSTALL_PREFIX SYSCONF_INSTALL_DIR -- Build files have been written to: /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu + /usr/bin/make -O -j4 V=1 VERBOSE=1 -C x86_64-redhat-linux-gnu make: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/cmake -S/builddir/build/BUILD/openbabel-openbabel-3-1-1 -B/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/cmake -E cmake_progress_start /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/CMakeFiles /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu//CMakeFiles/progress.marks make: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f CMakeFiles/Makefile2 all /usr/bin/make -f src/CMakeFiles/openbabel.dir/build.make src/CMakeFiles/openbabel.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu 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-I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/base.cpp.o -MF CMakeFiles/openbabel.dir/base.cpp.o.d -o CMakeFiles/openbabel.dir/base.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/base.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory 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-m64 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/bitvec.cpp.o -MF CMakeFiles/openbabel.dir/bitvec.cpp.o.d -o CMakeFiles/openbabel.dir/bitvec.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/bitvec.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/bond.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/bond.cpp.o -MF CMakeFiles/openbabel.dir/bond.cpp.o.d -o CMakeFiles/openbabel.dir/bond.cpp.o -c 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-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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/atom.cpp.o -MF CMakeFiles/openbabel.dir/atom.cpp.o.d -o CMakeFiles/openbabel.dir/atom.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/atom.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/bondtyper.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/bondtyper.cpp.o -MF CMakeFiles/openbabel.dir/bondtyper.cpp.o.d -o CMakeFiles/openbabel.dir/bondtyper.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/bondtyper.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 0%] Building CXX object src/CMakeFiles/openbabel.dir/alias.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/alias.cpp.o -MF CMakeFiles/openbabel.dir/alias.cpp.o.d -o CMakeFiles/openbabel.dir/alias.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/alias.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/alias.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/alias.cpp:16: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 2%] Building CXX object src/CMakeFiles/openbabel.dir/chargemodel.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/chargemodel.cpp.o -MF CMakeFiles/openbabel.dir/chargemodel.cpp.o.d -o CMakeFiles/openbabel.dir/chargemodel.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/chargemodel.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/chargemodel.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/chains.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/chains.cpp.o -MF CMakeFiles/openbabel.dir/chains.cpp.o.d -o CMakeFiles/openbabel.dir/chains.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/chains.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 2%] Building CXX object src/CMakeFiles/openbabel.dir/data.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/data.cpp.o -MF CMakeFiles/openbabel.dir/data.cpp.o.d -o CMakeFiles/openbabel.dir/data.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/data.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 2%] Building CXX object src/CMakeFiles/openbabel.dir/data_utilities.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/data_utilities.cpp.o -MF CMakeFiles/openbabel.dir/data_utilities.cpp.o.d -o CMakeFiles/openbabel.dir/data_utilities.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/data_utilities.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/builder.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/builder.cpp.o -MF CMakeFiles/openbabel.dir/builder.cpp.o.d -o CMakeFiles/openbabel.dir/builder.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/builder.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/builder.cpp:31: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/builder.h:23, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/builder.cpp:22: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 2%] Building CXX object src/CMakeFiles/openbabel.dir/elements.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/elements.cpp.o -MF CMakeFiles/openbabel.dir/elements.cpp.o.d -o CMakeFiles/openbabel.dir/elements.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/elements.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 2%] Building CXX object src/CMakeFiles/openbabel.dir/descriptor.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/descriptor.cpp.o -MF CMakeFiles/openbabel.dir/descriptor.cpp.o.d -o CMakeFiles/openbabel.dir/descriptor.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptor.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptor.cpp:23: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/oberror.h:26, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptor.cpp:20: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/canon.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/canon.cpp.o -MF CMakeFiles/openbabel.dir/canon.cpp.o.d -o CMakeFiles/openbabel.dir/canon.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/canon.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 3%] Building CXX object src/CMakeFiles/openbabel.dir/format.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/format.cpp.o -MF CMakeFiles/openbabel.dir/format.cpp.o.d -o CMakeFiles/openbabel.dir/format.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/format.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/format.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 3%] Building CXX object src/CMakeFiles/openbabel.dir/fingerprint.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/fingerprint.cpp.o -MF CMakeFiles/openbabel.dir/fingerprint.cpp.o.d -o CMakeFiles/openbabel.dir/fingerprint.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprint.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/fingerprint.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprint.cpp:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprint.cpp:21: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 4%] Building CXX object src/CMakeFiles/openbabel.dir/grid.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/grid.cpp.o -MF CMakeFiles/openbabel.dir/grid.cpp.o.d -o CMakeFiles/openbabel.dir/grid.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/grid.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/grid.cpp:24: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/grid.h:55:18: warning: ‘virtual void OpenBabel::OBGrid::Init(OpenBabel::OBMol&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void Init(OBMol &box); | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/grid.h:123:10: note: by ‘void OpenBabel::OBFloatGrid::Init(OpenBabel::OBMol&, double, double)’ 123 | void Init(OBMol &box,double spacing, double pad=0.0); | ^~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 3%] Building CXX object src/CMakeFiles/openbabel.dir/graphsym.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/graphsym.cpp.o -MF CMakeFiles/openbabel.dir/graphsym.cpp.o.d -o CMakeFiles/openbabel.dir/graphsym.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/graphsym.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 4%] Building CXX object src/CMakeFiles/openbabel.dir/griddata.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/griddata.cpp.o -MF CMakeFiles/openbabel.dir/griddata.cpp.o.d -o CMakeFiles/openbabel.dir/griddata.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/griddata.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/generic.h:31, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/griddata.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/griddata.cpp:25: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/base.h:228:32: warning: ‘virtual const std::string& OpenBabel::OBGenericData::GetValue() const’ was hidden [-Woverloaded-virtual=] 228 | virtual const std::string &GetValue() const | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/griddata.h:76:12: note: by ‘OpenBabel::OBGridData::GetValue’ 76 | double GetValue (vector3 pos) const; | ^~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/griddata.cpp:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/grid.h:55:18: warning: ‘virtual void OpenBabel::OBGrid::Init(OpenBabel::OBMol&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void Init(OBMol &box); | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/grid.h:123:10: note: by ‘void OpenBabel::OBFloatGrid::Init(OpenBabel::OBMol&, double, double)’ 123 | void Init(OBMol &box,double spacing, double pad=0.0); | ^~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 3%] Building CXX object src/CMakeFiles/openbabel.dir/generic.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/generic.cpp.o -MF CMakeFiles/openbabel.dir/generic.cpp.o.d -o CMakeFiles/openbabel.dir/generic.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/generic.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 4%] Building CXX object src/CMakeFiles/openbabel.dir/kekulize.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/kekulize.cpp.o -MF CMakeFiles/openbabel.dir/kekulize.cpp.o.d -o CMakeFiles/openbabel.dir/kekulize.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/kekulize.cpp /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/kekulize.cpp: In function ‘bool OpenBabel::NeedsDoubleBond(OBAtom*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/kekulize.cpp:94:15: warning: unused variable ‘nbr’ [-Wunused-variable] 94 | OBAtom *nbr = bond->GetNbrAtom(atom); | ^~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 4%] Building CXX object src/CMakeFiles/openbabel.dir/locale.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/locale.cpp.o -MF CMakeFiles/openbabel.dir/locale.cpp.o.d -o CMakeFiles/openbabel.dir/locale.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/locale.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 5%] Building CXX object src/CMakeFiles/openbabel.dir/matrix.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/matrix.cpp.o -MF CMakeFiles/openbabel.dir/matrix.cpp.o.d -o CMakeFiles/openbabel.dir/matrix.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/matrix.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 4%] Building CXX object src/CMakeFiles/openbabel.dir/isomorphism.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/isomorphism.cpp.o -MF CMakeFiles/openbabel.dir/isomorphism.cpp.o.d -o CMakeFiles/openbabel.dir/isomorphism.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/isomorphism.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 5%] Building CXX object src/CMakeFiles/openbabel.dir/molchrg.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection 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-I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/forcefield.cpp.o -MF CMakeFiles/openbabel.dir/forcefield.cpp.o.d -o CMakeFiles/openbabel.dir/forcefield.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:24: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_tree.h:65, from /usr/include/c++/14/set:62, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:22: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/grid.h:55:18: warning: ‘virtual void OpenBabel::OBGrid::Init(OpenBabel::OBMol&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void Init(OBMol &box); | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/grid.h:123:10: note: by ‘void OpenBabel::OBFloatGrid::Init(OpenBabel::OBMol&, double, double)’ 123 | void Init(OBMol &box,double spacing, double pad=0.0); | ^~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:48, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:26: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/base.h:228:32: warning: ‘virtual const std::string& OpenBabel::OBGenericData::GetValue() const’ was hidden [-Woverloaded-virtual=] 228 | virtual const std::string &GetValue() const | ^~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/griddata.h:76:12: note: by ‘OpenBabel::OBGridData::GetValue’ 76 | double GetValue (vector3 pos) const; | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In static member function ‘static bool OpenBabel::OBForceField::IgnoreCalculation(int, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:391:21: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 391 | if (_ignoreAtom == a) | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:393:21: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 393 | if (_ignoreAtom == b) | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In static member function ‘static bool OpenBabel::OBForceField::IgnoreCalculation(int, int, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:403:21: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 403 | if (_ignoreAtom == b) | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In static member function ‘static bool OpenBabel::OBForceField::IgnoreCalculation(int, int, int, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:413:21: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 413 | if (_ignoreAtom == d) | ~~~~~~~~~~~~^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘int OpenBabel::OBFFConstraints::GetConstraintType(int) const’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:665:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 665 | if (index >= _constraints.size()) | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘double OpenBabel::OBFFConstraints::GetConstraintValue(int) const’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:673:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 673 | if (index >= _constraints.size()) | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘int OpenBabel::OBFFConstraints::GetConstraintAtomA(int) const’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:681:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 681 | if (index >= _constraints.size()) | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘int OpenBabel::OBFFConstraints::GetConstraintAtomB(int) const’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:689:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 689 | if (index >= _constraints.size()) | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘int OpenBabel::OBFFConstraints::GetConstraintAtomC(int) const’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:697:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 697 | if (index >= _constraints.size()) | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘int OpenBabel::OBFFConstraints::GetConstraintAtomD(int) const’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:705:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 705 | if (index >= _constraints.size()) | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘int OpenBabel::OBForceField::FastRotorSearch(bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:1353:34: warning: array subscript has type ‘char’ [-Wchar-subscripts] 1353 | num_permutations = factorial[num_rotors_to_permute]; | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:1357:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1357 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1370 | for (int i=0; i >&, std::vector, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:1571:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘__gnu_cxx::__alloc_traits, int>::value_type’ {aka ‘int’} [-Wsign-compare] 1571 | if (j == rotorKey[i]) /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:1590:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘__gnu_cxx::__alloc_traits, int>::value_type’ {aka ‘int’} [-Wsign-compare] 1590 | if (j == rotorKey[i]) In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAtomZConstraint(int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:624:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rab0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAtomZConstraint(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:620:20: note: ‘constraint’ declared here 620 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAtomZConstraint(int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:624:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rbc0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAtomZConstraint(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:620:20: note: ‘constraint’ declared here 620 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddDistanceConstraint(int, int, double)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:635:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rab0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddDistanceConstraint(int, int, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:629:20: note: ‘constraint’ declared here 629 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddDistanceConstraint(int, int, double)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:635:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rbc0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddDistanceConstraint(int, int, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:629:20: note: ‘constraint’ declared here 629 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAngleConstraint(int, int, int, double)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:647:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rab0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAngleConstraint(int, int, int, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:640:20: note: ‘constraint’ declared here 640 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAngleConstraint(int, int, int, double)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:647:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rbc0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAngleConstraint(int, int, int, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:640:20: note: ‘constraint’ declared here 640 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddTorsionConstraint(int, int, int, int, double)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:660:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rab0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddTorsionConstraint(int, int, int, int, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:652:20: note: ‘constraint’ declared here 652 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddTorsionConstraint(int, int, int, int, double)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:660:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rbc0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddTorsionConstraint(int, int, int, int, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:652:20: note: ‘constraint’ declared here 652 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddIgnore(int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:580:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM [(double *)&constraint + 16B]’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddIgnore(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:577:20: note: ‘constraint’ declared here 577 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAtomConstraint(int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:591:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rab0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAtomConstraint(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:587:20: note: ‘constraint’ declared here 587 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAtomConstraint(int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:591:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rbc0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAtomConstraint(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:587:20: note: ‘constraint’ declared here 587 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAtomXConstraint(int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:602:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rab0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAtomXConstraint(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:598:20: note: ‘constraint’ declared here 598 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAtomXConstraint(int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:602:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rbc0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAtomXConstraint(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:598:20: note: ‘constraint’ declared here 598 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAtomYConstraint(int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:613:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rab0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAtomYConstraint(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:609:20: note: ‘constraint’ declared here 609 | OBFFConstraint constraint; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFConstraint::OBFFConstraint(OpenBabel::OBFFConstraint const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFConstraint*, OpenBabel::OBFFConstraint const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFConstraint const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBFFConstraints::AddAtomYConstraint(int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:613:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:233:16: warning: ‘MEM[(const struct OBFFConstraint &)&constraint].rbc0’ may be used uninitialized [-Wmaybe-uninitialized] 233 | class OBFPRT OBFFConstraint | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBFFConstraints::AddAtomYConstraint(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:609:20: note: ‘constraint’ declared here 609 | OBFFConstraint constraint; | ^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp: In member function ‘OpenBabel::OBForceField::FastRotorSearch(bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:1393:29: warning: ‘minj’ may be used uninitialized [-Wmaybe-uninitialized] 1393 | rotorKey[idx + 1] = minj; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:1319:21: note: ‘minj’ was declared here 1319 | unsigned int j, minj; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:1410:11: warning: ‘minE’ may be used uninitialized [-Wmaybe-uninitialized] 1410 | if (minE < best_minE) { | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefield.cpp:1320:22: note: ‘minE’ was declared here 1320 | double currentE, minE, best_minE; | ^~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 6%] Building CXX object src/CMakeFiles/openbabel.dir/oberror.cpp.o cd 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-I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obfunctions.cpp.o -MF CMakeFiles/openbabel.dir/obfunctions.cpp.o.d -o CMakeFiles/openbabel.dir/obfunctions.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/obfunctions.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 5%] Building CXX object src/CMakeFiles/openbabel.dir/obconversion.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obconversion.cpp.o -MF CMakeFiles/openbabel.dir/obconversion.cpp.o.d -o CMakeFiles/openbabel.dir/obconversion.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/obconversion.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/obconversion.cpp:48: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/obconversion.cpp:37: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 6%] Building CXX object src/CMakeFiles/openbabel.dir/obutil.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obutil.cpp.o -MF CMakeFiles/openbabel.dir/obutil.cpp.o.d -o CMakeFiles/openbabel.dir/obutil.cpp.o -c 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-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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obiter.cpp.o -MF CMakeFiles/openbabel.dir/obiter.cpp.o.d -o CMakeFiles/openbabel.dir/obiter.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/obiter.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 6%] Building CXX object src/CMakeFiles/openbabel.dir/op.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/op.cpp.o -MF CMakeFiles/openbabel.dir/op.cpp.o.d -o CMakeFiles/openbabel.dir/op.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/op.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/op.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/patty.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 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-I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/mol.cpp.o -MF CMakeFiles/openbabel.dir/mol.cpp.o.d -o CMakeFiles/openbabel.dir/mol.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp: In member function ‘unsigned int OpenBabel::OBMol::NumHvyAtoms()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp:809:30: warning: unnecessary parentheses in declaration of ‘i’ [-Wparentheses] 809 | vector::iterator(i); | ^~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp:809:30: note: remove parentheses 809 | vector::iterator(i); | ^~~ | - - /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp: In member function ‘unsigned int OpenBabel::OBMol::GetTotalSpinMultiplicity()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp:1221:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1221 | if (chg % 2 != unpaired_electrons %2) | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/bond.h:32, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp:23: In member function ‘OpenBabel::OBAtom::GetIdx() const’, inlined from ‘OpenBabel::OBMol::CopySubstructure(OpenBabel::OBMol&, OpenBabel::OBBitVec*, OpenBabel::OBBitVec*, unsigned int, std::vector >*, std::vector >*)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp:4289:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/atom.h:189:63: warning: ‘atomB’ may be used uninitialized [-Wmaybe-uninitialized] 189 | unsigned int GetIdx() const { return((int)_idx); } | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp: In member function ‘OpenBabel::OBMol::CopySubstructure(OpenBabel::OBMol&, OpenBabel::OBBitVec*, OpenBabel::OBBitVec*, unsigned int, std::vector >*, std::vector >*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp:4273:21: note: ‘atomB’ was declared here 4273 | OBAtom *atomB, *atomE; | ^~~~~ In member function ‘OpenBabel::OBAtom::GetIdx() const’, inlined from ‘OpenBabel::OBMol::CopySubstructure(OpenBabel::OBMol&, OpenBabel::OBBitVec*, OpenBabel::OBBitVec*, unsigned int, std::vector >*, std::vector >*)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp:4289:62: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/atom.h:189:63: warning: ‘atomE’ may be used uninitialized [-Wmaybe-uninitialized] 189 | unsigned int GetIdx() const { return((int)_idx); } | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp: In member function ‘OpenBabel::OBMol::CopySubstructure(OpenBabel::OBMol&, OpenBabel::OBBitVec*, OpenBabel::OBBitVec*, unsigned int, std::vector >*, std::vector >*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mol.cpp:4273:29: note: ‘atomE’ was declared here 4273 | OBAtom *atomB, *atomE; | ^~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/phmodel.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/phmodel.cpp.o -MF CMakeFiles/openbabel.dir/phmodel.cpp.o.d -o CMakeFiles/openbabel.dir/phmodel.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/phmodel.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/parsmart.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/parsmart.cpp.o -MF CMakeFiles/openbabel.dir/parsmart.cpp.o.d -o CMakeFiles/openbabel.dir/parsmart.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/parsmart.cpp /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/parsmart.cpp: In function ‘int OpenBabel::CreateAtom(Pattern*, AtomExpr*, int, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/parsmart.cpp:446:15: warning: variable ‘size’ set but not used [-Wunused-but-set-variable] 446 | int index,size; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/parsmart.cpp: In function ‘int OpenBabel::CreateBond(Pattern*, BondExpr*, int, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/parsmart.cpp:478:15: warning: variable ‘size’ set but not used [-Wunused-but-set-variable] 478 | int index,size; | ^~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/plugin.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/plugin.cpp.o -MF CMakeFiles/openbabel.dir/plugin.cpp.o.d -o CMakeFiles/openbabel.dir/plugin.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/plugin.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/plugin.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 8%] Building CXX object src/CMakeFiles/openbabel.dir/rand.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/rand.cpp.o -MF CMakeFiles/openbabel.dir/rand.cpp.o.d -o CMakeFiles/openbabel.dir/rand.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rand.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rand.cpp:428:15: warning: ‘void OpenBabel::GenerateSequence(unsigned int, unsigned int, unsigned int, unsigned int)’ defined but not used [-Wunused-function] 428 | static void GenerateSequence( unsigned int p, unsigned int m, | ^~~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 8%] Building CXX object src/CMakeFiles/openbabel.dir/query.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/query.cpp.o -MF CMakeFiles/openbabel.dir/query.cpp.o.d -o CMakeFiles/openbabel.dir/query.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/query.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/query.cpp:29: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/base.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/bond.h:31, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/query.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/query.cpp:25: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 7%] Building CXX object src/CMakeFiles/openbabel.dir/pointgroup.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/pointgroup.cpp.o -MF CMakeFiles/openbabel.dir/pointgroup.cpp.o.d -o CMakeFiles/openbabel.dir/pointgroup.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp: In member function ‘int OpenBabel::PointGroupPrivate::establish_pairs(SYMMETRY_ELEMENT*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:267:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 267 | if( elem->transform[i] >= _mol->NumAtoms() ){ /* No symmetric atom yet */ | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp: In member function ‘int OpenBabel::PointGroupPrivate::check_transform_order(SYMMETRY_ELEMENT*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:311:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 311 | if( elem->transform[i] == i ) /* Identity transform is Ok for any order */ | ~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:315:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 315 | if( elem->transform[j] == i ) | ~~~~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp: In member function ‘int OpenBabel::PointGroupPrivate::same_transform(SYMMETRY_ELEMENT*, SYMMETRY_ELEMENT*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:358:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 358 | if( b->transform[j] != i ) | ~~~~~~~~~~~~~~~~^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp: In member function ‘OpenBabel::OBPointGroup::Symbol OpenBabel::OBPointGroup::IdentifyPointGroupSymbol(double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:1958:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1958 | || d->NormalAxesCounts[2] >= maxAxis) { // Are there the perpendicular C2 axes? | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:1961:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1961 | if (d->PlanesCount >= maxAxis + 1) { // Likely Dnh | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:1986:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1986 | else if (d->PlanesCount == maxAxis) { // Likely Dnd | ~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:2088:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2088 | else if (d->PlanesCount >= maxAxis) { // Cnv | ~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp: In member function ‘void OpenBabel::OBPointGroup::Symmetrize(OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:2175:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2175 | for (unsigned int i = 0; i < d->PlanesCount; i++) | ~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:2182:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2182 | for (unsigned int i = 0; i < d->NormalAxesCount; i++) | ~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/pointgroup.cpp:2189:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2189 | for (unsigned int i = 0; i < d->ImproperAxesCount; i++) | ~~^~~~~~~~~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 8%] Building CXX object src/CMakeFiles/openbabel.dir/reactionfacade.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/reactionfacade.cpp.o -MF CMakeFiles/openbabel.dir/reactionfacade.cpp.o.d -o CMakeFiles/openbabel.dir/reactionfacade.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/reactionfacade.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/reactionfacade.cpp: In member function ‘void OpenBabel::OBReactionFacadePrivate::FindComponents()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/reactionfacade.cpp:122:15: warning: unused variable ‘atm’ [-Wunused-variable] 122 | OBAtom* atm = &*atom; | ^~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 8%] Building CXX object src/CMakeFiles/openbabel.dir/residue.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/residue.cpp.o -MF CMakeFiles/openbabel.dir/residue.cpp.o.d -o CMakeFiles/openbabel.dir/residue.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/residue.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 5%] Building CXX object src/CMakeFiles/openbabel.dir/mcdlutil.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/mcdlutil.cpp.o -MF CMakeFiles/openbabel.dir/mcdlutil.cpp.o.d -o CMakeFiles/openbabel.dir/mcdlutil.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:423:5: warning: multi-line comment [-Wcomment] 423 | // / \ | ^ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:22: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘bool OpenBabel::TSimpleMolecule::threeBondResolve(int, int, double&, double&, OpenBabel::neighbourlist*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:968:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 968 | for (i=0; i&, int, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:1471:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1471 | for (j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1478 | } while (k&, std::vector&, std::vector >&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:2009:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2009 | for (j=0; j0) atDef=atDef+1; | ~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:2019:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2019 | if (cN>=0) if (maxAtDef==atomCycle[cN].size()) { | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:2034:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2034 | for (j=1; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2040 | for (j=0;currNumDef < atomClean && j&, std::vector, std::vector&, std::vector >&, std::vector&, std::vector&, std::vector&, std::vector&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:2107:98: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2107 | if (baseCycle>0) for (i=0; i, std::vector, int, int&, int, int, int, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:2238:67: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2238 | for (j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2240 | for (k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2264 | for (j=1; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2575 | if ((nb + i) > dsATN.size()) nb=dsATN.size()-i; // Check added to avoid segfault below, see issue #1851 | ~~~~~~~~~^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘void OpenBabel::TSimpleMolecule::flipSmall(int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:2985:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2985 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3024 | for (i=0; i, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3103 | if (bond->at[0]==dblbond->bstereo_refs[ref_atom1] || bond->at[1]==dblbond->bstereo_refs[ref_atom1]) /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3103:75: warning: comparison of integer expressions of different signedness: ‘short int’ and ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3103 | if (bond->at[0]==dblbond->bstereo_refs[ref_atom1] || bond->at[1]==dblbond->bstereo_refs[ref_atom1]) /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3105:26: warning: comparison of integer expressions of different signedness: ‘short int’ and ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3105 | if (bond->at[0]==dblbond->bstereo_refs[ref_atom2] || bond->at[1]==dblbond->bstereo_refs[ref_atom2]) /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3105:75: warning: comparison of integer expressions of different signedness: ‘short int’ and ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3105 | if (bond->at[0]==dblbond->bstereo_refs[ref_atom2] || bond->at[1]==dblbond->bstereo_refs[ref_atom2]) /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In function ‘bool OpenBabel::compareAtoms(int, int, std::vector*>)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3127:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3127 | if ((a1 < 0) || (a2 < 0) || (a1 >= aeqList.size()) || (a2 >= aeqList.size())) return result; | ~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3127:63: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3127 | if ((a1 < 0) || (a2 < 0) || (a1 >= aeqList.size()) || (a2 >= aeqList.size())) return result; | ~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘void OpenBabel::TSimpleMolecule::makeEquivalentList(std::vector&, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3291:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3291 | for (j=0; jsize(); j++) (*lL)[i]=0; | ~^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3299:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3299 | for (i=0; i*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3309 | for (int i=0; i&, std::vector)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3325:13: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const __gnu_cxx::__alloc_traits, int>::value_type’ {aka ‘const int’} [-Wsign-compare] 3325 | if (l <= maxValues[i]) { /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘int OpenBabel::TSimpleMolecule::correctOverlapped()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3374:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3374 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3427 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3437 | for (i=0; i*, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:3540:44: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 3540 | for (i=0; isize(); i++) if (i != index) { | ~~^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘void OpenBabel::TEditedMolecule::addAsTemplate(OpenBabel::TEditedMolecule&, int, int, int, int, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4216:19: warning: variable ‘nBondsOld’ set but not used [-Wunused-but-set-variable] 4216 | int nAtomsOld,nBondsOld,naDef1,naDef,i; | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4217:10: warning: variable ‘test’ set but not used [-Wunused-but-set-variable] 4217 | bool test,test1,test2; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4217:15: warning: variable ‘test1’ set but not used [-Wunused-but-set-variable] 4217 | bool test,test1,test2; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4217:21: warning: variable ‘test2’ set but not used [-Wunused-but-set-variable] 4217 | bool test,test1,test2; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4219:40: warning: variable ‘xCenter’ set but not used [-Wunused-but-set-variable] 4219 | double r,scale,xOld,yOld,xNew,yNew,xCenter,yCenter; | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4219:48: warning: variable ‘yCenter’ set but not used [-Wunused-but-set-variable] 4219 | double r,scale,xOld,yOld,xNew,yNew,xCenter,yCenter; | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘OpenBabel::TEditedMolecule* OpenBabel::TEditedMolecule::extractFragment(int, std::vector*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4410:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4410 | if (list.size()>1) for (i=0; i<(list.size()-1); i++) for (j=i+1; jlist[j]) { | ~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4410:71: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4410 | if (list.size()>1) for (i=0; i<(list.size()-1); i++) for (j=i+1; jlist[j]) { | ~^~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4415:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4415 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4418 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4591 | for (j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4596 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4601 | for (i=0; i*, std::vector*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4636:31: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 4636 | if (qEnumerator->size() != nAtoms()) qEnumerator->resize(nAtoms()); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4637:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4637 | for (i=0; isize(); i++) (*qEnumerator)[i]=i; | ~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4666:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4666 | for (j=0; jsize(); j++) { | ~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘bool OpenBabel::TEditedMolecule::fragmentSearch(OpenBabel::TEditedMolecule*, std::vector*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4853:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4853 | if (molecule1->listarSize()>aSTested.size()) aSTested.resize(molecule1->listarSize()); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4854:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4854 | if (molecule1->listarSize()>bSTested.size()) bSTested.resize(molecule1->listarSize()); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4855:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4855 | if (molecule1->listarSize()>queryQHydr.size()) queryQHydr.resize(molecule1->listarSize()); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4856:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4856 | if (molecule1->listarSize()>queryAQTested.size()) queryAQTested.resize(molecule1->listarSize()); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4857:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4857 | if (molecule1->listarSize()>queryBQTested.size()) queryBQTested.resize(molecule1->listarSize()); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4858:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4858 | if (molecule1->listarSize()>queryCurrentAssignment.size()) queryCurrentAssignment.resize(molecule1->listarSize()); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4859:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4859 | if (this->listarSize()>queryAQTested.size()) queryAQTested.resize(this->listarSize()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5036:10: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wdangling-else] 5036 | if (test2) for (j=0; jnBonds(); j++) if (bSTested[j]>=0) (*bondLabel)[j]=1; else (*bondLabel)[j]=0; | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4840:9: warning: variable ‘cycleNumber’ set but not used [-Wunused-but-set-variable] 4840 | int cycleNumber; | ^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘bool OpenBabel::TemplateRedraw::loadTemplates()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5115:24: warning: catching polymorphic type ‘class std::exception’ by value [-Wcatch-value=] 5115 | } catch (exception ex) { | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘bool OpenBabel::TemplateRedraw::internalBondsPresent(OpenBabel::TEditedMolecule*, OpenBabel::TSimpleMolecule*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5205:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 5205 | for (i=0; inAtoms(); i++) aList[mQuery->queryAQTested[i]]=1; | ~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5206:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 5206 | for (i=0; inBonds(); i++) bList[mQuery->queryBQTested[i]]=1; | ~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘void OpenBabel::TemplateRedraw::rotateBondVertically(OpenBabel::TSimpleMolecule*, std::vector, int, double, double, double&, double&, double&, double&, double&, double&, int&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5236:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5236 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5281 | for (i=0; i*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5315:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5315 | for (i=0; isize(); i++) { | ~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5332:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5332 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5362 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5372 | for (i=0; i*, OpenBabel::PartFragmentDefinition&, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5403:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5403 | for (i=0; isize(); i++) { | ~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5416:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5416 | for (i=0; isize(); i++) { | ~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5432:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5432 | for (i=0; isize(); i++) { | ~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘int OpenBabel::TemplateRedraw::coordinatesPrepare(OpenBabel::TEditedMolecule&, int, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5671:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5671 | for (i=kk; ifragmentSearch(&sm,nullptr)) { | ~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:5719:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5719 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5722 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5730 | for (j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5802 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5832 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5898 | for (j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5910 | for (frCount=0; frCount::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5926 | for (frCount=0; frCount::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5949 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5964 | for (frCount=0; frCount::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6004 | for (i=0;i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6011 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6030 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6038 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6039 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6040 | for (i=0; i::size_type’ {aka ‘const long unsigned int’} [-Wsign-compare] 6362 | if (result == string::npos) result=-1; | ~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6363:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6363 | if (result >= instring.length()) result=-1; | ~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In function ‘std::string OpenBabel::getAtomMCDL(OBMol*, int, std::vector, std::vector, std::vector, std::vector)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6550:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6550 | for (j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6595 | if (anumStereo.size() > 1) for (i=0; i<(anumStereo.size()-1); i++) if (anumStereo[i] >= 0) { | ~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6597:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6597 | for (j=i+1; j= 0) && (anumStereo[j] >= 0)) if (eqList[anumStereo[i]] == eqList[anumStereo[j]]) n++; | ~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6603:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6603 | for (j=i+1; j= 0) && (anumStereo[j] >= 0)) if (eqList[anumStereo[i]] == eqList[anumStereo[j]]) { | ~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6613:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6613 | for (j=i+1; j= 0) && (anumStereo[j] >= 0)) if (eqList[anumStereo[i]] == eqList[anumStereo[j]]) anumStereo[j]=-1; | ~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6616:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6616 | for (j=i+1; j= 0) && (anumStereo[j] >= 0)) if (eqList[anumStereo[i]] == eqList[anumStereo[j]]) anumStereo[j]=-2; | ~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6627:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6627 | if (k == 1) for (i=0; i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6636 | if (v.size() > 1) for (i=0; i<(v.size() - 1); i++) for (j=i+1; j >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6636 | if (v.size() > 1) for (i=0; i<(v.size() - 1); i++) for (j=i+1; j >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6646 | for (i=0; i < v.size(); i++) { | ~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In function ‘std::string OpenBabel::getBondMCDL(OBMol*, int, int, std::vector, std::vector, int (*)[4], std::vector, std::vector)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6847:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6847 | if (anumStereo.size() > 1) for (i=0; i<(anumStereo.size()-1); i++) if (anumStereo[i] >= 0) { | ~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6849:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6849 | for (j=i+1; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6854 | for (j=i+1; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6868 | for (j=i+1; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6876 | for (j=i+1; j >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6881 | if (v.size() > 1) for (i=0; i<(v.size() - 1); i++) for (j=i+1; j >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6881 | if (v.size() > 1) for (i=0; i<(v.size() - 1); i++) for (j=i+1; j >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6891 | for (i=0; i < v.size(); i++) { | ~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6684:26: warning: variable ‘n4’ set but not used [-Wunused-but-set-variable] 6684 | int i,j,n,m,n1,n2,n3,n4,an1,an2,an3,an4,k; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In function ‘void OpenBabel::implementAtomStereo(std::vector&, std::vector&, std::vector&, std::vector, std::vector, int, int, std::string)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:6964:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 6964 | if (n1 < (astereo.length()-1)) astereo=astereo.substr(n1+1); else astereo=""; | ~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In function ‘void OpenBabel::implementBondStereo(std::vector, std::vector, std::vector&, std::vector&, int, int, std::string)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:7028:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7028 | if (n1 < (bstereo.length()-1)) bstereo=bstereo.substr(n1+1); else bstereo=""; | ~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:7071:34: warning: catching polymorphic type ‘class std::exception’ by value [-Wcatch-value=] 7071 | } catch (exception ex) { | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:7085:34: warning: catching polymorphic type ‘class std::exception’ by value [-Wcatch-value=] 7085 | } catch (exception ex) { | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In function ‘int OpenBabel::groupRedraw(OBMol*, int, int, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:7163:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7163 | for (i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7171 | for (int i=0; i&, int&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:7213:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7213 | if (n='0') && (value.at(n)<='9')) { | ~^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:7216:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7216 | while ((n2<(value.length()-1)) && (value.at(n2)>='0') && (value.at(n2)<='9')) n2++; | ~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:7237:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7237 | if (n='0') && (value.at(n)<='9')) { | ~^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:7240:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 7240 | while ((n2<(value.length()-1)) && (value.at(n2)>='0') && (value.at(n2)<='9')) n2++; | ~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp: In member function ‘OpenBabel::TEditedMolecule::addAsTemplate(OpenBabel::TEditedMolecule&, int, int, int, int, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4333:16: warning: ‘r1’ may be used uninitialized [-Wmaybe-uninitialized] 4333 | xNew=r1*scale*xu1+this->getAtom(thisAN)->rx; | ~~^~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/mcdlutil.cpp:4220:12: note: ‘r1’ was declared here 4220 | double r1; | ^~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 8%] Building CXX object src/CMakeFiles/openbabel.dir/ring.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/ring.cpp.o -MF CMakeFiles/openbabel.dir/ring.cpp.o.d -o CMakeFiles/openbabel.dir/ring.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ring.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/rotamer.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/rotamer.cpp.o -MF CMakeFiles/openbabel.dir/rotamer.cpp.o.d -o CMakeFiles/openbabel.dir/rotamer.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rotamer.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rotamer.cpp: In member function ‘void OpenBabel::OBRotamerList::AddRotamer(std::vector)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rotamer.cpp:410:11: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 410 | while (angle < 0.0) | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rotamer.cpp:412:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 412 | while (angle > 360.0) | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rotamer.cpp: In member function ‘bool OpenBabel::OBRotamerList::SetCurrentCoordinates(OpenBabel::OBMol&, std::vector)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rotamer.cpp:543:11: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 543 | while (angle < 0.0) | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rotamer.cpp:545:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 545 | while (angle > 360.0) | ^~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/tokenst.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/tokenst.cpp.o -MF CMakeFiles/openbabel.dir/tokenst.cpp.o.d -o CMakeFiles/openbabel.dir/tokenst.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/tokenst.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/spectrophore.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/spectrophore.cpp.o -MF CMakeFiles/openbabel.dir/spectrophore.cpp.o.d -o CMakeFiles/openbabel.dir/spectrophore.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/spectrophore.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/tautomer.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/tautomer.cpp.o -MF CMakeFiles/openbabel.dir/tautomer.cpp.o.d -o CMakeFiles/openbabel.dir/tautomer.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/tautomer.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/tautomer.cpp:26: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/tautomer.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/tautomer.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/rotor.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/rotor.cpp.o -MF CMakeFiles/openbabel.dir/rotor.cpp.o.d -o CMakeFiles/openbabel.dir/rotor.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/rotor.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 10%] Building CXX object src/CMakeFiles/openbabel.dir/transform.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/transform.cpp.o -MF CMakeFiles/openbabel.dir/transform.cpp.o.d -o CMakeFiles/openbabel.dir/transform.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/transform.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/transform.cpp:23: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/transform.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 10%] Building CXX object src/CMakeFiles/openbabel.dir/typer.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/typer.cpp.o -MF CMakeFiles/openbabel.dir/typer.cpp.o.d -o CMakeFiles/openbabel.dir/typer.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/typer.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 10%] Building CXX object src/CMakeFiles/openbabel.dir/obmolecformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/obmolecformat.cpp.o -MF CMakeFiles/openbabel.dir/obmolecformat.cpp.o.d -o CMakeFiles/openbabel.dir/obmolecformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/obmolecformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/obmolecformat.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:48, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/obmolecformat.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/base.h:286:28: warning: ‘virtual const char* OpenBabel::OBBase::GetTitle(bool) const’ was hidden [-Woverloaded-virtual=] 286 | virtual const char *GetTitle(bool UNUSED(replaceNewlines) = true) const { return "";} | ^~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/obmolecformat.cpp:22: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/reaction.h:99:15: note: by ‘std::string OpenBabel::OBReaction::GetTitle() const’ 99 | std::string GetTitle() const { return _title; } | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/base.h:287:21: warning: ‘virtual void OpenBabel::OBBase::SetTitle(const char*)’ was hidden [-Woverloaded-virtual=] 287 | virtual void SetTitle(const char *) {} | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/reaction.h:101:8: note: by ‘void OpenBabel::OBReaction::SetTitle(const std::string&)’ 101 | void SetTitle(const std::string& title) { _title=title; } | ^~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/dlhandler_unix.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/dlhandler_unix.cpp.o -MF CMakeFiles/openbabel.dir/dlhandler_unix.cpp.o.d -o CMakeFiles/openbabel.dir/dlhandler_unix.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/dlhandler_unix.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 10%] Building CXX object src/CMakeFiles/openbabel.dir/confsearch.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/confsearch.cpp.o -MF CMakeFiles/openbabel.dir/confsearch.cpp.o.d -o CMakeFiles/openbabel.dir/confsearch.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/confsearch.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/confsearch.cpp:24: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/atom.h:30, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/confsearch.cpp:22: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/confsearch.cpp: In constructor ‘OpenBabel::OBDiversePoses::OBDiversePoses(const OpenBabel::OBMol&, double, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/confsearch.cpp:134:66: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = less; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 134 | vec.erase(std::remove_if(vec.begin(), vec.end(), std::bind2nd(std::less(), (cutoff + 0.1) )), vec.end()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_function.h:1435: /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/confsearch.cpp: In member function ‘bool OpenBabel::OBDiversePoses::AddPose(std::vector, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/confsearch.cpp:189:14: warning: unused variable ‘min_rmsd’ [-Wunused-variable] 189 | double min_rmsd = DBL_MAX; | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/confsearch.cpp: In member function ‘int OpenBabel::OBForceField::DiverseConfGen(double, unsigned int, double, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/confsearch.cpp:444:77: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = plus; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 444 | transform(_energies.begin(), _energies.end(), _energies.begin(), bind2nd(std::plus(), energy_offset)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 10%] Building CXX object src/CMakeFiles/openbabel.dir/conformersearch.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/conformersearch.cpp.o -MF CMakeFiles/openbabel.dir/conformersearch.cpp.o.d -o CMakeFiles/openbabel.dir/conformersearch.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:22: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/conformersearch.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:20: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp: In member function ‘virtual double OpenBabel::OBMinimizingRMSDConformerScore::Score(OpenBabel::OBMol&, unsigned int, const OpenBabel::RotorKeys&, const std::vector&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:250:12: warning: unused variable ‘score’ [-Wunused-variable] 250 | double score = ff->Energy(false); // no gradients | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp: In member function ‘bool OpenBabel::OBConformerSearch::Setup(const OpenBabel::OBMol&, int, int, int, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:352:23: warning: variable ‘end_it’ set but not used [-Wunused-but-set-variable] 352 | OBRotorIterator end_it = m_rotorList.EndRotors(); | ^~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp: In member function ‘int OpenBabel::OBConformerSearch::local_opt()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:790:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 790 | for (i = 1; i <= m_rotorList.Size(); ++i, rotor = m_rotorList.NextRotor(ri)) | ~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp: In member function ‘int OpenBabel::OBConformerSearch::reproduce(OpenBabel::RotorKey&, OpenBabel::RotorKey&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:851:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 851 | if (iniche > -1) | ~~~~~~~^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp: In member function ‘int OpenBabel::OBConformerSearch::share_fitness()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1006:37: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1006 | if ((dynamic_niches.size () < nb_niches) && (dynamic_niches.size () %2)) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1021:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1021 | if (dist < min_dist ) | ~~~~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1034:18: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 1034 | if (imax == -1) | ~~~~~^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1051:40: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 1051 | if (dynamic_niches.size () < nb_niches) | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:977:10: warning: unused variable ‘flag_niched’ [-Wunused-variable] 977 | bool flag_niched = false; | ^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp: In member function ‘double OpenBabel::OBConformerSearch::sharing_generation()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1140:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1140 | while (ninsert < ((half_pop * 2) / 3)) | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1149:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1149 | if (iround < imax) | ~~~~~~~^~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1157:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1157 | if (ninsert >= half_pop) | ~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1182:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1182 | while (ninsert < half_pop) | ~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1106:23: warning: unused variable ‘lowest’ [-Wunused-variable] 1106 | double sum = 0.0, lowest = 0.0, highest = 0.0; | ^~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:1106:37: warning: unused variable ‘highest’ [-Wunused-variable] 1106 | double sum = 0.0, lowest = 0.0, highest = 0.0; | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp: In member function ‘OpenBabel::OBConformerSearch::MakeSelection()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/conformersearch.cpp:550:31: warning: ‘highest’ may be used uninitialized [-Wmaybe-uninitialized] 550 | double sum = 0.0, lowest, highest; | ^~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/math/matrix3x3.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/math/matrix3x3.cpp.o -MF CMakeFiles/openbabel.dir/math/matrix3x3.cpp.o.d -o CMakeFiles/openbabel.dir/math/matrix3x3.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/math/matrix3x3.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/depict/svgpainter.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/depict/svgpainter.cpp.o -MF CMakeFiles/openbabel.dir/depict/svgpainter.cpp.o.d -o CMakeFiles/openbabel.dir/depict/svgpainter.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/svgpainter.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/svgpainter.cpp:18: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/depict/svgpainter.h: In constructor ‘OpenBabel::SVGPainter::SVGPainter(std::ostream&, std::set >*, bool, double, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/depict/svgpainter.h:77:11: warning: ‘OpenBabel::SVGPainter::m_fontPointSize’ will be initialized after [-Wreorder] 77 | int m_fontPointSize; | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/depict/svgpainter.h:75:12: warning: ‘bool OpenBabel::SVGPainter::m_isFillcolor’ [-Wreorder] 75 | bool m_isFillcolor; | ^~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/svgpainter.cpp:34:3: warning: when initialized here [-Wreorder] 34 | SVGPainter::SVGPainter(ostream& ofs, std::set* gradients, bool withViewBox, | ^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/depict/svgpainter.h:75:12: warning: ‘OpenBabel::SVGPainter::m_isFillcolor’ will be initialized after [-Wreorder] 75 | bool m_isFillcolor; | ^~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/depict/svgpainter.h:74:32: warning: ‘std::set >* OpenBabel::SVGPainter::m_Gradients’ [-Wreorder] 74 | std::set *m_Gradients; | ^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/svgpainter.cpp:34:3: warning: when initialized here [-Wreorder] 34 | SVGPainter::SVGPainter(ostream& ofs, std::set* gradients, bool withViewBox, | ^~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/math/transform3d.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/math/transform3d.cpp.o -MF CMakeFiles/openbabel.dir/math/transform3d.cpp.o.d -o CMakeFiles/openbabel.dir/math/transform3d.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/math/transform3d.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/math/vector3.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/math/vector3.cpp.o -MF CMakeFiles/openbabel.dir/math/vector3.cpp.o.d -o CMakeFiles/openbabel.dir/math/vector3.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/math/vector3.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/depict/depict.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/depict/depict.cpp.o -MF CMakeFiles/openbabel.dir/depict/depict.cpp.o.d -o CMakeFiles/openbabel.dir/depict/depict.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp: In function ‘unsigned int OpenBabel::GetAtomSymClass(OBAtom*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:284:11: warning: unused variable ‘nclasses’ [-Wunused-variable] 284 | int nclasses = end_pos - copy_sym.begin(); | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp: In member function ‘virtual void OpenBabel::OBDepictPrivate::DrawAtomLabel(const std::string&, int, const OpenBabel::vector3&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:1024:21: warning: variable ‘metrics’ set but not used [-Wunused-but-set-variable] 1024 | OBFontMetrics metrics = painter->GetFontMetrics(str); | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:1029:21: warning: variable ‘metrics’ set but not used [-Wunused-but-set-variable] 1029 | OBFontMetrics metrics = painter->GetFontMetrics(subscript); | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp: In member function ‘void OpenBabel::OBDepictPrivateBallAndStick::DrawAromaticRingBond(OpenBabel::OBAtom*, OpenBabel::OBAtom*, OpenBabel::OBAtom*, OpenBabel::OBAtom*, const OpenBabel::vector3&, double)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:1238:99: warning: expression does not compute the number of elements in this array; element type is ‘const float’, not ‘double’ [-Wsizeof-array-div] 1238 | static const vector pat = vector(dashpattern,dashpattern + sizeof(dashpattern)/sizeof(double)); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:1238:100: note: add parentheses around ‘sizeof (double)’ to silence this warning 1238 | static const vector pat = vector(dashpattern,dashpattern + sizeof(dashpattern)/sizeof(double)); | ^~~~~~~~~~~~~~ | ( ) /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:1237:24: note: array ‘dashpattern’ declared here 1237 | static const float dashpattern[] = {5., 5.}; | ^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp: In member function ‘OpenBabel::OBDepict::DrawMolecule(OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:462:22: warning: ‘min_x’ may be used uninitialized [-Wmaybe-uninitialized] 462 | width = max_x - min_x + 2*margin; | ~~~~~~^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:435:14: note: ‘min_x’ was declared here 435 | double min_x, max_x; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:462:22: warning: ‘max_x’ may be used uninitialized [-Wmaybe-uninitialized] 462 | width = max_x - min_x + 2*margin; | ~~~~~~^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:435:21: note: ‘max_x’ was declared here 435 | double min_x, max_x; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:463:22: warning: ‘min_y’ may be used uninitialized [-Wmaybe-uninitialized] 463 | height = max_y - min_y + 2*margin; | ~~~~~~^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:436:14: note: ‘min_y’ was declared here 436 | double min_y, max_y; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:463:22: warning: ‘max_y’ may be used uninitialized [-Wmaybe-uninitialized] 463 | height = max_y - min_y + 2*margin; | ~~~~~~^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:436:21: note: ‘max_y’ was declared here 436 | double min_y, max_y; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:465:25: warning: ‘min_z’ may be used uninitialized [-Wmaybe-uninitialized] 465 | d->zScale = max_z - min_z; | ~~~~~~^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:437:14: note: ‘min_z’ was declared here 437 | double min_z, max_z; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:465:25: warning: ‘max_z’ may be used uninitialized [-Wmaybe-uninitialized] 465 | d->zScale = max_z - min_z; | ~~~~~~^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/depict.cpp:437:21: note: ‘max_z’ was declared here 437 | double min_z, max_z; | ^~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/stereo.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -O2 -flto=auto -ffat-lto-objects 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src/CMakeFiles/openbabel.dir/stereo/tetranonplanar.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables 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-DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/facade.cpp.o -MF CMakeFiles/openbabel.dir/stereo/facade.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/facade.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/facade.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 14%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o -MF CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/gen3dstereohelper.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/gen3dstereohelper.cpp:29: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/gen3dstereohelper.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/gen3dstereohelper.cpp:25: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 12%] Building CXX object src/CMakeFiles/openbabel.dir/math/align.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/math/align.cpp.o -MF CMakeFiles/openbabel.dir/math/align.cpp.o.d -o CMakeFiles/openbabel.dir/math/align.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/math/align.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 14%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/perception.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/stereo/perception.cpp.o -MF CMakeFiles/openbabel.dir/stereo/perception.cpp.o.d -o CMakeFiles/openbabel.dir/stereo/perception.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp: In function ‘bool OpenBabel::TetStereoToWedgeHash(OBMol&, std::map&, std::map&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:2795:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 2795 | for (std::vector::iterator data = vdata.begin(); data != vdata.end(); ++data) | ^~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:2951:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ 2951 | return true; | ^~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp: In function ‘void OpenBabel::StereoRefToImplicit(OBMol&, OBStereo::Ref)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:2973:16: warning: ‘template class std::binder1st’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 2973 | const std::binder1st > equal_to_atomId = std::bind1st (equal_to(), atomId); | ^~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_function.h:1435, from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/base.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/stereo/stereo.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/stereo/tetranonplanar.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/stereo/tetrahedral.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:26: /usr/include/c++/14/backward/binders.h:108:11: note: declared here 108 | class binder1st | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:2973:88: warning: ‘std::binder1st<_Operation> std::bind1st(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 2973 | const std::binder1st > equal_to_atomId = std::bind1st (equal_to(), atomId); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:136:5: note: declared here 136 | bind1st(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp: In function ‘void OpenBabel::ImplicitRefToStereo(OBMol&, OBStereo::Ref, OBStereo::Ref)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:3005:16: warning: ‘template class std::binder1st’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 3005 | const std::binder1st > equal_to_implicitRef = std::bind1st (equal_to(), (OBStereo::Ref) OBStereo::ImplicitRef); | ^~~~~~~~~ /usr/include/c++/14/backward/binders.h:108:11: note: declared here 108 | class binder1st | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:3005:93: warning: ‘std::binder1st<_Operation> std::bind1st(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 3005 | const std::binder1st > equal_to_implicitRef = std::bind1st (equal_to(), (OBStereo::Ref) OBStereo::ImplicitRef); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:136:5: note: declared here 136 | bind1st(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 11%] Building CXX object src/CMakeFiles/openbabel.dir/distgeom.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/openbabel.dir/distgeom.cpp.o -MF CMakeFiles/openbabel.dir/distgeom.cpp.o.d -o CMakeFiles/openbabel.dir/distgeom.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:54: warning: ignoring ‘#pragma warning ’ [-Wunknown-pragmas] 54 | #pragma warning(disable : 4244) // warning C4244: '=' : conversion from 'double' to 'float', possible loss of data /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:55: warning: ignoring ‘#pragma warning ’ [-Wunknown-pragmas] 55 | #pragma warning(disable : 4305) // warning C4305: '*=' : truncation from 'double' to 'float' /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:619:3: warning: multi-line comment [-Wcomment] 619 | // \ | ^ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:38: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/distgeom.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:22: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp: In member function ‘bool OpenBabel::OBDistanceGeometry::generateInitialCoords()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:1089:16: warning: unused variable ‘lb’ [-Wunused-variable] 1089 | double lb = _d->GetLowerBounds(i, j); | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:1090:16: warning: unused variable ‘ub’ [-Wunused-variable] 1090 | double ub = _d->GetUpperBounds(i, j); | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp: In member function ‘bool OpenBabel::OBDistanceGeometry::firstMinimization()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:1136:16: warning: unused variable ‘lb’ [-Wunused-variable] 1136 | double lb = _d->GetLowerBounds(i, j); | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:1137:16: warning: unused variable ‘ub’ [-Wunused-variable] 1137 | double ub = _d->GetUpperBounds(i, j); | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:1115:9: warning: unused variable ‘niter’ [-Wunused-variable] 1115 | int niter = solver.minimize(fun, _coord, fx); | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp: In member function ‘bool OpenBabel::OBDistanceGeometry::minimizeFourthDimension()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:1160:9: warning: unused variable ‘niter’ [-Wunused-variable] 1160 | int niter = solver.minimize(fun, _coord, fx); | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp: In member function ‘double OpenBabel::DistGeomFunc::operator()(const Eigen::VectorXd&, Eigen::VectorXd&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/distgeom.cpp:1325:23: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::Index’ {aka ‘long int’} [-Wsign-compare] 1325 | for (size_t i=0; i::run, -1, -1, false> const, -1, -1, false> const>, Eigen::Transpose, Eigen::CwiseNullaryOp, Eigen::Matrix const> const, Eigen::Transpose, -1, -1, false> const, -1, 1, true> const, -1, 1, false> const> const> const>, Eigen::Transpose, 1, -1, true>, 1, -1, false> > >(Eigen::Transpose, -1, -1, false> const, -1, -1, false> const> const&, Eigen::Transpose, Eigen::CwiseNullaryOp, Eigen::Matrix const> const, Eigen::Transpose, -1, -1, false> const, -1, 1, true> const, -1, 1, false> const> const> const> const&, Eigen::Transpose, 1, -1, true>, 1, -1, false> >&, Eigen::Transpose, 1, -1, true>, 1, -1, false> >::Scalar const&)void [clone .isra.0]’: /usr/include/eigen3/Eigen/src/Core/products/TriangularMatrixVector.h:332:12: warning: ‘result_47’ may be used uninitialized [-Wmaybe-uninitialized] 327 | internal::triangular_matrix_vector_product | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 328 | | ~~~~~~~~~ 332 | ::run(actualLhs.rows(),actualLhs.cols(), | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 | actualLhs.data(),actualLhs.outerStride(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 | actualRhsPtr,1, | ~~~~~~~~~~~~~~~ 335 | dest.data(),dest.innerStride(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 | actualAlpha); | ~~~~~~~~~~~~ /usr/include/eigen3/Eigen/src/Core/products/TriangularMatrixVector.h:105:24: note: by argument 5 of type ‘const double *’ to ‘Eigen::internal::triangular_matrix_vector_product::run(long, long, double const*, long, double const*, long, double*, long, double const&) [clone .constprop.0]’ declared here 105 | EIGEN_DONT_INLINE void triangular_matrix_vector_product | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/eigen3/Eigen/Core:337: /usr/include/eigen3/Eigen/src/Core/products/SelfadjointMatrixVector.h: In function ‘Eigen::internal::selfadjoint_product_impl, -1, -1, false>, 17, false, Eigen::CwiseBinaryOp, Eigen::CwiseNullaryOp, Eigen::Matrix const> const, Eigen::Block, -1, 1, true>, -1, 1, false> const>, 0, true>::run, -1, 1, false> >(Eigen::Block, -1, 1, false>&, Eigen::Block, -1, -1, false> const&, Eigen::CwiseBinaryOp, Eigen::CwiseNullaryOp, Eigen::Matrix const> const, Eigen::Block, -1, 1, true>, -1, 1, false> const> const&, double const&)void [clone .isra.0]’: /usr/include/eigen3/Eigen/src/Core/products/SelfadjointMatrixVector.h:229:7: warning: ‘result_66’ may be used uninitialized [-Wmaybe-uninitialized] 227 | internal::selfadjoint_matrix_vector_product::Flags&RowMajorBit) ? RowMajor : ColMajor, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 228 | int(LhsUpLo), bool(LhsBlasTraits::NeedToConjugate), bool(RhsBlasTraits::NeedToConjugate)>::run | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 229 | ( | ^ 230 | lhs.rows(), // size | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 231 | &lhs.coeffRef(0,0), lhs.outerStride(), // lhs info | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 | actualRhsPtr, // rhs info | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 | actualDestPtr, // result info | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 | actualAlpha // scale factor | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 | ); | ~ /usr/include/eigen3/Eigen/src/Core/products/SelfadjointMatrixVector.h:41:6: note: by argument 4 of type ‘const double *’ to ‘Eigen::internal::selfadjoint_matrix_vector_product::run(long, double const*, long, double const*, double*, double)’ declared here 41 | void selfadjoint_matrix_vector_product::run( | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 14%] Linking CXX shared library ../lib64/libopenbabel.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/openbabel.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -Wl,-soname,libopenbabel.so.7 -o ../lib64/libopenbabel.so.7.0.0 CMakeFiles/openbabel.dir/alias.cpp.o CMakeFiles/openbabel.dir/atom.cpp.o CMakeFiles/openbabel.dir/base.cpp.o CMakeFiles/openbabel.dir/bitvec.cpp.o CMakeFiles/openbabel.dir/bond.cpp.o CMakeFiles/openbabel.dir/bondtyper.cpp.o CMakeFiles/openbabel.dir/builder.cpp.o CMakeFiles/openbabel.dir/canon.cpp.o CMakeFiles/openbabel.dir/chains.cpp.o CMakeFiles/openbabel.dir/chargemodel.cpp.o CMakeFiles/openbabel.dir/data.cpp.o CMakeFiles/openbabel.dir/data_utilities.cpp.o CMakeFiles/openbabel.dir/descriptor.cpp.o CMakeFiles/openbabel.dir/elements.cpp.o CMakeFiles/openbabel.dir/fingerprint.cpp.o CMakeFiles/openbabel.dir/forcefield.cpp.o CMakeFiles/openbabel.dir/format.cpp.o CMakeFiles/openbabel.dir/generic.cpp.o CMakeFiles/openbabel.dir/graphsym.cpp.o CMakeFiles/openbabel.dir/grid.cpp.o CMakeFiles/openbabel.dir/griddata.cpp.o CMakeFiles/openbabel.dir/isomorphism.cpp.o CMakeFiles/openbabel.dir/kekulize.cpp.o CMakeFiles/openbabel.dir/locale.cpp.o CMakeFiles/openbabel.dir/matrix.cpp.o CMakeFiles/openbabel.dir/mcdlutil.cpp.o CMakeFiles/openbabel.dir/molchrg.cpp.o CMakeFiles/openbabel.dir/mol.cpp.o CMakeFiles/openbabel.dir/obconversion.cpp.o CMakeFiles/openbabel.dir/oberror.cpp.o CMakeFiles/openbabel.dir/obfunctions.cpp.o CMakeFiles/openbabel.dir/obiter.cpp.o CMakeFiles/openbabel.dir/obutil.cpp.o CMakeFiles/openbabel.dir/op.cpp.o CMakeFiles/openbabel.dir/parsmart.cpp.o CMakeFiles/openbabel.dir/patty.cpp.o CMakeFiles/openbabel.dir/phmodel.cpp.o CMakeFiles/openbabel.dir/plugin.cpp.o CMakeFiles/openbabel.dir/pointgroup.cpp.o CMakeFiles/openbabel.dir/query.cpp.o CMakeFiles/openbabel.dir/rand.cpp.o CMakeFiles/openbabel.dir/reactionfacade.cpp.o CMakeFiles/openbabel.dir/residue.cpp.o CMakeFiles/openbabel.dir/ring.cpp.o CMakeFiles/openbabel.dir/rotamer.cpp.o CMakeFiles/openbabel.dir/rotor.cpp.o CMakeFiles/openbabel.dir/spectrophore.cpp.o CMakeFiles/openbabel.dir/tautomer.cpp.o CMakeFiles/openbabel.dir/tokenst.cpp.o CMakeFiles/openbabel.dir/transform.cpp.o CMakeFiles/openbabel.dir/typer.cpp.o CMakeFiles/openbabel.dir/obmolecformat.cpp.o CMakeFiles/openbabel.dir/conformersearch.cpp.o CMakeFiles/openbabel.dir/confsearch.cpp.o CMakeFiles/openbabel.dir/distgeom.cpp.o CMakeFiles/openbabel.dir/dlhandler_unix.cpp.o CMakeFiles/openbabel.dir/depict/depict.cpp.o CMakeFiles/openbabel.dir/depict/svgpainter.cpp.o CMakeFiles/openbabel.dir/math/matrix3x3.cpp.o CMakeFiles/openbabel.dir/math/spacegroup.cpp.o CMakeFiles/openbabel.dir/math/transform3d.cpp.o CMakeFiles/openbabel.dir/math/vector3.cpp.o CMakeFiles/openbabel.dir/math/align.cpp.o CMakeFiles/openbabel.dir/stereo/stereo.cpp.o CMakeFiles/openbabel.dir/stereo/tetranonplanar.cpp.o CMakeFiles/openbabel.dir/stereo/tetraplanar.cpp.o CMakeFiles/openbabel.dir/stereo/squareplanar.cpp.o CMakeFiles/openbabel.dir/stereo/cistrans.cpp.o CMakeFiles/openbabel.dir/stereo/tetrahedral.cpp.o CMakeFiles/openbabel.dir/stereo/perception.cpp.o CMakeFiles/openbabel.dir/stereo/facade.cpp.o CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o -lm -ldl -lz cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library ../lib64/libopenbabel.so.7.0.0 ../lib64/libopenbabel.so.7 ../lib64/libopenbabel.so make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/parsmart.cpp: In function ‘CreateAtom’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/parsmart.cpp:457:53: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 457 | AtomSpec *tmp = new AtomSpec[pat->aalloc]; | ^ /usr/include/c++/14/new:133:26: note: in a call to allocation function ‘operator new []’ declared here 133 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/parsmart.cpp:463:47: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 463 | pat->atom = new AtomSpec[pat->aalloc]; | ^ /usr/include/c++/14/new:133:26: note: in a call to allocation function ‘operator new []’ declared here 133 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 14%] Built target openbabel make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/CMakeFiles/plugin_descriptors.dir/build.make src/CMakeFiles/plugin_descriptors.dir/depend /usr/bin/make -f src/CMakeFiles/plugin_fingerprints.dir/build.make src/CMakeFiles/plugin_fingerprints.dir/depend /usr/bin/make -f src/CMakeFiles/plugin_forcefields.dir/build.make src/CMakeFiles/plugin_forcefields.dir/depend /usr/bin/make -f src/CMakeFiles/plugin_ops.dir/build.make src/CMakeFiles/plugin_ops.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/CMakeFiles/plugin_descriptors.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/CMakeFiles/plugin_descriptors.dir/build.make src/CMakeFiles/plugin_descriptors.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/CMakeFiles/plugin_forcefields.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/CMakeFiles/plugin_fingerprints.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/CMakeFiles/plugin_fingerprints.dir/build.make src/CMakeFiles/plugin_fingerprints.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/CMakeFiles/plugin_ops.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/CMakeFiles/plugin_forcefields.dir/build.make src/CMakeFiles/plugin_forcefields.dir/build /usr/bin/make -f src/CMakeFiles/plugin_ops.dir/build.make src/CMakeFiles/plugin_ops.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 14%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_descriptors_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/cansmidescriptor.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/cansmidescriptor.cpp:22: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/oberror.h:26, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/cansmidescriptor.cpp:20: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 15%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/addfilename.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/addfilename.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/addfilename.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/addfilename.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addfilename.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addfilename.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addfilename.cpp:18: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 15%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_descriptors_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/cmpdfilter.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/cmpdfilter.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/oberror.h:26, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/cmpdfilter.cpp:20: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 16%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/addinindex.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/addinindex.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/addinindex.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/addinindex.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addinindex.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addinindex.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/base.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addinindex.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 15%] Building CXX object src/CMakeFiles/plugin_fingerprints.dir/fingerprints/finger2.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_fingerprints_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_fingerprints.dir/fingerprints/finger2.cpp.o -MF CMakeFiles/plugin_fingerprints.dir/fingerprints/finger2.cpp.o.d -o CMakeFiles/plugin_fingerprints.dir/fingerprints/finger2.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger2.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/fingerprint.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger2.cpp:24: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/oberror.h:26, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger2.cpp:20: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 17%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/addpolarh.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/addpolarh.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/addpolarh.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/addpolarh.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addpolarh.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addpolarh.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addpolarh.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 17%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/addnonpolarh.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/addnonpolarh.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/addnonpolarh.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/addnonpolarh.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addnonpolarh.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addnonpolarh.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/addnonpolarh.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 17%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_descriptors_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/groupcontrib.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/groupcontrib.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/groupcontrib.cpp:33: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/groupcontrib.cpp:25: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 17%] Building CXX object src/CMakeFiles/plugin_fingerprints.dir/fingerprints/finger3.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_fingerprints_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_fingerprints.dir/fingerprints/finger3.cpp.o -MF CMakeFiles/plugin_fingerprints.dir/fingerprints/finger3.cpp.o.d -o CMakeFiles/plugin_fingerprints.dir/fingerprints/finger3.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/fingerprint.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp:27: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp: In member function ‘virtual bool OpenBabel::PatternFP::GetFingerprint(OpenBabel::OBBase*, std::vector&, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp:109:13: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 109 | while(n < _bitcount) | ~~^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp: In member function ‘virtual std::string OpenBabel::PatternFP::DescribeBits(std::vector, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp:258:34: warning: operation on ‘div’ may be undefined [-Wsequence-point] 258 | ngrp = (num + div -1)/div--; //rounds up | ~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/finger3.cpp:258:34: warning: operation on ‘div’ may be undefined [-Wsequence-point] make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 17%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/canonical.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/canonical.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/canonical.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/canonical.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/canonical.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/canonical.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 17%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_descriptors_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/filters.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/filters.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:22: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 15%] Building CXX object src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldgaff.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_forcefields_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldgaff.cpp.o -MF CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldgaff.cpp.o.d -o CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldgaff.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:29: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:21: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationGaff::OBFFBondCalculationGaff(OpenBabel::OBFFBondCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:31:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationGaff*, OpenBabel::OBFFBondCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationGaff*, OpenBabel::OBFFBondCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:572:40: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:535:29: note: ‘bondcalc’ declared here 535 | OBFFBondCalculationGaff bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationGaff::OBFFBondCalculationGaff(OpenBabel::OBFFBondCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:31:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationGaff*, OpenBabel::OBFFBondCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationGaff*, OpenBabel::OBFFBondCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:572:40: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:535:29: note: ‘bondcalc’ declared here 535 | OBFFBondCalculationGaff bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationGaff::OBFFBondCalculationGaff(OpenBabel::OBFFBondCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:31:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationGaff*, OpenBabel::OBFFBondCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationGaff*, OpenBabel::OBFFBondCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:587:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:535:29: note: ‘bondcalc’ declared here 535 | OBFFBondCalculationGaff bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationGaff::OBFFBondCalculationGaff(OpenBabel::OBFFBondCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:31:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationGaff*, OpenBabel::OBFFBondCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationGaff*, OpenBabel::OBFFBondCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:587:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:535:29: note: ‘bondcalc’ declared here 535 | OBFFBondCalculationGaff bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationGaff::OBFFAngleCalculationGaff(OpenBabel::OBFFAngleCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:637:43: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:596:30: note: ‘anglecalc’ declared here 596 | OBFFAngleCalculationGaff anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationGaff::OBFFAngleCalculationGaff(OpenBabel::OBFFAngleCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:637:43: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:596:30: note: ‘anglecalc’ declared here 596 | OBFFAngleCalculationGaff anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFAngleCalculationGaff::OBFFAngleCalculationGaff(OpenBabel::OBFFAngleCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:637:43: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&anglecalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:596:30: note: ‘anglecalc’ declared here 596 | OBFFAngleCalculationGaff anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationGaff::OBFFAngleCalculationGaff(OpenBabel::OBFFAngleCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:653:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:596:30: note: ‘anglecalc’ declared here 596 | OBFFAngleCalculationGaff anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationGaff::OBFFAngleCalculationGaff(OpenBabel::OBFFAngleCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:653:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:596:30: note: ‘anglecalc’ declared here 596 | OBFFAngleCalculationGaff anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFAngleCalculationGaff::OBFFAngleCalculationGaff(OpenBabel::OBFFAngleCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGaff*, OpenBabel::OBFFAngleCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:653:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&anglecalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:596:30: note: ‘anglecalc’ declared here 596 | OBFFAngleCalculationGaff anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGaff::OBFFTorsionCalculationGaff(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:47:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:707:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&torsioncalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:662:32: note: ‘torsioncalc’ declared here 662 | OBFFTorsionCalculationGaff torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGaff::OBFFTorsionCalculationGaff(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:47:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:707:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&torsioncalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:662:32: note: ‘torsioncalc’ declared here 662 | OBFFTorsionCalculationGaff torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGaff::OBFFTorsionCalculationGaff(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:47:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:707:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&torsioncalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:662:32: note: ‘torsioncalc’ declared here 662 | OBFFTorsionCalculationGaff torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’, inlined from ‘OpenBabel::OBFFTorsionCalculationGaff::OBFFTorsionCalculationGaff(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:47:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:707:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16: warning: ‘MEM[(const struct OBFFCalculation4 &)&torsioncalc].force_d’ may be used uninitialized [-Wmaybe-uninitialized] 199 | class OBFPRT OBFFCalculation4: public OBFFCalculation3 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:662:32: note: ‘torsioncalc’ declared here 662 | OBFFTorsionCalculationGaff torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGaff::OBFFTorsionCalculationGaff(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:47:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:724:37: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&torsioncalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:662:32: note: ‘torsioncalc’ declared here 662 | OBFFTorsionCalculationGaff torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGaff::OBFFTorsionCalculationGaff(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:47:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:724:37: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&torsioncalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:662:32: note: ‘torsioncalc’ declared here 662 | OBFFTorsionCalculationGaff torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGaff::OBFFTorsionCalculationGaff(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:47:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:724:37: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&torsioncalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:662:32: note: ‘torsioncalc’ declared here 662 | OBFFTorsionCalculationGaff torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’, inlined from ‘OpenBabel::OBFFTorsionCalculationGaff::OBFFTorsionCalculationGaff(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.h:47:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGaff*, OpenBabel::OBFFTorsionCalculationGaff const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGaff const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:724:37: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16: warning: ‘MEM[(const struct OBFFCalculation4 &)&torsioncalc].force_d’ may be used uninitialized [-Wmaybe-uninitialized] 199 | class OBFPRT OBFFCalculation4: public OBFFCalculation3 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp: In member function ‘OpenBabel::OBForceFieldGaff::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldgaff.cpp:662:32: note: ‘torsioncalc’ declared here 662 | OBFFTorsionCalculationGaff torsioncalc; | ^~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 17%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/changecell.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/changecell.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/changecell.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/changecell.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/changecell.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/changecell.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/changecell.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/changecell.cpp: In member function ‘virtual bool OpenBabel::OpChangeCell::Do(OpenBabel::OBBase*, const char*, OpenBabel::OBOp::OpMap*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/changecell.cpp:88:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 88 | for(int i = 0; i < vcvs.size(); i++) | ~~^~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/changecell.cpp:119:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 119 | for(int i = 0; i < vcvs.size(); i++) | ~~^~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 17%] Building CXX object src/CMakeFiles/plugin_fingerprints.dir/fingerprints/fingerecfp.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_fingerprints_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_fingerprints.dir/fingerprints/fingerecfp.cpp.o -MF CMakeFiles/plugin_fingerprints.dir/fingerprints/fingerecfp.cpp.o.d -o CMakeFiles/plugin_fingerprints.dir/fingerprints/fingerecfp.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/fingerecfp.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/fingerprint.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/fingerecfp.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/oberror.h:26, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/fingerprints/fingerecfp.cpp:15: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 17%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/inchidescriptor.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_descriptors_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/inchidescriptor.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/inchidescriptor.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/inchidescriptor.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/inchidescriptor.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/inchidescriptor.cpp:22: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/oberror.h:26, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/inchidescriptor.cpp:20: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/inchidescriptor.cpp:24: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:134:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 134 | : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h: In member function ‘bool OpenBabel::InChIFormat::InchiLess::operator()(const std::string&, const std::string&) const’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:13: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 149 | while(p1!=s1.end() && isdigit(*p1++)); --p1; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:52: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 149 | while(p1!=s1.end() && isdigit(*p1++)); --p1; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:13: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 154 | while(p2!=s2.end() && isdigit(*p2++)); --p2; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:52: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 154 | while(p2!=s2.end() && isdigit(*p2++)); --p2; | ^~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/delpolarh.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/delpolarh.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/delpolarh.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/delpolarh.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/delpolarh.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/delpolarh.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/delpolarh.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/smartsdescriptors.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_descriptors_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_descriptors.dir/descriptors/smartsdescriptors.cpp.o -MF CMakeFiles/plugin_descriptors.dir/descriptors/smartsdescriptors.cpp.o.d -o CMakeFiles/plugin_descriptors.dir/descriptors/smartsdescriptors.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/smartsdescriptors.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/descriptor.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/smartsdescriptors.cpp:22: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/oberror.h:26, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/descriptors/smartsdescriptors.cpp:20: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/delnonpolarh.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/delnonpolarh.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/delnonpolarh.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/delnonpolarh.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/delnonpolarh.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/delnonpolarh.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/delnonpolarh.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/gen2D.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/gen2D.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/gen2D.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/gen2D.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/gen2D.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/gen2D.cpp:22: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/gen2D.cpp:21: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Linking CXX shared module ../lib64/plugin_descriptors.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/plugin_descriptors.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../lib64/plugin_descriptors.so CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o CMakeFiles/plugin_descriptors.dir/descriptors/inchidescriptor.cpp.o CMakeFiles/plugin_descriptors.dir/descriptors/smartsdescriptors.cpp.o -lm -ldl -lz ../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Built target plugin_descriptors make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Linking CXX shared module ../lib64/plugin_fingerprints.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/plugin_fingerprints.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../lib64/plugin_fingerprints.so CMakeFiles/plugin_fingerprints.dir/fingerprints/finger2.cpp.o CMakeFiles/plugin_fingerprints.dir/fingerprints/finger3.cpp.o CMakeFiles/plugin_fingerprints.dir/fingerprints/fingerecfp.cpp.o -lm -ldl -lz ../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Built target plugin_fingerprints make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/fillUC.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/fillUC.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/fillUC.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/fillUC.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/fillUC.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/fillUC.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 18%] Building CXX object src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldghemical.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_forcefields_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldghemical.cpp.o -MF CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldghemical.cpp.o.d -o CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldghemical.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:23, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:23: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:20: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationGhemical::OBFFBondCalculationGhemical(OpenBabel::OBFFBondCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:29:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationGhemical*, OpenBabel::OBFFBondCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationGhemical*, OpenBabel::OBFFBondCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:477:40: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:435:33: note: ‘bondcalc’ declared here 435 | OBFFBondCalculationGhemical bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationGhemical::OBFFBondCalculationGhemical(OpenBabel::OBFFBondCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:29:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationGhemical*, OpenBabel::OBFFBondCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationGhemical*, OpenBabel::OBFFBondCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:477:40: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:435:33: note: ‘bondcalc’ declared here 435 | OBFFBondCalculationGhemical bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationGhemical::OBFFBondCalculationGhemical(OpenBabel::OBFFBondCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:29:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationGhemical*, OpenBabel::OBFFBondCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationGhemical*, OpenBabel::OBFFBondCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:492:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:435:33: note: ‘bondcalc’ declared here 435 | OBFFBondCalculationGhemical bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationGhemical::OBFFBondCalculationGhemical(OpenBabel::OBFFBondCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:29:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationGhemical*, OpenBabel::OBFFBondCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationGhemical*, OpenBabel::OBFFBondCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:492:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:435:33: note: ‘bondcalc’ declared here 435 | OBFFBondCalculationGhemical bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationGhemical::OBFFAngleCalculationGhemical(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:38:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:542:43: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:501:34: note: ‘anglecalc’ declared here 501 | OBFFAngleCalculationGhemical anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationGhemical::OBFFAngleCalculationGhemical(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:38:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:542:43: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:501:34: note: ‘anglecalc’ declared here 501 | OBFFAngleCalculationGhemical anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFAngleCalculationGhemical::OBFFAngleCalculationGhemical(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:38:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:542:43: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&anglecalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:501:34: note: ‘anglecalc’ declared here 501 | OBFFAngleCalculationGhemical anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationGhemical::OBFFAngleCalculationGhemical(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:38:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:558:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:501:34: note: ‘anglecalc’ declared here 501 | OBFFAngleCalculationGhemical anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationGhemical::OBFFAngleCalculationGhemical(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:38:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:558:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:501:34: note: ‘anglecalc’ declared here 501 | OBFFAngleCalculationGhemical anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFAngleCalculationGhemical::OBFFAngleCalculationGhemical(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:38:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationGhemical*, OpenBabel::OBFFAngleCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:558:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&anglecalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:501:34: note: ‘anglecalc’ declared here 501 | OBFFAngleCalculationGhemical anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGhemical::OBFFTorsionCalculationGhemical(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:46:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:623:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&torsioncalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:567:36: note: ‘torsioncalc’ declared here 567 | OBFFTorsionCalculationGhemical torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGhemical::OBFFTorsionCalculationGhemical(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:46:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:623:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&torsioncalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:567:36: note: ‘torsioncalc’ declared here 567 | OBFFTorsionCalculationGhemical torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGhemical::OBFFTorsionCalculationGhemical(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:46:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:623:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&torsioncalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:567:36: note: ‘torsioncalc’ declared here 567 | OBFFTorsionCalculationGhemical torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’, inlined from ‘OpenBabel::OBFFTorsionCalculationGhemical::OBFFTorsionCalculationGhemical(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:46:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:623:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16: warning: ‘MEM[(const struct OBFFCalculation4 &)&torsioncalc].force_d’ may be used uninitialized [-Wmaybe-uninitialized] 199 | class OBFPRT OBFFCalculation4: public OBFFCalculation3 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:567:36: note: ‘torsioncalc’ declared here 567 | OBFFTorsionCalculationGhemical torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGhemical::OBFFTorsionCalculationGhemical(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:46:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:674:37: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&torsioncalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:567:36: note: ‘torsioncalc’ declared here 567 | OBFFTorsionCalculationGhemical torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGhemical::OBFFTorsionCalculationGhemical(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:46:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:674:37: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&torsioncalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:567:36: note: ‘torsioncalc’ declared here 567 | OBFFTorsionCalculationGhemical torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16, inlined from ‘OpenBabel::OBFFTorsionCalculationGhemical::OBFFTorsionCalculationGhemical(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:46:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:674:37: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&torsioncalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:567:36: note: ‘torsioncalc’ declared here 567 | OBFFTorsionCalculationGhemical torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation4::OBFFCalculation4(OpenBabel::OBFFCalculation4 const&)’, inlined from ‘OpenBabel::OBFFTorsionCalculationGhemical::OBFFTorsionCalculationGhemical(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:46:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFTorsionCalculationGhemical*, OpenBabel::OBFFTorsionCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFTorsionCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:674:37: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:199:16: warning: ‘MEM[(const struct OBFFCalculation4 &)&torsioncalc].force_d’ may be used uninitialized [-Wmaybe-uninitialized] 199 | class OBFPRT OBFFCalculation4: public OBFFCalculation3 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:567:36: note: ‘torsioncalc’ declared here 567 | OBFFTorsionCalculationGhemical torsioncalc; | ^~~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFVDWCalculationGhemical::OBFFVDWCalculationGhemical(OpenBabel::OBFFVDWCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:56:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFVDWCalculationGhemical*, OpenBabel::OBFFVDWCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFVDWCalculationGhemical*, OpenBabel::OBFFVDWCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFVDWCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:778:33: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&vdwcalc].energy’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:683:32: note: ‘vdwcalc’ declared here 683 | OBFFVDWCalculationGhemical vdwcalc; | ^~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFVDWCalculationGhemical::OBFFVDWCalculationGhemical(OpenBabel::OBFFVDWCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:56:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFVDWCalculationGhemical*, OpenBabel::OBFFVDWCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFVDWCalculationGhemical*, OpenBabel::OBFFVDWCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFVDWCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:778:33: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&vdwcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:683:32: note: ‘vdwcalc’ declared here 683 | OBFFVDWCalculationGhemical vdwcalc; | ^~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFVDWCalculationGhemical::OBFFVDWCalculationGhemical(OpenBabel::OBFFVDWCalculationGhemical const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:56:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFVDWCalculationGhemical*, OpenBabel::OBFFVDWCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFVDWCalculationGhemical*, OpenBabel::OBFFVDWCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFVDWCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:778:33: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&vdwcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:683:32: note: ‘vdwcalc’ declared here 683 | OBFFVDWCalculationGhemical vdwcalc; | ^~~~~~~ In member function ‘OpenBabel::OBFFVDWCalculationGhemical::OBFFVDWCalculationGhemical(OpenBabel::OBFFVDWCalculationGhemical const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFVDWCalculationGhemical*, OpenBabel::OBFFVDWCalculationGhemical const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFVDWCalculationGhemical*, OpenBabel::OBFFVDWCalculationGhemical const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFVDWCalculationGhemical const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:778:33: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.h:56:9: warning: ‘vdwcalc’ may be used uninitialized [-Wmaybe-uninitialized] 56 | class OBFFVDWCalculationGhemical : public OBFFCalculation2 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp: In member function ‘OpenBabel::OBForceFieldGhemical::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldghemical.cpp:683:32: note: ‘vdwcalc’ declared here 683 | OBFFVDWCalculationGhemical vdwcalc; | ^~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/forcefield.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/forcefield.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/forcefield.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/forcefield.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/forcefield.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/forcefield.cpp:31: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/forcefield.cpp:29: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/forcefield.cpp: In member function ‘virtual bool OpenBabel::OpMinimize::Do(OpenBabel::OBBase*, const char*, OpenBabel::OBOp::OpMap*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/forcefield.cpp:265:10: warning: unused variable ‘done’ [-Wunused-variable] 265 | bool done = true; | ^~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 20%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/largest.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/largest.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/largest.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/largest.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/largest.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/CMakeFiles/plugin_charges.dir/build.make src/CMakeFiles/plugin_charges.dir/depend In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/largest.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/CMakeFiles/plugin_charges.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/CMakeFiles/plugin_charges.dir/build.make src/CMakeFiles/plugin_charges.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 20%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/gen3d.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/gen3d.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/gen3d.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/gen3d.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/gen3d.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/gen3d.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 20%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/loader.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/loader.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/loader.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/loader.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/loader.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/loader.cpp:24: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/loader.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Building CXX object src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefielduff.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_forcefields_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefielduff.cpp.o -MF CMakeFiles/plugin_forcefields.dir/forcefields/forcefielduff.cpp.o.d -o CMakeFiles/plugin_forcefields.dir/forcefields/forcefielduff.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:28, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:32: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:21: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In instantiation of ‘void OpenBabel::OBFFVDWCalculationUFF::Compute() [with bool = true]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:478:37: required from ‘double OpenBabel::OBForceFieldUFF::E_VDW() [with bool = true]’ /usr/include/c++/14/bits/stl_function.h:131:12: note: 478 | i->template Compute(); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:193:37: required from here /usr/include/c++/14/bits/stl_function.h:131:12: note: 193 | return gradients ? E_VDW() : E_VDW(); /usr/include/c++/14/bits/stl_function.h:131:12: note: | ~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:431:14: warning: unused variable ‘ab’ [-Wunused-variable] 431 | double ab[3]; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In instantiation of ‘void OpenBabel::OBFFVDWCalculationUFF::Compute() [with bool = false]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:478:37: required from ‘double OpenBabel::OBForceFieldUFF::E_VDW() [with bool = false]’ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:431:14: warning: 478 | i->template Compute(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:431:14: warning: | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:193:54: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:431:14: warning: 193 | return gradients ? E_VDW() : E_VDW(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:431:14: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:431:14: warning: unused variable ‘ab’ [-Wunused-variable] 431 | double ab[3]; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1534:37: warning: ‘MEM[(const struct OBFFElectrostaticCalculationUFF &)&elecalc].rab’ may be used uninitialized [-Wmaybe-uninitialized] 1534 | OBFFElectrostaticCalculationUFF elecalc; | ^~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFElectrostaticCalculationUFF::OBFFElectrostaticCalculationUFF(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:82:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1585:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&elecalc].energy’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1534:37: note: ‘MEM[(const struct OBFFCalculation2 &)&elecalc].energy’ was declared here 1534 | OBFFElectrostaticCalculationUFF elecalc; | ^~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFElectrostaticCalculationUFF::OBFFElectrostaticCalculationUFF(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:82:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1585:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&elecalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1534:37: note: ‘elecalc’ declared here 1534 | OBFFElectrostaticCalculationUFF elecalc; | ^~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFElectrostaticCalculationUFF::OBFFElectrostaticCalculationUFF(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:82:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1585:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&elecalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1534:37: note: ‘elecalc’ declared here 1534 | OBFFElectrostaticCalculationUFF elecalc; | ^~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFElectrostaticCalculationUFF::OBFFElectrostaticCalculationUFF(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:82:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1585:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&elecalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1534:37: note: ‘elecalc’ declared here 1534 | OBFFElectrostaticCalculationUFF elecalc; | ^~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFElectrostaticCalculationUFF::OBFFElectrostaticCalculationUFF(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:82:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFElectrostaticCalculationUFF*, OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFElectrostaticCalculationUFF const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFElectrostaticCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1585:45: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&elecalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupElectrostatics()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1534:37: note: ‘elecalc’ declared here 1534 | OBFFElectrostaticCalculationUFF elecalc; | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:745:28: warning: ‘MEM[(const struct OBFFBondCalculationUFF &)&bondcalc].rab’ may be used uninitialized [-Wmaybe-uninitialized] 745 | OBFFBondCalculationUFF bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationUFF::OBFFBondCalculationUFF(OpenBabel::OBFFBondCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:30:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:969:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].energy’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:745:28: note: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].energy’ was declared here 745 | OBFFBondCalculationUFF bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationUFF::OBFFBondCalculationUFF(OpenBabel::OBFFBondCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:30:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:969:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:745:28: note: ‘bondcalc’ declared here 745 | OBFFBondCalculationUFF bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationUFF::OBFFBondCalculationUFF(OpenBabel::OBFFBondCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:30:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:969:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:745:28: note: ‘bondcalc’ declared here 745 | OBFFBondCalculationUFF bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFBondCalculationUFF::OBFFBondCalculationUFF(OpenBabel::OBFFBondCalculationUFF const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:969:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:30:9: warning: ‘MEM[(const struct OBFFBondCalculationUFF &)&bondcalc].delta’ may be used uninitialized [-Wmaybe-uninitialized] 30 | class OBFFBondCalculationUFF : public OBFFCalculation2 | ^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:745:28: note: ‘MEM[(const struct OBFFBondCalculationUFF &)&bondcalc].delta’ was declared here 745 | OBFFBondCalculationUFF bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationUFF::OBFFBondCalculationUFF(OpenBabel::OBFFBondCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:30:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:969:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:745:28: note: ‘bondcalc’ declared here 745 | OBFFBondCalculationUFF bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationUFF::OBFFBondCalculationUFF(OpenBabel::OBFFBondCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:30:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationUFF*, OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFBondCalculationUFF const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:969:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:745:28: note: ‘bondcalc’ declared here 745 | OBFFBondCalculationUFF bondcalc; | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:746:29: warning: ‘MEM[(const struct OBFFAngleCalculationUFF &)&anglecalc].theta’ may be used uninitialized [-Wmaybe-uninitialized] 746 | OBFFAngleCalculationUFF anglecalc; | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:746:29: warning: ‘MEM[(const struct OBFFAngleCalculationUFF &)&anglecalc].delta’ may be used uninitialized [-Wmaybe-uninitialized] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:746:29: warning: ‘MEM[(const struct OBFFAngleCalculationUFF &)&anglecalc].rij’ may be used uninitialized [-Wmaybe-uninitialized] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:746:29: warning: ‘MEM[(const struct OBFFAngleCalculationUFF &)&anglecalc].rjk’ may be used uninitialized [-Wmaybe-uninitialized] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:746:29: warning: ‘MEM[(const struct OBFFAngleCalculationUFF &)&anglecalc].rik’ may be used uninitialized [-Wmaybe-uninitialized] In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationUFF::OBFFAngleCalculationUFF(OpenBabel::OBFFAngleCalculationUFF const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationUFF*, OpenBabel::OBFFAngleCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationUFF*, OpenBabel::OBFFAngleCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1186:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].energy’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:746:29: note: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].energy’ was declared here 746 | OBFFAngleCalculationUFF anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFAngleCalculationUFF::OBFFAngleCalculationUFF(OpenBabel::OBFFAngleCalculationUFF const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationUFF*, OpenBabel::OBFFAngleCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationUFF*, OpenBabel::OBFFAngleCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1186:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:39:9: warning: ‘MEM[(const struct OBFFAngleCalculationUFF &)&anglecalc].at’ may be used uninitialized [-Wmaybe-uninitialized] 39 | class OBFFAngleCalculationUFF : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:746:29: note: ‘MEM[(const struct OBFFAngleCalculationUFF &)&anglecalc].at’ was declared here 746 | OBFFAngleCalculationUFF anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFAngleCalculationUFF::OBFFAngleCalculationUFF(OpenBabel::OBFFAngleCalculationUFF const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationUFF*, OpenBabel::OBFFAngleCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationUFF*, OpenBabel::OBFFAngleCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1186:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:39:9: warning: ‘MEM [(struct OBFFAngleCalculationUFF *)&anglecalc + 156B]’ may be used uninitialized [-Wmaybe-uninitialized] 39 | class OBFFAngleCalculationUFF : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:746:29: note: ‘MEM [(struct OBFFAngleCalculationUFF *)&anglecalc + 156B]’ was declared here 746 | OBFFAngleCalculationUFF anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFAngleCalculationUFF::OBFFAngleCalculationUFF(OpenBabel::OBFFAngleCalculationUFF const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationUFF*, OpenBabel::OBFFAngleCalculationUFF const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationUFF*, OpenBabel::OBFFAngleCalculationUFF const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFAngleCalculationUFF const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationUFF const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:1186:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.h:39:9: warning: ‘anglecalc.n’ may be used uninitialized [-Wmaybe-uninitialized] 39 | class OBFFAngleCalculationUFF : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp: In member function ‘OpenBabel::OBForceFieldUFF::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefielduff.cpp:746:29: note: ‘anglecalc.n’ was declared here 746 | OBFFAngleCalculationUFF anglecalc; | ^~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 20%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/eem.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_charges_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/eem.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/eem.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/eem.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/eem.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/eem.cpp:24: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/eem.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/smilesformat.dir/build.make src/formats/CMakeFiles/smilesformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/smilesformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/smilesformat.dir/build.make src/formats/CMakeFiles/smilesformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 21%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/gasteiger.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_charges_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/gasteiger.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/gasteiger.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/gasteiger.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/gasteiger.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/gasteiger.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 20%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/neutralize.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/neutralize.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/neutralize.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/neutralize.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/neutralize.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/neutralize.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 21%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/none.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_charges_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/none.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/none.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/none.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/none.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/none.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 19%] Building CXX object src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldmmff94.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_forcefields_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldmmff94.cpp.o -MF CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldmmff94.cpp.o.d -o CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldmmff94.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:31: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘virtual bool OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2798:32: warning: variable ‘bondtype1’ set but not used [-Wunused-but-set-variable] 2798 | int angletype, strbndtype, bondtype1, bondtype2; | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2798:43: warning: variable ‘bondtype2’ set but not used [-Wunused-but-set-variable] 2798 | int angletype, strbndtype, bondtype1, bondtype2; | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_Bond() [with bool = true]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:289:40: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2798:43: warning: 289 | return gradients ? E_Bond() : E_Bond(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2798:43: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:148:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | for (int i = 0; i < _bondcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_Bond() [with bool = false]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:289:58: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:148:23: warning: 289 | return gradients ? E_Bond() : E_Bond(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:148:23: warning: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:148:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 148 | for (int i = 0; i < _bondcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_Angle() [with bool = true]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:295:41: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:148:23: warning: 295 | return gradients ? E_Angle() : E_Angle(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:148:23: warning: | ~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:263:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 263 | for (int i = 0; i < _anglecalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_Angle() [with bool = false]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:295:60: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:263:23: warning: 295 | return gradients ? E_Angle() : E_Angle(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:263:23: warning: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:263:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 263 | for (int i = 0; i < _anglecalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_StrBnd() [with bool = true]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:301:42: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:263:23: warning: 301 | return gradients ? E_StrBnd() : E_StrBnd(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:263:23: warning: | ~~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:376:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 376 | for (int i = 0; i < _strbndcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_StrBnd() [with bool = false]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:301:62: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:376:23: warning: 301 | return gradients ? E_StrBnd() : E_StrBnd(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:376:23: warning: | ~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:376:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 376 | for (int i = 0; i < _strbndcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_Torsion() [with bool = true]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:307:43: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:376:23: warning: 307 | return gradients ? E_Torsion() : E_Torsion(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:376:23: warning: | ~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:512:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 512 | for (int i = 0; i < _torsioncalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_Torsion() [with bool = false]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:307:64: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:512:23: warning: 307 | return gradients ? E_Torsion() : E_Torsion(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:512:23: warning: | ~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:512:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 512 | for (int i = 0; i < _torsioncalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_OOP() [with bool = true]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:313:39: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:512:23: warning: 313 | return gradients ? E_OOP() : E_OOP(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:512:23: warning: | ~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:610:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 610 | for (int i = 0; i < _oopcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_OOP() [with bool = false]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:313:56: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:610:23: warning: 313 | return gradients ? E_OOP() : E_OOP(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:610:23: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:610:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 610 | for (int i = 0; i < _oopcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_VDW() [with bool = true]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:319:39: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:610:23: warning: 319 | return gradients ? E_VDW() : E_VDW(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:610:23: warning: | ~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:707:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 707 | for (int i = 0; i < _vdwcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_VDW() [with bool = false]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:319:56: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:707:23: warning: 319 | return gradients ? E_VDW() : E_VDW(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:707:23: warning: | ~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:707:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 707 | for (int i = 0; i < _vdwcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_Electrostatic() [with bool = true]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:325:49: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:707:23: warning: 325 | return gradients ? E_Electrostatic() : E_Electrostatic(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:707:23: warning: | ~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:793:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 793 | for (int i = 0; i < _electrostaticcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In instantiation of ‘double OpenBabel::OBForceFieldMMFF94::E_Electrostatic() [with bool = false]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:325:76: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:793:23: warning: 325 | return gradients ? E_Electrostatic() : E_Electrostatic(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:793:23: warning: | ~~~~~~~~~~~~~~~~~~~~~~^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:793:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 793 | for (int i = 0; i < _electrostaticcalculations.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::PerceiveAromatic()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:1451:30: warning: ‘index’ may be used uninitialized [-Wmaybe-uninitialized] 1451 | ringbond = _mol.GetBond(first_rj, index); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:1388:12: note: ‘index’ was declared here 1388 | int n, index, ringsize, first_rj, prev_rj, pi_electrons, c60; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:1451:30: warning: ‘first_rj’ may be used uninitialized [-Wmaybe-uninitialized] 1451 | ringbond = _mol.GetBond(first_rj, index); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:1388:29: note: ‘first_rj’ was declared here 1388 | int n, index, ringsize, first_rj, prev_rj, pi_electrons, c60; | ^~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:44: In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationMMFF94::OBFFBondCalculationMMFF94(OpenBabel::OBFFBondCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:30:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationMMFF94*, OpenBabel::OBFFBondCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationMMFF94*, OpenBabel::OBFFBondCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2765:38: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2707:31: note: ‘bondcalc’ declared here 2707 | OBFFBondCalculationMMFF94 bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationMMFF94::OBFFBondCalculationMMFF94(OpenBabel::OBFFBondCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:30:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationMMFF94*, OpenBabel::OBFFBondCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationMMFF94*, OpenBabel::OBFFBondCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2765:38: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2707:31: note: ‘bondcalc’ declared here 2707 | OBFFBondCalculationMMFF94 bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationMMFF94::OBFFBondCalculationMMFF94(OpenBabel::OBFFBondCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:30:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationMMFF94*, OpenBabel::OBFFBondCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationMMFF94*, OpenBabel::OBFFBondCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2775:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2707:31: note: ‘bondcalc’ declared here 2707 | OBFFBondCalculationMMFF94 bondcalc; | ^~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFBondCalculationMMFF94::OBFFBondCalculationMMFF94(OpenBabel::OBFFBondCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:30:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFBondCalculationMMFF94*, OpenBabel::OBFFBondCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFBondCalculationMMFF94*, OpenBabel::OBFFBondCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFBondCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2775:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&bondcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2707:31: note: ‘bondcalc’ declared here 2707 | OBFFBondCalculationMMFF94 bondcalc; | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2796:32: warning: ‘MEM[(const struct OBFFAngleCalculationMMFF94 &)&anglecalc].theta’ may be used uninitialized [-Wmaybe-uninitialized] 2796 | OBFFAngleCalculationMMFF94 anglecalc; | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2796:32: warning: ‘MEM[(const struct OBFFAngleCalculationMMFF94 &)&anglecalc].delta’ may be used uninitialized [-Wmaybe-uninitialized] In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationMMFF94::OBFFAngleCalculationMMFF94(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2931:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].energy’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2796:32: note: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].energy’ was declared here 2796 | OBFFAngleCalculationMMFF94 anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationMMFF94::OBFFAngleCalculationMMFF94(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2931:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2796:32: note: ‘anglecalc’ declared here 2796 | OBFFAngleCalculationMMFF94 anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationMMFF94::OBFFAngleCalculationMMFF94(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2931:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2796:32: note: ‘anglecalc’ declared here 2796 | OBFFAngleCalculationMMFF94 anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFAngleCalculationMMFF94::OBFFAngleCalculationMMFF94(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2931:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&anglecalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2796:32: note: ‘anglecalc’ declared here 2796 | OBFFAngleCalculationMMFF94 anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationMMFF94::OBFFAngleCalculationMMFF94(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2931:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2796:32: note: ‘anglecalc’ declared here 2796 | OBFFAngleCalculationMMFF94 anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFAngleCalculationMMFF94::OBFFAngleCalculationMMFF94(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2931:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&anglecalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2796:32: note: ‘anglecalc’ declared here 2796 | OBFFAngleCalculationMMFF94 anglecalc; | ^~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFAngleCalculationMMFF94::OBFFAngleCalculationMMFF94(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:39:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFAngleCalculationMMFF94*, OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFAngleCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFAngleCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2931:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&anglecalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2796:32: note: ‘anglecalc’ declared here 2796 | OBFFAngleCalculationMMFF94 anglecalc; | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].delta_theta’ may be used uninitialized [-Wmaybe-uninitialized] 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].delta_rab’ may be used uninitialized [-Wmaybe-uninitialized] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].delta_rbc’ may be used uninitialized [-Wmaybe-uninitialized] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].theta’ may be used uninitialized [-Wmaybe-uninitialized] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].rab’ may be used uninitialized [-Wmaybe-uninitialized] In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&strbndcalc].energy’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘MEM[(const struct OBFFCalculation2 &)&strbndcalc].energy’ was declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&strbndcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&strbndcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&strbndcalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].rbc’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].rbc’ was declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_ab_a’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_ab_b’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_bc_b’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_bc_c’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_abc_a’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_abc_b’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1288:30, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_abc_c’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&strbndcalc].force_a’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation2::OBFFCalculation2(OpenBabel::OBFFCalculation2 const&)’, inlined from ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16, inlined from ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:137:16: warning: ‘MEM[(const struct OBFFCalculation2 &)&strbndcalc].force_b’ may be used uninitialized [-Wmaybe-uninitialized] 137 | class OBFPRT OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFCalculation3::OBFFCalculation3(OpenBabel::OBFFCalculation3 const&)’, inlined from ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/forcefield.h:168:16: warning: ‘MEM[(const struct OBFFCalculation3 &)&strbndcalc].force_c’ may be used uninitialized [-Wmaybe-uninitialized] 168 | class OBFPRT OBFFCalculation3: public OBFFCalculation2 | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_ab_a’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_ab_b’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_bc_b’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ In member function ‘OpenBabel::OBFFStrBndCalculationMMFF94::OBFFStrBndCalculationMMFF94(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’, inlined from ‘std::__new_allocator::construct(OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/new_allocator.h:191:4, inlined from ‘std::allocator_traits >::construct(std::allocator&, OpenBabel::OBFFStrBndCalculationMMFF94*, OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/alloc_traits.h:534:17, inlined from ‘std::vector >::_M_realloc_append(OpenBabel::OBFFStrBndCalculationMMFF94 const&)void’ at /usr/include/c++/14/bits/vector.tcc:634:26, inlined from ‘std::vector >::push_back(OpenBabel::OBFFStrBndCalculationMMFF94 const&)’ at /usr/include/c++/14/bits/stl_vector.h:1294:21, inlined from ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:3074:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.h:49:9: warning: ‘MEM[(const struct OBFFStrBndCalculationMMFF94 &)&strbndcalc].force_bc_c’ may be used uninitialized [-Wmaybe-uninitialized] 49 | class OBFFStrBndCalculationMMFF94 : public OBFFCalculation3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::SetupCalculations()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:2797:33: note: ‘strbndcalc’ declared here 2797 | OBFFStrBndCalculationMMFF94 strbndcalc; | ^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp: In member function ‘OpenBabel::OBForceFieldMMFF94::Validate()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4329:13: warning: ‘etot’ may be used uninitialized [-Wmaybe-uninitialized] 4329 | delta = (Energy() - etot); | ~~~~~~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4002:12: note: ‘etot’ was declared here 4002 | double etot, ebond, eangle, eoop, estbn, etor, evdw, eeq; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4300:13: warning: ‘ebond’ may be used uninitialized [-Wmaybe-uninitialized] 4300 | delta = (E_Bond() - ebond); | ~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4002:18: note: ‘ebond’ was declared here 4002 | double etot, ebond, eangle, eoop, estbn, etor, evdw, eeq; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4304:13: warning: ‘eangle’ may be used uninitialized [-Wmaybe-uninitialized] 4304 | delta = (E_Angle() - eangle); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4002:25: note: ‘eangle’ was declared here 4002 | double etot, ebond, eangle, eoop, estbn, etor, evdw, eeq; | ^~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4312:13: warning: ‘eoop’ may be used uninitialized [-Wmaybe-uninitialized] 4312 | delta = (E_OOP() - eoop); | ~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4002:33: note: ‘eoop’ was declared here 4002 | double etot, ebond, eangle, eoop, estbn, etor, evdw, eeq; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4308:13: warning: ‘estbn’ may be used uninitialized [-Wmaybe-uninitialized] 4308 | delta = (E_StrBnd() - estbn); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4002:39: note: ‘estbn’ was declared here 4002 | double etot, ebond, eangle, eoop, estbn, etor, evdw, eeq; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4316:13: warning: ‘etor’ may be used uninitialized [-Wmaybe-uninitialized] 4316 | delta = (E_Torsion() - etor); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4002:46: note: ‘etor’ was declared here 4002 | double etot, ebond, eangle, eoop, estbn, etor, evdw, eeq; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4320:13: warning: ‘evdw’ may be used uninitialized [-Wmaybe-uninitialized] 4320 | delta = (E_VDW() - evdw); | ~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4002:52: note: ‘evdw’ was declared here 4002 | double etot, ebond, eangle, eoop, estbn, etor, evdw, eeq; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4324:13: warning: ‘eeq’ may be used uninitialized [-Wmaybe-uninitialized] 4324 | delta = (E_Electrostatic() - eeq); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/forcefields/forcefieldmmff94.cpp:4002:58: note: ‘eeq’ was declared here 4002 | double etot, ebond, eangle, eoop, estbn, etor, evdw, eeq; | ^~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 21%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/opsplit.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/opsplit.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/opsplit.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/opsplit.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opsplit.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opsplit.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opsplit.cpp: In member function ‘virtual bool OpenBabel::OpSplit::Do(OpenBabel::OBBase*, const char*, OpenBabel::OBOp::OpMap*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opsplit.cpp:92:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 92 | if(!pConv) | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opsplit.cpp:95:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 95 | if(pConv->IsFirstInput()) | ^~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 21%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/mmff94.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_charges_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/mmff94.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/mmff94.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/mmff94.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/mmff94.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/mmff94.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 22%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/optransform.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/optransform.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/optransform.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/optransform.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/optransform.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/optransform.h:21, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/optransform.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/parsmart.h:23, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/phmodel.h:23, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/optransform.h:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 22%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/fromfile.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_charges_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/fromfile.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/fromfile.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/fromfile.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/fromfile.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/fromfile.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/fromfile.cpp: In member function ‘virtual bool OpenBabel::FromFileCharges::ComputeCharges(OpenBabel::OBMol&, const char*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/fromfile.cpp:102:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 102 | for ( int i = 1; i <= mol.NumAtoms(); i++) | ~~^~~~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 22%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/partialcharges.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/partialcharges.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/partialcharges.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/partialcharges.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/partialcharges.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/partialcharges.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 22%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/readconformers.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/readconformers.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/readconformers.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/readconformers.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/readconformers.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/readconformers.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 21%] Building CXX object src/formats/CMakeFiles/smilesformat.dir/smilesformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dsmilesformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/smilesformat.dir/smilesformat.cpp.o -MF CMakeFiles/smilesformat.dir/smilesformat.cpp.o.d -o CMakeFiles/smilesformat.dir/smilesformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:23: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp: In constructor ‘OpenBabel::OBSmilesParser::OBSmilesParser(bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:291:10: warning: ‘OpenBabel::OBSmilesParser::_preserve_aromaticity’ will be initialized after [-Wreorder] 291 | bool _preserve_aromaticity; | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:289:9: warning: ‘int OpenBabel::OBSmilesParser::_rxnrole’ [-Wreorder] 289 | int _rxnrole; | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:318:5: warning: when initialized here [-Wreorder] 318 | OBSmilesParser(bool preserve_aromaticity=false): _preserve_aromaticity(preserve_aromaticity), _rxnrole(1) { } | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp: In member function ‘bool OpenBabel::OBSmilesParser::ParseSmiles(OpenBabel::OBMol&, const std::string&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:655:15: warning: variable ‘atom’ set but not used [-Wunused-but-set-variable] 655 | OBAtom* atom; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp: In member function ‘int OpenBabel::OBSmilesParser::NumConnections(OpenBabel::OBAtom*, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:2200:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2200 | if (idx-1 < _hcount.size() && _hcount[idx-1] > 0) | ~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp: In member function ‘bool OpenBabel::OBMol2Cansmi::GetSmilesElement(OpenBabel::OBCanSmiNode*, std::vector&, std::vector&, std::string&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:2685:10: warning: variable ‘symbol’ set but not used [-Wunused-but-set-variable] 2685 | char symbol[10]; | ^~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:2689:10: warning: unused variable ‘normalValence’ [-Wunused-variable] 2689 | bool normalValence = true; | ^~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:2690:10: warning: unused variable ‘writeExplicitHydrogen’ [-Wunused-variable] 2690 | bool writeExplicitHydrogen = false; | ^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp: In member function ‘bool OpenBabel::OBMol2Cansmi::BuildCanonTree(OpenBabel::OBMol&, OpenBabel::OBBitVec&, std::vector&, OpenBabel::OBCanSmiNode*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:3139:22: warning: unused variable ‘bond_order’ [-Wunused-variable] 3139 | unsigned int bond_order = bond->GetBondOrder(); | ^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:3134:20: warning: unused variable ‘nbr_bond_order’ [-Wunused-variable] 3134 | unsigned int nbr_bond_order = nbr_bond->GetBondOrder(); | ^~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp: In member function ‘std::vector OpenBabel::OBMol2Cansmi::GetCanonClosureDigits(OpenBabel::OBAtom*, OpenBabel::OBBitVec&, std::vector&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:3286:11: warning: unused variable ‘bo’ [-Wunused-variable] 3286 | int bo = (bond1->IsAromatic())? 1 : bond1->GetBondOrder(); // CJ: why was this line added? bo is never used? | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp: In member function ‘void OpenBabel::OBMol2Cansmi::CreateFragCansmiString(OpenBabel::OBMol&, OpenBabel::OBBitVec&, std::string&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:3899:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3899 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3905 | for (int i=0; i >&, std::vector >&, std::__cxx11::basic_string, std::allocator >&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:2865:35: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 2865 | snprintf(tcount, 10, "%d", hcount); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘OpenBabel::OBMol2Cansmi::GetSmilesElement(OpenBabel::OBCanSmiNode*, std::vector >&, std::vector >&, std::__cxx11::basic_string, std::allocator >&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:2865:19: /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 2 and 11 bytes into a destination of size 10 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp: In member function ‘OpenBabel::OBMol2Cansmi::GetSmilesElement(OpenBabel::OBCanSmiNode*, std::vector >&, std::vector >&, std::__cxx11::basic_string, std::allocator >&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:2857:35: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 2857 | snprintf(tcount, 10, "%d", i); | ^ In function ‘snprintf’, inlined from ‘OpenBabel::OBMol2Cansmi::GetSmilesElement(OpenBabel::OBCanSmiNode*, std::vector >&, std::vector >&, std::__cxx11::basic_string, std::allocator >&)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smilesformat.cpp:2857:19: /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 2 and 11 bytes into a destination of size 10 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 22%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/sort.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/sort.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/sort.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/sort.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/sort.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/sort.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/sort.cpp:32:28: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 32 | struct Order : public std::binary_function, std::pair, bool> | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 22%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/opisomorph.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/opisomorph.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/opisomorph.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/opisomorph.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opisomorph.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opisomorph.h:15, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opisomorph.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/parsmart.h:23, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opisomorph.cpp:15: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opisomorph.cpp: In member function ‘virtual bool OpenBabel::OpNewS::Do(OpenBabel::OBBase*, const char*, OpenBabel::OBOp::OpMap*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opisomorph.cpp:303:28: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 303 | if(pmol->NumHvyAtoms() != nPatternAtoms) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 23%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/ophighlight.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/ophighlight.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/ophighlight.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/ophighlight.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/ophighlight.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/ophighlight.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/parsmart.h:23, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/ophighlight.cpp:16: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 22%] Linking CXX shared module ../../lib64/smilesformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/smilesformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/smilesformat.so CMakeFiles/smilesformat.dir/smilesformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 23%] Built target smilesformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 23%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/xout.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/xout.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/xout.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/xout.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/xout.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/xout.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 22%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/eqeq.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_charges_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/eqeq.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/eqeq.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/eqeq.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/eqeq.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/eqeq.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/eqeq.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 21%] Linking CXX shared module ../lib64/plugin_forcefields.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/plugin_forcefields.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../lib64/plugin_forcefields.so CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldgaff.cpp.o CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldghemical.cpp.o CMakeFiles/plugin_forcefields.dir/forcefields/forcefieldmmff94.cpp.o CMakeFiles/plugin_forcefields.dir/forcefields/forcefielduff.cpp.o -lm -ldl -lz ../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 24%] Built target plugin_forcefields make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 24%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/conformer.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/conformer.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/conformer.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/conformer.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/conformer.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/conformer.cpp:32: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/conformer.cpp:29: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/conformer.cpp: In member function ‘virtual bool OpenBabel::OpConformer::Do(OpenBabel::OBBase*, const char*, OpenBabel::OBOp::OpMap*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/conformer.cpp:287:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 287 | if (p1>pmol->NumAtoms() || p2>pmol->NumAtoms()){ | ~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/conformer.cpp:287:42: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 287 | if (p1>pmol->NumAtoms() || p2>pmol->NumAtoms()){ | ~~^~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 24%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/opconfab.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/opconfab.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/opconfab.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/opconfab.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opconfab.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opconfab.cpp:23: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opconfab.cpp:22: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opconfab.cpp: In member function ‘void OpenBabel::OpConfab::Run(OpenBabel::OBConversion*, OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opconfab.cpp:167:14: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 167 | for (; c < mol.NumConformers(); ++c) { | ~~^~~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/mdlformat.dir/build.make src/formats/CMakeFiles/mdlformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/mdlformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/mdlformat.dir/build.make src/formats/CMakeFiles/mdlformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 24%] Building CXX object src/CMakeFiles/plugin_ops.dir/ops/opalign.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_ops_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_ops.dir/ops/opalign.cpp.o -MF CMakeFiles/plugin_ops.dir/ops/opalign.cpp.o.d -o CMakeFiles/plugin_ops.dir/ops/opalign.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opalign.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opalign.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/opalign.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 24%] Building CXX object src/formats/CMakeFiles/mdlformat.dir/mdlformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dmdlformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/mdlformat.dir/mdlformat.cpp.o -MF CMakeFiles/mdlformat.dir/mdlformat.cpp.o.d -o CMakeFiles/mdlformat.dir/mdlformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:35: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:26: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:43: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h: In function ‘unsigned int MDLValence(unsigned int, int, unsigned int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:51:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 51 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:51:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 51 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:64:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 64 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:64:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 64 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:77:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 77 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:77:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 77 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:90:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 90 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:90:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 90 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:103:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 103 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:103:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 103 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:116:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 116 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:116:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 116 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:119:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 119 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:119:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 119 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:121:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 121 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:121:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 121 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:134:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 134 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:134:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 134 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:137:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 137 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:137:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 137 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:139:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 139 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:139:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 139 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:152:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 152 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:152:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 152 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:155:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 155 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:155:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 155 | if (val <= 6) return 6; break; | make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:157:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 157 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:157:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 157 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:170:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 170 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:170:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 170 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:173:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 173 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:173:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 173 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:175:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:175:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:188:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 188 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:188:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 188 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:191:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 191 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:191:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 191 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:193:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 193 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:193:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 193 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:206:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 206 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:206:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 206 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:209:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 209 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:209:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 209 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:211:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 211 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:211:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 211 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:223:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 223 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:223:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 223 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:226:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 226 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:226:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 226 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:228:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 228 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:228:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 228 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:240:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 240 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:240:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 240 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:243:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 243 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:243:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 243 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:245:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 245 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:245:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 245 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:257:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 257 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:257:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 257 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:260:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 260 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:260:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 260 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:262:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 262 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:262:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 262 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:274:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 274 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:274:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 274 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:277:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 277 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:277:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 277 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:279:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 279 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:279:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 279 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:291:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 291 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:291:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 291 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:294:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 294 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:294:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 294 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:296:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 296 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:296:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 296 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:298:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 298 | if (val <= 4) return 4; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:298:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 298 | if (val <= 4) return 4; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:310:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 310 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:310:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 310 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:313:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 313 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:313:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 313 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:315:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 315 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:315:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 315 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:317:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 317 | if (val <= 4) return 4; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:317:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 317 | if (val <= 4) return 4; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:329:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 329 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:329:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 329 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:332:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 332 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:332:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 332 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:334:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 334 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:334:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 334 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:336:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 336 | if (val <= 4) return 4; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:336:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 336 | if (val <= 4) return 4; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:348:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 348 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:348:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 348 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:351:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 351 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:351:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 351 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:353:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 353 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:353:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 353 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:355:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 355 | if (val <= 4) return 4; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:355:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 355 | if (val <= 4) return 4; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:367:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 367 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:367:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 367 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:370:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 370 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:370:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 370 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:372:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 372 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:372:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 372 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:374:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 374 | if (val <= 4) return 4; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:374:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 374 | if (val <= 4) return 4; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:385:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 385 | if (val <= 7) return 7; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:385:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 385 | if (val <= 7) return 7; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:388:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 388 | if (val <= 6) return 6; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:388:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 388 | if (val <= 6) return 6; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:390:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 390 | if (val <= 5) return 5; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:390:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 390 | if (val <= 5) return 5; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:392:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 392 | if (val <= 4) return 4; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:392:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 392 | if (val <= 4) return 4; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:394:15: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 394 | if (val <= 3) return 3; break; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:394:40: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 394 | if (val <= 3) return 3; break; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h: In function ‘unsigned int HYDValence(unsigned int, int, unsigned int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlvalence.h:416:11: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 416 | if (val > impval) { | ~~~~^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp: In member function ‘bool OpenBabel::MDLFormat::ReadAtomBlock(std::istream&, OpenBabel::OBMol&, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:1488:10: warning: unused variable ‘chiralWatch’ [-Wunused-variable] 1488 | bool chiralWatch=false; | ^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp: In member function ‘OpenBabel::MDLFormat::GetTimeDate[abi:cxx11]()’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:1709:27: warning: ‘%02d’ directive output may be truncated writing between 2 and 11 bytes into a region of size between 0 and 9 [-Wformat-truncation=] 1709 | snprintf(td, 11, "%02d%02d%02d%02d%02d", ts->tm_mon+1, ts->tm_mday, | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:1709:22: note: directive argument in the range [-2147483648, 2147483547] 1709 | snprintf(td, 11, "%02d%02d%02d%02d%02d", ts->tm_mon+1, ts->tm_mday, | ^~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/iomanip:42, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:27: In function ‘snprintf’, inlined from ‘OpenBabel::MDLFormat::GetTimeDate[abi:cxx11]()’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:1709:13: /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 11 and 56 bytes into a destination of size 11 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp: In member function ‘OpenBabel::MDLFormat::CisTransFromUpDown(OpenBabel::OBMol*, std::map, std::allocator > >*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:2022:7: warning: ‘a1_stereo’ may be used uninitialized [-Wmaybe-uninitialized] 2022 | if (a1_stereo == a2_stereo) | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:1987:31: note: ‘a1_stereo’ was declared here 1987 | OBStereo::BondDirection a1_stereo, a2_stereo; | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:2022:7: warning: ‘a2_stereo’ may be used uninitialized [-Wmaybe-uninitialized] 2022 | if (a1_stereo == a2_stereo) | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mdlformat.cpp:1987:42: note: ‘a2_stereo’ was declared here 1987 | OBStereo::BondDirection a1_stereo, a2_stereo; | ^~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 25%] Linking CXX shared module ../lib64/plugin_ops.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/plugin_ops.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../lib64/plugin_ops.so CMakeFiles/plugin_ops.dir/ops/addfilename.cpp.o CMakeFiles/plugin_ops.dir/ops/addinindex.cpp.o CMakeFiles/plugin_ops.dir/ops/addpolarh.cpp.o CMakeFiles/plugin_ops.dir/ops/addnonpolarh.cpp.o CMakeFiles/plugin_ops.dir/ops/canonical.cpp.o CMakeFiles/plugin_ops.dir/ops/changecell.cpp.o CMakeFiles/plugin_ops.dir/ops/delpolarh.cpp.o CMakeFiles/plugin_ops.dir/ops/delnonpolarh.cpp.o CMakeFiles/plugin_ops.dir/ops/gen2D.cpp.o CMakeFiles/plugin_ops.dir/ops/fillUC.cpp.o CMakeFiles/plugin_ops.dir/ops/forcefield.cpp.o CMakeFiles/plugin_ops.dir/ops/gen3d.cpp.o CMakeFiles/plugin_ops.dir/ops/largest.cpp.o CMakeFiles/plugin_ops.dir/ops/loader.cpp.o CMakeFiles/plugin_ops.dir/ops/neutralize.cpp.o CMakeFiles/plugin_ops.dir/ops/opsplit.cpp.o CMakeFiles/plugin_ops.dir/ops/optransform.cpp.o CMakeFiles/plugin_ops.dir/ops/partialcharges.cpp.o CMakeFiles/plugin_ops.dir/ops/readconformers.cpp.o CMakeFiles/plugin_ops.dir/ops/sort.cpp.o CMakeFiles/plugin_ops.dir/ops/opisomorph.cpp.o CMakeFiles/plugin_ops.dir/ops/ophighlight.cpp.o CMakeFiles/plugin_ops.dir/ops/xout.cpp.o CMakeFiles/plugin_ops.dir/ops/conformer.cpp.o CMakeFiles/plugin_ops.dir/ops/opalign.cpp.o CMakeFiles/plugin_ops.dir/ops/opconfab.cpp.o -lm -ldl -lz ../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 25%] Built target plugin_ops make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/mol2format.dir/build.make src/formats/CMakeFiles/mol2format.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/mol2format.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/mol2format.dir/build.make src/formats/CMakeFiles/mol2format.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 25%] Building CXX object src/formats/CMakeFiles/mol2format.dir/mol2format.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dmol2format_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/mol2format.dir/mol2format.cpp.o -MF CMakeFiles/mol2format.dir/mol2format.cpp.o.d -o CMakeFiles/mol2format.dir/mol2format.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp: In member function ‘virtual bool OpenBabel::MOL2Format::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp:422:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 422 | if(aid <= mol.NumAtoms()) | ~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp: In member function ‘virtual int OpenBabel::MOL2Format::SkipObjects(int, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp:785:10: warning: unused variable ‘ch’ [-Wunused-variable] 785 | char ch = ifs.peek(); | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp: At global scope: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mol2format.cpp:86:15: warning: ‘bool OpenBabel::IsThiocarboxylSulfur(OBAtom*)’ defined but not used [-Wunused-function] 86 | static bool IsThiocarboxylSulfur(OBAtom* queryatom) | ^~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 25%] Linking CXX shared module ../../lib64/mol2format.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/mol2format.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/mol2format.so CMakeFiles/mol2format.dir/mol2format.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 25%] Built target mol2format make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/pdbformat.dir/build.make src/formats/CMakeFiles/pdbformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/pdbformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/pdbformat.dir/build.make src/formats/CMakeFiles/pdbformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 25%] Linking CXX shared module ../../lib64/mdlformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/mdlformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/mdlformat.so CMakeFiles/mdlformat.dir/mdlformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 26%] Built target mdlformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/inchiformat.dir/build.make src/formats/CMakeFiles/inchiformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/inchiformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/inchiformat.dir/build.make src/formats/CMakeFiles/inchiformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 26%] Building CXX object src/formats/CMakeFiles/pdbformat.dir/pdbformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dpdbformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/pdbformat.dir/pdbformat.cpp.o -MF CMakeFiles/pdbformat.dir/pdbformat.cpp.o.d -o CMakeFiles/pdbformat.dir/pdbformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp: In member function ‘virtual bool OpenBabel::PDBFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:615:26: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare] 615 | if (origin == pUC->GetSpaceGroup()->HEXAGONAL_ORIGIN) | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:684:58: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 684 | snprintf(type_name, sizeof(type_name), " %-3s", tmp); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘OpenBabel::PDBFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:684:21: /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 5 and 11 bytes into a destination of size 10 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp: In member function ‘OpenBabel::PDBFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:702:70: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 702 | snprintf(padded_name, sizeof(padded_name), " %-3s", tmp); | ^ In function ‘snprintf’, inlined from ‘OpenBabel::PDBFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:702:29: /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 5 and 11 bytes into a destination of size 10 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp: In member function ‘OpenBabel::PDBFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:739:35: warning: ‘%+d’ directive output may be truncated writing between 2 and 6 bytes into a region of size 3 [-Wformat-truncation=] 739 | snprintf(scharge, 3, "%+d", charge); | ^~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:739:34: note: directive argument in the range [-32768, 32767] 739 | snprintf(scharge, 3, "%+d", charge); | ^~~~~ In function ‘snprintf’, inlined from ‘OpenBabel::PDBFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:739:21: /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 3 and 7 bytes into a destination of size 3 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp: In member function ‘OpenBabel::PDBFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:303:12: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 32761 [-Wstringop-truncation] 303 | strncpy(integerBuffer, buffer+columnAsSpecifiedInPDB-1, 5); | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:303:12: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 32756 [-Wstringop-truncation] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:303:12: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 32751 [-Wstringop-truncation] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:303:12: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 32746 [-Wstringop-truncation] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbformat.cpp:303:12: warning: ‘strncpy’ output may be truncated copying 5 bytes from a string of length 32741 [-Wstringop-truncation] make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 26%] Building CXX object src/formats/CMakeFiles/inchiformat.dir/inchiformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dinchiformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/inchiformat.dir/inchiformat.cpp.o -MF CMakeFiles/inchiformat.dir/inchiformat.cpp.o.d -o CMakeFiles/inchiformat.dir/inchiformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp:23: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp:19: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp:32: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:134:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 134 | : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h: In member function ‘bool OpenBabel::InChIFormat::InchiLess::operator()(const std::string&, const std::string&) const’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:13: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 149 | while(p1!=s1.end() && isdigit(*p1++)); --p1; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:52: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 149 | while(p1!=s1.end() && isdigit(*p1++)); --p1; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:13: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 154 | while(p2!=s2.end() && isdigit(*p2++)); --p2; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:52: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 154 | while(p2!=s2.end() && isdigit(*p2++)); --p2; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp: In member function ‘virtual bool OpenBabel::InChIFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp:193:52: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘AT_NUM’ {aka ‘short int’} [-Wsign-compare] 193 | if ( !(a->GetId() == ct->end || a->GetId() == stereo.neighbor[0] ) ) { | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/inchiformat.cpp:199:54: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘AT_NUM’ {aka ‘short int’} [-Wsign-compare] 199 | if ( !(b->GetId() == ct->begin || b->GetId() == stereo.neighbor[3] ) ) { | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 27%] Building CXX object src/formats/CMakeFiles/inchiformat.dir/getinchi.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dinchiformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/inchiformat.dir/getinchi.cpp.o -MF CMakeFiles/inchiformat.dir/getinchi.cpp.o.d -o CMakeFiles/inchiformat.dir/getinchi.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/getinchi.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 27%] Building CXX object src/formats/CMakeFiles/inchiformat.dir/__/ops/unique.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dinchiformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/inchiformat.dir/__/ops/unique.cpp.o -MF CMakeFiles/inchiformat.dir/__/ops/unique.cpp.o.d -o CMakeFiles/inchiformat.dir/__/ops/unique.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/unique.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:25, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/unique.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/op.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/ops/unique.cpp:23: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:134:19: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 134 | : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h: In member function ‘bool OpenBabel::InChIFormat::InchiLess::operator()(const std::string&, const std::string&) const’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:13: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 149 | while(p1!=s1.end() && isdigit(*p1++)); --p1; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:149:52: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 149 | while(p1!=s1.end() && isdigit(*p1++)); --p1; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:13: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 154 | while(p2!=s2.end() && isdigit(*p2++)); --p2; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/inchiformat.h:154:52: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 154 | while(p2!=s2.end() && isdigit(*p2++)); --p2; | ^~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 26%] Linking CXX shared module ../../lib64/pdbformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/pdbformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/pdbformat.so CMakeFiles/pdbformat.dir/pdbformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 27%] Built target pdbformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/asciiformat.dir/build.make src/formats/CMakeFiles/asciiformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/asciiformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/asciiformat.dir/build.make src/formats/CMakeFiles/asciiformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 24%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/qeq.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_charges_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/qeq.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/qeq.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/qeq.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/qeq.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/qeq.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/qeq.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/eigen3/Eigen/Core:341, from /usr/include/eigen3/Eigen/LU:11, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/qeq.h:29: /usr/include/eigen3/Eigen/src/Core/products/TriangularMatrixVector.h: In function ‘Eigen::internal::trmv_selector<6, 1>::run, -1, -1, false> const, -1, -1, false> const>, Eigen::Transpose, Eigen::CwiseNullaryOp, Eigen::Matrix const> const, Eigen::Transpose, -1, -1, false> const, -1, 1, true> const, -1, 1, false> const> const> const>, Eigen::Transpose, 1, -1, true>, 1, -1, false> > >(Eigen::Transpose, -1, -1, false> const, -1, -1, false> const> const&, Eigen::Transpose, Eigen::CwiseNullaryOp, Eigen::Matrix const> const, Eigen::Transpose, -1, -1, false> const, -1, 1, true> const, -1, 1, false> const> const> const> const&, Eigen::Transpose, 1, -1, true>, 1, -1, false> >&, Eigen::Transpose, 1, -1, true>, 1, -1, false> >::Scalar const&)void [clone .isra.0]’: /usr/include/eigen3/Eigen/src/Core/products/TriangularMatrixVector.h:332:12: warning: ‘result_47’ may be used uninitialized [-Wmaybe-uninitialized] 327 | internal::triangular_matrix_vector_product | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 328 | | ~~~~~~~~~ 332 | ::run(actualLhs.rows(),actualLhs.cols(), | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 | actualLhs.data(),actualLhs.outerStride(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 | actualRhsPtr,1, | ~~~~~~~~~~~~~~~ 335 | dest.data(),dest.innerStride(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 | actualAlpha); | ~~~~~~~~~~~~ /usr/include/eigen3/Eigen/src/Core/products/TriangularMatrixVector.h:105:24: note: by argument 5 of type ‘const double *’ to ‘Eigen::internal::triangular_matrix_vector_product::run(long, long, double const*, long, double const*, long, double*, long, double const&) [clone .constprop.0]’ declared here 105 | EIGEN_DONT_INLINE void triangular_matrix_vector_product | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/copyformat.dir/build.make src/formats/CMakeFiles/copyformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/copyformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/copyformat.dir/build.make src/formats/CMakeFiles/copyformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 28%] Building CXX object src/formats/CMakeFiles/asciiformat.dir/asciiformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dasciiformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/asciiformat.dir/asciiformat.cpp.o -MF CMakeFiles/asciiformat.dir/asciiformat.cpp.o.d -o CMakeFiles/asciiformat.dir/asciiformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/asciiformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/asciiformat.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 29%] Building CXX object src/formats/CMakeFiles/copyformat.dir/copyformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dcopyformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/copyformat.dir/copyformat.cpp.o -MF CMakeFiles/copyformat.dir/copyformat.cpp.o.d -o CMakeFiles/copyformat.dir/copyformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/copyformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/copyformat.cpp:14: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 29%] Linking CXX shared module ../../lib64/copyformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/copyformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/copyformat.so CMakeFiles/copyformat.dir/copyformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 29%] Built target copyformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/MNAformat.dir/build.make src/formats/CMakeFiles/MNAformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/MNAformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/MNAformat.dir/build.make src/formats/CMakeFiles/MNAformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 24%] Building CXX object src/CMakeFiles/plugin_charges.dir/charges/qtpie.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src && /usr/bin/g++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dplugin_charges_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/CMakeFiles/plugin_charges.dir/charges/qtpie.cpp.o -MF CMakeFiles/plugin_charges.dir/charges/qtpie.cpp.o.d -o CMakeFiles/plugin_charges.dir/charges/qtpie.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/qtpie.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/chargemodel.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/qtpie.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/qtpie.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/dlhandler.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/eigen3/Eigen/Core:341, from /usr/include/eigen3/Eigen/LU:11, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/charges/qtpie.h:29: /usr/include/eigen3/Eigen/src/Core/products/TriangularMatrixVector.h: In function ‘Eigen::internal::trmv_selector<6, 1>::run, -1, -1, false> const, -1, -1, false> const>, Eigen::Transpose, Eigen::CwiseNullaryOp, Eigen::Matrix const> const, Eigen::Transpose, -1, -1, false> const, -1, 1, true> const, -1, 1, false> const> const> const>, Eigen::Transpose, 1, -1, true>, 1, -1, false> > >(Eigen::Transpose, -1, -1, false> const, -1, -1, false> const> const&, Eigen::Transpose, Eigen::CwiseNullaryOp, Eigen::Matrix const> const, Eigen::Transpose, -1, -1, false> const, -1, 1, true> const, -1, 1, false> const> const> const> const&, Eigen::Transpose, 1, -1, true>, 1, -1, false> >&, Eigen::Transpose, 1, -1, true>, 1, -1, false> >::Scalar const&)void [clone .isra.0]’: /usr/include/eigen3/Eigen/src/Core/products/TriangularMatrixVector.h:332:12: warning: ‘result_47’ may be used uninitialized [-Wmaybe-uninitialized] 327 | internal::triangular_matrix_vector_product | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 328 | | ~~~~~~~~~ 332 | ::run(actualLhs.rows(),actualLhs.cols(), | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 | actualLhs.data(),actualLhs.outerStride(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 | actualRhsPtr,1, | ~~~~~~~~~~~~~~~ 335 | dest.data(),dest.innerStride(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 | actualAlpha); | ~~~~~~~~~~~~ /usr/include/eigen3/Eigen/src/Core/products/TriangularMatrixVector.h:105:24: note: by argument 5 of type ‘const double *’ to ‘Eigen::internal::triangular_matrix_vector_product::run(long, long, double const*, long, double const*, long, double*, long, double const&) [clone .constprop.0]’ declared here 105 | EIGEN_DONT_INLINE void triangular_matrix_vector_product | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 27%] Linking CXX shared module ../../lib64/inchiformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/inchiformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/inchiformat.so CMakeFiles/inchiformat.dir/inchiformat.cpp.o CMakeFiles/inchiformat.dir/getinchi.cpp.o CMakeFiles/inchiformat.dir/__/ops/unique.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 29%] Building CXX object src/formats/CMakeFiles/asciiformat.dir/__/depict/asciipainter.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dasciiformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/asciiformat.dir/__/depict/asciipainter.cpp.o -MF CMakeFiles/asciiformat.dir/__/depict/asciipainter.cpp.o.d -o CMakeFiles/asciiformat.dir/__/depict/asciipainter.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/asciipainter.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/asciipainter.cpp: In member function ‘virtual void OpenBabel::ASCIIPainter::DrawText(double, double, const std::string&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/depict/asciipainter.cpp:118:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 118 | for (int i=0; i> buf; cout << buf << endl; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:871:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 871 | while( buf != "Geometry" ) ifs >> buf; cout << buf << endl; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:884:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 884 | while( buf != "Geometry" ) ifs >> buf; cout << buf << endl; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:884:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 884 | while( buf != "Geometry" ) ifs >> buf; cout << buf << endl; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:906:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 906 | while( buf != "Geometry" ) ifs >> buf; cout << buf << endl; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:906:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 906 | while( buf != "Geometry" ) ifs >> buf; cout << buf << endl; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:921:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 921 | while( buf != "Geometry" ) ifs >> buf; cout << buf << endl; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:921:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 921 | while( buf != "Geometry" ) ifs >> buf; cout << buf << endl; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:936:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] 936 | while( buf != "Geometry" ) ifs >> buf; cout << buf << endl; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/adfformat.cpp:936:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ 936 | while( buf != "Geometry" ) ifs >> buf; cout << buf << endl; | ^~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 35%] Linking CXX shared module ../../lib64/aoforceformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/aoforceformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/aoforceformat.so CMakeFiles/aoforceformat.dir/aoforceformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 36%] Built target aoforceformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/daltonformat.dir/build.make src/formats/CMakeFiles/daltonformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/daltonformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/daltonformat.dir/build.make src/formats/CMakeFiles/daltonformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 36%] Linking CXX shared module ../../lib64/castepformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/castepformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/castepformat.so CMakeFiles/castepformat.dir/castepformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 36%] Built target castepformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/dmolformat.dir/build.make src/formats/CMakeFiles/dmolformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/dmolformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/dmolformat.dir/build.make src/formats/CMakeFiles/dmolformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 35%] Building CXX object src/formats/CMakeFiles/crystal09format.dir/crystal09format.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dcrystal09format_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/crystal09format.dir/crystal09format.cpp.o -MF CMakeFiles/crystal09format.dir/crystal09format.cpp.o.d -o CMakeFiles/crystal09format.dir/crystal09format.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/crystal09format.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/crystal09format.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/crystal09format.cpp:15: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 36%] Building CXX object src/formats/CMakeFiles/daltonformat.dir/daltonformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Ddaltonformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/daltonformat.dir/daltonformat.cpp.o -MF CMakeFiles/daltonformat.dir/daltonformat.cpp.o.d -o CMakeFiles/daltonformat.dir/daltonformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/daltonformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/daltonformat.cpp:15: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/daltonformat.cpp: In member function ‘virtual bool OpenBabel::DALTONInputFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/daltonformat.cpp:148:9: warning: variable ‘atomcount’ set but not used [-Wunused-but-set-variable] 148 | int atomcount = 0; // for each atom type | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/daltonformat.cpp: In member function ‘virtual bool OpenBabel::DALTONInputFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/daltonformat.cpp:312:31: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 312 | if(atom->GetAtomicNum() != atomtype) | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/daltonformat.cpp:332:31: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 332 | if(atom->GetAtomicNum() != atomtype) | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 36%] Building CXX object src/formats/CMakeFiles/dmolformat.dir/dmolformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Ddmolformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/dmolformat.dir/dmolformat.cpp.o -MF CMakeFiles/dmolformat.dir/dmolformat.cpp.o.d -o CMakeFiles/dmolformat.dir/dmolformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/dmolformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/dmolformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 36%] Linking CXX shared module ../../lib64/adfformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/adfformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/adfformat.so CMakeFiles/adfformat.dir/adfformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 37%] Built target adfformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/fchkformat.dir/build.make src/formats/CMakeFiles/fchkformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/fchkformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/fchkformat.dir/build.make src/formats/CMakeFiles/fchkformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 37%] Linking CXX shared module ../../lib64/crystal09format.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/crystal09format.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/crystal09format.so CMakeFiles/crystal09format.dir/crystal09format.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 38%] Built target crystal09format make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/fhiaimsformat.dir/build.make src/formats/CMakeFiles/fhiaimsformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/fhiaimsformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/fhiaimsformat.dir/build.make src/formats/CMakeFiles/fhiaimsformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 37%] Linking CXX shared module ../../lib64/dmolformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/dmolformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/dmolformat.so CMakeFiles/dmolformat.dir/dmolformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 38%] Built target dmolformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gamessformat.dir/build.make src/formats/CMakeFiles/gamessformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 37%] Linking CXX shared module ../../lib64/daltonformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/daltonformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/daltonformat.so CMakeFiles/daltonformat.dir/daltonformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 38%] Built target daltonformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gaussformat.dir/build.make src/formats/CMakeFiles/gaussformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/gamessformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gamessformat.dir/build.make src/formats/CMakeFiles/gamessformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 38%] Building CXX object src/formats/CMakeFiles/fhiaimsformat.dir/fhiaimsformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dfhiaimsformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/fhiaimsformat.dir/fhiaimsformat.cpp.o -MF CMakeFiles/fhiaimsformat.dir/fhiaimsformat.cpp.o.d -o CMakeFiles/fhiaimsformat.dir/fhiaimsformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fhiaimsformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fhiaimsformat.cpp:15: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/gaussformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gaussformat.dir/build.make src/formats/CMakeFiles/gaussformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 38%] Linking CXX shared module ../../lib64/fhiaimsformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/fhiaimsformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/fhiaimsformat.so CMakeFiles/fhiaimsformat.dir/fhiaimsformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 39%] Built target fhiaimsformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gausscubeformat.dir/build.make src/formats/CMakeFiles/gausscubeformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/gausscubeformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gausscubeformat.dir/build.make src/formats/CMakeFiles/gausscubeformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 38%] Building CXX object src/formats/CMakeFiles/fchkformat.dir/fchkformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dfchkformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/fchkformat.dir/fchkformat.cpp.o -MF CMakeFiles/fchkformat.dir/fchkformat.cpp.o.d -o CMakeFiles/fchkformat.dir/fchkformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:24: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/functional:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:16: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp: In member function ‘virtual bool OpenBabel::FCHKFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:596:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 596 | if (alphaorb_found && (numAOrb > alphaorb.size())) | ~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:609:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 609 | if (betaorb_found && (numBOrb > betaorb.size())) | ~~~~~~~~^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:668:43: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = less_equal; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 668 | bind2nd(less_equal(), 0)) || | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_function.h:1435: /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:671:43: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = greater; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 671 | bind2nd(greater(), MxBond)) || | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:674:43: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = less; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 674 | bind2nd(less(), 0)) || | ~~~~~~~^~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:677:43: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = greater; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 677 | bind2nd(greater(), Natoms))) | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:700:40: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 700 | if (numAOrb > 0 && alphaorb.size() == numAOrb) { | ~~~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/fchkformat.cpp:704:41: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 704 | if (numBOrb > 0 && betaorb.size() == numBOrb) { // open shell calculation | ~~~~~~~~~~~~~~~^~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 39%] Linking CXX shared module ../../lib64/fchkformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/fchkformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/fchkformat.so CMakeFiles/fchkformat.dir/fchkformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 39%] Built target fchkformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gausszmatformat.dir/build.make src/formats/CMakeFiles/gausszmatformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/gausszmatformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gausszmatformat.dir/build.make src/formats/CMakeFiles/gausszmatformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 39%] Building CXX object src/formats/CMakeFiles/gausscubeformat.dir/gausscubeformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dgausscubeformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/gausscubeformat.dir/gausscubeformat.cpp.o -MF CMakeFiles/gausscubeformat.dir/gausscubeformat.cpp.o.d -o CMakeFiles/gausscubeformat.dir/gausscubeformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp:29: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/sstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp:25: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:48, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp:30: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/base.h:228:32: warning: ‘virtual const std::string& OpenBabel::OBGenericData::GetValue() const’ was hidden [-Woverloaded-virtual=] 228 | virtual const std::string &GetValue() const | ^~~~~~~~ In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp:36: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/griddata.h:76:12: note: by ‘OpenBabel::OBGridData::GetValue’ 76 | double GetValue (vector3 pos) const; | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp: In member function ‘virtual bool OpenBabel::OBGaussianCubeFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp:432:25: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 432 | while (vgd.size() < nCubes) | ~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp:479:26: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 479 | while (values.size() < n*nCubes) | ~~~~~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausscubeformat.cpp:114:17: warning: unused variable ‘title’ [-Wunused-variable] 114 | const char* title = pConv->GetTitle(); | ^~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 39%] Building CXX object src/formats/CMakeFiles/gausszmatformat.dir/gausszmatformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dgausszmatformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/gausszmatformat.dir/gausszmatformat.cpp.o -MF CMakeFiles/gausszmatformat.dir/gausszmatformat.cpp.o.d -o CMakeFiles/gausszmatformat.dir/gausszmatformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausszmatformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gausszmatformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 39%] Linking CXX shared module ../../lib64/gausscubeformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/gausscubeformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/gausscubeformat.so CMakeFiles/gausscubeformat.dir/gausscubeformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 39%] Built target gausscubeformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gulpformat.dir/build.make src/formats/CMakeFiles/gulpformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/gulpformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gulpformat.dir/build.make src/formats/CMakeFiles/gulpformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 38%] Building CXX object src/formats/CMakeFiles/gamessformat.dir/gamessformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dgamessformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/gamessformat.dir/gamessformat.cpp.o -MF CMakeFiles/gamessformat.dir/gamessformat.cpp.o.d -o CMakeFiles/gamessformat.dir/gamessformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp: In member function ‘virtual bool OpenBabel::GAMESSOutputFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp:587:38: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 587 | for (unsigned int i=0; i < modeCount; ++i) { | ~~^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp:233:9: warning: variable ‘ndummyatoms’ set but not used [-Wunused-but-set-variable] 233 | int ndummyatoms = 0; | ^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp:519:11: warning: ‘lowFreqModesBegin’ may be used uninitialized [-Wmaybe-uninitialized] 519 | if (numFreq < lowFreqModesBegin) // imaginary frequency | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp:244:9: note: ‘lowFreqModesBegin’ was declared here 244 | int lowFreqModesBegin; // the number of the first low frequency mode | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp:521:11: warning: ‘lowFreqModesEnd’ may be used uninitialized [-Wmaybe-uninitialized] 521 | if (numFreq > lowFreqModesEnd) | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessformat.cpp:245:9: note: ‘lowFreqModesEnd’ was declared here 245 | int lowFreqModesEnd; // the number of the last low frequency mode | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 39%] Building CXX object src/formats/CMakeFiles/gaussformat.dir/gaussformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dgaussformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/gaussformat.dir/gaussformat.cpp.o -MF CMakeFiles/gaussformat.dir/gaussformat.cpp.o.d -o CMakeFiles/gaussformat.dir/gaussformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/istream:40, from /usr/include/c++/14/fstream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/data.h:27, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:17: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp: In function ‘void OpenBabel::add_unique_pairdata_to_mol(OBMol*, std::string, std::string, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:285:19: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 285 | if (vs.size() >= start) | ~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:288:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 288 | for(i=start+1; (i)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gaussformat.cpp:339:17: warning: unused variable ‘pg’ [-Wunused-variable] 339 | const char *pg = obPG.IdentifyPointGroup(); | ^~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 39%] Linking CXX shared module ../../lib64/gausszmatformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/gausszmatformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/gausszmatformat.so CMakeFiles/gausszmatformat.dir/gausszmatformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Built target gausszmatformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/hinformat.dir/build.make src/formats/CMakeFiles/hinformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/hinformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/hinformat.dir/build.make src/formats/CMakeFiles/hinformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 40%] Building CXX object src/formats/CMakeFiles/gulpformat.dir/gulpformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dgulpformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/gulpformat.dir/gulpformat.cpp.o -MF CMakeFiles/gulpformat.dir/gulpformat.cpp.o.d -o CMakeFiles/gulpformat.dir/gulpformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gulpformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gulpformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gulpformat.cpp: In member function ‘OpenBabel::GULPFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gulpformat.cpp:359:14: warning: ‘enthalpy_eV’ may be used uninitialized [-Wmaybe-uninitialized] 359 | double en_kcal_per_mole = enthalpy_eV * EV_TO_KCAL_PER_MOL; | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gulpformat.cpp:96:12: note: ‘enthalpy_eV’ was declared here 96 | double enthalpy_eV, pv_eV; | ^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gulpformat.cpp:360:14: warning: ‘pv_eV’ may be used uninitialized [-Wmaybe-uninitialized] 360 | double pv_kcal_per_mole = pv_eV * EV_TO_KCAL_PER_MOL; | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gulpformat.cpp:96:25: note: ‘pv_eV’ was declared here 96 | double enthalpy_eV, pv_eV; | ^~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Building CXX object src/formats/CMakeFiles/hinformat.dir/hinformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dhinformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/hinformat.dir/hinformat.cpp.o -MF CMakeFiles/hinformat.dir/hinformat.cpp.o.d -o CMakeFiles/hinformat.dir/hinformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/hinformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/hinformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Linking CXX shared module ../../lib64/gulpformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/gulpformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/gulpformat.so CMakeFiles/gulpformat.dir/gulpformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Linking CXX shared module ../../lib64/hinformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/hinformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/hinformat.so CMakeFiles/hinformat.dir/hinformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Built target gulpformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/jaguarformat.dir/build.make src/formats/CMakeFiles/jaguarformat.dir/depend make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Built target hinformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/molproformat.dir/build.make src/formats/CMakeFiles/molproformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/jaguarformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/jaguarformat.dir/build.make src/formats/CMakeFiles/jaguarformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/molproformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/molproformat.dir/build.make src/formats/CMakeFiles/molproformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Linking CXX shared module ../../lib64/gamessformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/gamessformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/gamessformat.so CMakeFiles/gamessformat.dir/gamessformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Built target gamessformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/mopacformat.dir/build.make src/formats/CMakeFiles/mopacformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/mopacformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/mopacformat.dir/build.make src/formats/CMakeFiles/mopacformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Linking CXX shared module ../../lib64/gaussformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/gaussformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/gaussformat.so CMakeFiles/gaussformat.dir/gaussformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Built target gaussformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/nwchemformat.dir/build.make src/formats/CMakeFiles/nwchemformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/nwchemformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/nwchemformat.dir/build.make src/formats/CMakeFiles/nwchemformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Building CXX object src/formats/CMakeFiles/jaguarformat.dir/jaguarformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Djaguarformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/jaguarformat.dir/jaguarformat.cpp.o -MF CMakeFiles/jaguarformat.dir/jaguarformat.cpp.o.d -o CMakeFiles/jaguarformat.dir/jaguarformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/jaguarformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/jaguarformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 41%] Building CXX object src/formats/CMakeFiles/molproformat.dir/molproformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dmolproformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/molproformat.dir/molproformat.cpp.o -MF CMakeFiles/molproformat.dir/molproformat.cpp.o.d -o CMakeFiles/molproformat.dir/molproformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/molproformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/molproformat.cpp:20: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Linking CXX shared module ../../lib64/jaguarformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/jaguarformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/jaguarformat.so CMakeFiles/jaguarformat.dir/jaguarformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Built target jaguarformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/pwscfformat.dir/build.make src/formats/CMakeFiles/pwscfformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/pwscfformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/pwscfformat.dir/build.make src/formats/CMakeFiles/pwscfformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Linking CXX shared module ../../lib64/molproformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/molproformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/molproformat.so CMakeFiles/molproformat.dir/molproformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Built target molproformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/qchemformat.dir/build.make src/formats/CMakeFiles/qchemformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/qchemformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/qchemformat.dir/build.make src/formats/CMakeFiles/qchemformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Building CXX object src/formats/CMakeFiles/mopacformat.dir/mopacformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dmopacformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/mopacformat.dir/mopacformat.cpp.o -MF CMakeFiles/mopacformat.dir/mopacformat.cpp.o.d -o CMakeFiles/mopacformat.dir/mopacformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mopacformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mopacformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mopacformat.cpp: In member function ‘virtual bool OpenBabel::MOPACCARTFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mopacformat.cpp:650:19: warning: variable ‘isotopeMass’ set but not used [-Wunused-but-set-variable] 650 | double x,y,z, isotopeMass; | ^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mopacformat.cpp: In member function ‘OpenBabel::MOPACFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mopacformat.cpp:81:12: warning: ‘x’ may be used uninitialized [-Wmaybe-uninitialized] 81 | double x,y,z; | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/mopacformat.cpp:81:14: warning: ‘y’ may be used uninitialized [-Wmaybe-uninitialized] 81 | double x,y,z; | ^ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Building CXX object src/formats/CMakeFiles/pwscfformat.dir/pwscfformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dpwscfformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/pwscfformat.dir/pwscfformat.cpp.o -MF CMakeFiles/pwscfformat.dir/pwscfformat.cpp.o.d -o CMakeFiles/pwscfformat.dir/pwscfformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pwscfformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pwscfformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘OpenBabel::PWscfFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pwscfformat.cpp:282:15: /usr/include/bits/stdio2.h:68:35: warning: ‘enthalpy’ may be used uninitialized [-Wmaybe-uninitialized] 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pwscfformat.cpp: In member function ‘OpenBabel::PWscfFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pwscfformat.cpp:98:12: note: ‘enthalpy’ was declared here 98 | double enthalpy, pv; | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pwscfformat.cpp:281:14: warning: ‘pv’ may be used uninitialized [-Wmaybe-uninitialized] 281 | double pv_eV = pv / EV_TO_KCAL_PER_MOL; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pwscfformat.cpp:98:22: note: ‘pv’ was declared here 98 | double enthalpy, pv; | ^~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 43%] Linking CXX shared module ../../lib64/pwscfformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/pwscfformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/pwscfformat.so CMakeFiles/pwscfformat.dir/pwscfformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 43%] Built target pwscfformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/siestaformat.dir/build.make src/formats/CMakeFiles/siestaformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/siestaformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/siestaformat.dir/build.make src/formats/CMakeFiles/siestaformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Building CXX object src/formats/CMakeFiles/nwchemformat.dir/nwchemformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dnwchemformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/nwchemformat.dir/nwchemformat.cpp.o -MF CMakeFiles/nwchemformat.dir/nwchemformat.cpp.o.d -o CMakeFiles/nwchemformat.dir/nwchemformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp: In member function ‘void OpenBabel::NWChemOutputFormat::ReadCoordinates(std::istream*, OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:228:72: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 228 | if ((i>=natoms) || (molecule->GetAtom(i+1)->GetAtomicNum() != atoi(vs[2].c_str()))) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp: In member function ‘void OpenBabel::NWChemOutputFormat::ReadMultipoleMoment(std::istream*, OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:306:17: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wdangling-else] 306 | else if (vs[0][0] == '1') | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp: In member function ‘void OpenBabel::NWChemOutputFormat::ReadPartialCharges(std::istream*, OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:423:56: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 423 | if (molecule->GetAtom(i++)->GetAtomicNum() != charge) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp: In member function ‘void OpenBabel::NWChemOutputFormat::ReadMEPCalculation(std::istream*, OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:571:25: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 571 | if (energies.size() != molecule->NumConformers()) | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp: In member function ‘void OpenBabel::NWChemOutputFormat::ReadZTSCalculation(std::istream*, OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:932:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 932 | if (atoi(buffer) != natoms) | ~~~~~~~~~~~~~^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp: At global scope: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:111:20: warning: ‘OpenBabel::BETA_ORBITAL_PATTERN’ defined but not used [-Wunused-variable] 111 | static const char* BETA_ORBITAL_PATTERN = "Beta"; | ^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp: In member function ‘OpenBabel::NWChemOutputFormat::ReadZTSCalculation(std::basic_istream >*, OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:957:21: warning: ‘nbeads’ may be used uninitialized [-Wmaybe-uninitialized] 957 | if (bead_number != nbeads) | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:900:18: note: ‘nbeads’ was declared here 900 | unsigned int nbeads; | ^~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp: In member function ‘OpenBabel::NWChemOutputFormat::ReadSinglePointCalculation(std::basic_istream >*, OpenBabel::OBMol*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:772:5: warning: ‘energy’ may be used uninitialized [-Wmaybe-uninitialized] 772 | if (energy == 0) | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/nwchemformat.cpp:750:12: note: ‘energy’ was declared here 750 | double energy; | ^~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Building CXX object src/formats/CMakeFiles/qchemformat.dir/qchemformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dqchemformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/qchemformat.dir/qchemformat.cpp.o -MF CMakeFiles/qchemformat.dir/qchemformat.cpp.o.d -o CMakeFiles/qchemformat.dir/qchemformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/qchemformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/qchemformat.cpp:18: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/qchemformat.cpp:16: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/qchemformat.cpp: In member function ‘virtual bool OpenBabel::QChemOutputFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/qchemformat.cpp:194:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 194 | if (nbAtomRead != mol.NumAtoms()) | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 42%] Linking CXX shared module ../../lib64/mopacformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/mopacformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/mopacformat.so CMakeFiles/mopacformat.dir/mopacformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Built target mopacformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/turbomoleformat.dir/build.make src/formats/CMakeFiles/turbomoleformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/turbomoleformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/turbomoleformat.dir/build.make src/formats/CMakeFiles/turbomoleformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Linking CXX shared module ../../lib64/qchemformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/qchemformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/qchemformat.so CMakeFiles/qchemformat.dir/qchemformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Built target qchemformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/vaspformat.dir/build.make src/formats/CMakeFiles/vaspformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/vaspformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/vaspformat.dir/build.make src/formats/CMakeFiles/vaspformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Building CXX object src/formats/CMakeFiles/turbomoleformat.dir/turbomoleformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dturbomoleformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/turbomoleformat.dir/turbomoleformat.cpp.o -MF CMakeFiles/turbomoleformat.dir/turbomoleformat.cpp.o.d -o CMakeFiles/turbomoleformat.dir/turbomoleformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/turbomoleformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/turbomoleformat.cpp:18: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Linking CXX shared module ../../lib64/nwchemformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/nwchemformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/nwchemformat.so CMakeFiles/nwchemformat.dir/nwchemformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Built target nwchemformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/xsfformat.dir/build.make src/formats/CMakeFiles/xsfformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/xsfformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/xsfformat.dir/build.make src/formats/CMakeFiles/xsfformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Building CXX object src/formats/CMakeFiles/siestaformat.dir/siestaformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dsiestaformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/siestaformat.dir/siestaformat.cpp.o -MF CMakeFiles/siestaformat.dir/siestaformat.cpp.o.d -o CMakeFiles/siestaformat.dir/siestaformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/siestaformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/siestaformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/siestaformat.cpp: In member function ‘virtual bool OpenBabel::SIESTAFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/siestaformat.cpp:92:10: warning: variable ‘coordsAreAngstrom’ set but not used [-Wunused-but-set-variable] 92 | bool coordsAreAngstrom = false; | ^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/siestaformat.cpp:98:12: warning: variable ‘size’ set but not used [-Wunused-but-set-variable] 98 | size_t size; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/siestaformat.cpp:102:30: warning: unused variable ‘numSpecies’ [-Wunused-variable] 102 | int atomicNum, numAtoms, numSpecies; | ^~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Linking CXX shared module ../../lib64/turbomoleformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/turbomoleformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/turbomoleformat.so CMakeFiles/turbomoleformat.dir/turbomoleformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Built target turbomoleformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/zindoformat.dir/build.make src/formats/CMakeFiles/zindoformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/zindoformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/zindoformat.dir/build.make src/formats/CMakeFiles/zindoformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Building CXX object src/formats/CMakeFiles/zindoformat.dir/zindoformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dzindoformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/zindoformat.dir/zindoformat.cpp.o -MF CMakeFiles/zindoformat.dir/zindoformat.cpp.o.d -o CMakeFiles/zindoformat.dir/zindoformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/zindoformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/zindoformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Building CXX object src/formats/CMakeFiles/xsfformat.dir/xsfformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dxsfformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/xsfformat.dir/xsfformat.cpp.o -MF CMakeFiles/xsfformat.dir/xsfformat.cpp.o.d -o CMakeFiles/xsfformat.dir/xsfformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/xsfformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/xsfformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Linking CXX shared module ../../lib64/siestaformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/siestaformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/siestaformat.so CMakeFiles/siestaformat.dir/siestaformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Built target siestaformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gamessukformat.dir/build.make src/formats/CMakeFiles/gamessukformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/gamessukformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/gamessukformat.dir/build.make src/formats/CMakeFiles/gamessukformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Linking CXX shared module ../../lib64/zindoformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/zindoformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/zindoformat.so CMakeFiles/zindoformat.dir/zindoformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Built target zindoformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/orcaformat.dir/build.make src/formats/CMakeFiles/orcaformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/orcaformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/orcaformat.dir/build.make src/formats/CMakeFiles/orcaformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Linking CXX shared module ../../lib64/xsfformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/xsfformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/xsfformat.so CMakeFiles/xsfformat.dir/xsfformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Built target xsfformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/APIInterface.dir/build.make src/formats/CMakeFiles/APIInterface.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/APIInterface.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/APIInterface.dir/build.make src/formats/CMakeFiles/APIInterface.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Building CXX object src/formats/CMakeFiles/APIInterface.dir/APIInterface.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DAPIInterface_EXPORTS -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/APIInterface.dir/APIInterface.cpp.o -MF CMakeFiles/APIInterface.dir/APIInterface.cpp.o.d -o CMakeFiles/APIInterface.dir/APIInterface.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/APIInterface.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/APIInterface.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Linking CXX shared module ../../lib64/APIInterface.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/APIInterface.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/APIInterface.so CMakeFiles/APIInterface.dir/APIInterface.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Built target APIInterface make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/CSRformat.dir/build.make src/formats/CMakeFiles/CSRformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/CSRformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/CSRformat.dir/build.make src/formats/CMakeFiles/CSRformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Building CXX object src/formats/CMakeFiles/CSRformat.dir/CSRformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DCSRformat_EXPORTS -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/CSRformat.dir/CSRformat.cpp.o -MF CMakeFiles/CSRformat.dir/CSRformat.cpp.o.d -o CMakeFiles/CSRformat.dir/CSRformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/CSRformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/CSRformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/CSRformat.cpp: In member function ‘OpenBabel::CSRFormat::PadString(char*, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/CSRformat.cpp:192:12: warning: ‘__strncpy_chk’ output truncated before terminating nul copying as many bytes from a string as its length [-Wstringop-truncation] 192 | strncpy(output, input, strlen(input)); | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/CSRformat.cpp:192:12: note: length computed here 192 | strncpy(output, input, strlen(input)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Linking CXX shared module ../../lib64/CSRformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/CSRformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/CSRformat.so CMakeFiles/CSRformat.dir/CSRformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Built target CSRformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/PQSformat.dir/build.make src/formats/CMakeFiles/PQSformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/PQSformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/PQSformat.dir/build.make src/formats/CMakeFiles/PQSformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 44%] Building CXX object src/formats/CMakeFiles/vaspformat.dir/vaspformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dvaspformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/vaspformat.dir/vaspformat.cpp.o -MF CMakeFiles/vaspformat.dir/vaspformat.cpp.o.d -o CMakeFiles/vaspformat.dir/vaspformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp: In member function ‘virtual bool OpenBabel::VASPFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:451:17: warning: unused variable ‘freqnum’ [-Wunused-variable] 451 | int freqnum = atoi(vs[0].c_str()); | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:535:35: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = not_equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 535 | std::bind2nd(std::not_equal_to(), 0.0)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/stl_function.h:1435: /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:589:36: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = divides; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 589 | std::bind2nd(std::divides(), max / 100.0)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/14/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp: In member function ‘virtual bool OpenBabel::VASPFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:668:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 668 | for(int i = 0; i < atoms_sorted.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp: In member function ‘OpenBabel::VASPFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:410:21: warning: ‘fermi’ may be used uninitialized [-Wmaybe-uninitialized] 410 | dos->SetData(fermi, energies, densities, integration); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:392:14: note: ‘fermi’ was declared here 392 | double fermi; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:556:14: warning: ‘enthalpy_eV’ may be used uninitialized [-Wmaybe-uninitialized] 556 | double en_kcal_per_mole = enthalpy_eV * EV_TO_KCAL_PER_MOL; | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:171:12: note: ‘enthalpy_eV’ was declared here 171 | double enthalpy_eV, pv_eV; | ^~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:557:14: warning: ‘pv_eV’ may be used uninitialized [-Wmaybe-uninitialized] 557 | double pv_kcal_per_mole = pv_eV * EV_TO_KCAL_PER_MOL; | ^~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/vaspformat.cpp:171:25: note: ‘pv_eV’ was declared here 171 | double enthalpy_eV, pv_eV; | ^~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Building CXX object src/formats/CMakeFiles/PQSformat.dir/PQSformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DPQSformat_EXPORTS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/PQSformat.dir/PQSformat.cpp.o -MF CMakeFiles/PQSformat.dir/PQSformat.cpp.o.d -o CMakeFiles/PQSformat.dir/PQSformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/PQSformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/PQSformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/PQSformat.cpp: In member function ‘OpenBabel::PQSFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/PQSformat.cpp:263:49: warning: ‘pFormat’ may be used uninitialized [-Wmaybe-uninitialized] 263 | return pFormat->ReadMolecule(&mol,&coordconv); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/PQSformat.cpp:254:31: note: ‘pFormat’ was declared here 254 | OBFormat* pFormat; | ^~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Building CXX object src/formats/CMakeFiles/gamessukformat.dir/gamessukformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dgamessukformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/gamessukformat.dir/gamessukformat.cpp.o -MF CMakeFiles/gamessukformat.dir/gamessukformat.cpp.o.d -o CMakeFiles/gamessukformat.dir/gamessukformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp:14: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp: In member function ‘bool OpenBabel::GAMESSUKOutputFormat::ReadInitialCartesian(OpenBabel::OBMol&, std::istream&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp:787:10: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable] 787 | bool ok=false; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp: In member function ‘bool OpenBabel::GAMESSUKOutputFormat::ReadOptGeomXyz1(OpenBabel::OBMol&, std::istream&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp:853:12: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable] 853 | bool ok=false; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp: In member function ‘bool OpenBabel::GAMESSUKOutputFormat::ReadOptGeomXyz2(OpenBabel::OBMol&, std::istream&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp:900:12: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable] 900 | bool ok=false; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp: In member function ‘virtual bool OpenBabel::GAMESSUKOutputFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/gamessukformat.cpp:1215:12: warning: variable ‘ok’ set but not used [-Wunused-but-set-variable] 1215 | bool ok; | ^~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 46%] Linking CXX shared module ../../lib64/PQSformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/PQSformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/PQSformat.so CMakeFiles/PQSformat.dir/PQSformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Building CXX object src/formats/CMakeFiles/orcaformat.dir/orcaformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dorcaformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/orcaformat.dir/orcaformat.cpp.o -MF CMakeFiles/orcaformat.dir/orcaformat.cpp.o.d -o CMakeFiles/orcaformat.dir/orcaformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:18: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp: In member function ‘virtual bool OpenBabel::OrcaOutputFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:348:33: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 348 | while(vs.size() == nColumn+1) { | ~~~~~~~~~~^~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:363:48: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 363 | for (unsigned int i = 0; i < nColumn; i++) { | ~~^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:375:44: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 375 | for (unsigned int i = 0; i < nColumn; i++) { | ~~^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:131:12: warning: unused variable ‘energy’ [-Wunused-variable] 131 | double energy=0; | ^~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:138:9: warning: variable ‘nModeAll’ set but not used [-Wunused-but-set-variable] 138 | int nModeAll = 0; | ^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:220:36: warning: ‘atom’ may be used uninitialized [-Wmaybe-uninitialized] 220 | atom->SetVector(x,y,z); //set atom coordinates | ~~~~~~~~~~~~~~~^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:162:13: note: ‘atom’ was declared here 162 | OBAtom *atom; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:217:37: warning: ‘confCoords’ may be used uninitialized [-Wmaybe-uninitialized] 217 | confCoords[i*3+2] = z; | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/orcaformat.cpp:149:13: note: ‘confCoords’ was declared here 149 | double* confCoords; | ^~~~~~~~~~ make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 46%] Built target PQSformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/MCDLformat.dir/build.make src/formats/CMakeFiles/MCDLformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/MCDLformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/MCDLformat.dir/build.make src/formats/CMakeFiles/MCDLformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 45%] Linking CXX shared module ../../lib64/vaspformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/vaspformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/vaspformat.so CMakeFiles/vaspformat.dir/vaspformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 47%] Built target vaspformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/alchemyformat.dir/build.make src/formats/CMakeFiles/alchemyformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/alchemyformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/alchemyformat.dir/build.make src/formats/CMakeFiles/alchemyformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 46%] Linking CXX shared module ../../lib64/gamessukformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/gamessukformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/gamessukformat.so CMakeFiles/gamessukformat.dir/gamessukformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 47%] Built target gamessukformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/acrformat.dir/build.make src/formats/CMakeFiles/acrformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/acrformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/acrformat.dir/build.make src/formats/CMakeFiles/acrformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 46%] Linking CXX shared module ../../lib64/orcaformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/orcaformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/orcaformat.so CMakeFiles/orcaformat.dir/orcaformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 48%] Built target orcaformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/amberformat.dir/build.make src/formats/CMakeFiles/amberformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/amberformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/amberformat.dir/build.make src/formats/CMakeFiles/amberformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 47%] Building CXX object src/formats/CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dalchemyformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o -MF CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o.d -o CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/alchemyformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/alchemyformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 49%] Linking CXX shared module ../../lib64/alchemyformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/alchemyformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/alchemyformat.so CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 49%] Built target alchemyformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/balstformat.dir/build.make src/formats/CMakeFiles/balstformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 48%] Building CXX object src/formats/CMakeFiles/acrformat.dir/acrformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dacrformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/acrformat.dir/acrformat.cpp.o -MF CMakeFiles/acrformat.dir/acrformat.cpp.o.d -o CMakeFiles/acrformat.dir/acrformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp:26: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp:23: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp: In member function ‘OpenBabel::ACRFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp:166:12: warning: ‘atoms’ may be used uninitialized [-Wmaybe-uninitialized] 166 | } else if ( pmol->NumAtoms() != atoms ) { | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp:95:18: note: ‘atoms’ was declared here 95 | unsigned int atoms, bonds, tmp; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp:162:5: warning: ‘bonds’ may be used uninitialized [-Wmaybe-uninitialized] 162 | if ( pmol->NumBonds() != bonds ) { | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/acrformat.cpp:95:25: note: ‘bonds’ was declared here 95 | unsigned int atoms, bonds, tmp; | ^~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/balstformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/balstformat.dir/build.make src/formats/CMakeFiles/balstformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 48%] Building CXX object src/formats/CMakeFiles/amberformat.dir/amberformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Damberformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/amberformat.dir/amberformat.cpp.o -MF CMakeFiles/amberformat.dir/amberformat.cpp.o.d -o CMakeFiles/amberformat.dir/amberformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/amberformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/amberformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 49%] Linking CXX shared module ../../lib64/acrformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/acrformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/acrformat.so CMakeFiles/acrformat.dir/acrformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 49%] Built target acrformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/bgfformat.dir/build.make src/formats/CMakeFiles/bgfformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/bgfformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/bgfformat.dir/build.make src/formats/CMakeFiles/bgfformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 49%] Linking CXX shared module ../../lib64/amberformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/amberformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/amberformat.so CMakeFiles/amberformat.dir/amberformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Built target amberformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/boxformat.dir/build.make src/formats/CMakeFiles/boxformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/boxformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/boxformat.dir/build.make src/formats/CMakeFiles/boxformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 49%] Building CXX object src/formats/CMakeFiles/balstformat.dir/balstformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dbalstformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/balstformat.dir/balstformat.cpp.o -MF CMakeFiles/balstformat.dir/balstformat.cpp.o.d -o CMakeFiles/balstformat.dir/balstformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/balstformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/balstformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Linking CXX shared module ../../lib64/balstformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/balstformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/balstformat.so CMakeFiles/balstformat.dir/balstformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Built target balstformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cacaoformat.dir/build.make src/formats/CMakeFiles/cacaoformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/cacaoformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cacaoformat.dir/build.make src/formats/CMakeFiles/cacaoformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Building CXX object src/formats/CMakeFiles/boxformat.dir/boxformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dboxformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/boxformat.dir/boxformat.cpp.o -MF CMakeFiles/boxformat.dir/boxformat.cpp.o.d -o CMakeFiles/boxformat.dir/boxformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/boxformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/boxformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Building CXX object src/formats/CMakeFiles/bgfformat.dir/bgfformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dbgfformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/bgfformat.dir/bgfformat.cpp.o -MF CMakeFiles/bgfformat.dir/bgfformat.cpp.o.d -o CMakeFiles/bgfformat.dir/bgfformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/bgfformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/bgfformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Linking CXX shared module ../../lib64/boxformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/boxformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/boxformat.so CMakeFiles/boxformat.dir/boxformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Built target boxformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cacheformat.dir/build.make src/formats/CMakeFiles/cacheformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 47%] Building CXX object src/formats/CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DMCDLformat_EXPORTS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o -MF CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o.d -o CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:21: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp: In member function ‘void OpenBabel::MCDLFormat::solve(int, int (*)[4], int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:283:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 283 | if (jflag) | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:287:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 287 | nt = 1; | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp: In member function ‘void OpenBabel::MCDLFormat::setMCDL(std::string, OpenBabel::OBMol*, std::string&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:1267:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 1267 | if (nPrev == acount) { | ~~~~~~^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp: In member function ‘int OpenBabel::MCDLFormat::indexOf(std::string, std::string, int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:1385:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const std::__cxx11::basic_string::size_type’ {aka ‘const long unsigned int’} [-Wsign-compare] 1385 | if (result == string::npos) result=-1; | ~~~~~~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:1386:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1386 | if (result >= instring.length()) result=-1; | ~~~~~~~^~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp: In member function ‘int OpenBabel::MCDLFormat::lastIndexOf(std::string, std::string)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:1399:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const std::__cxx11::basic_string::size_type’ {aka ‘const long unsigned int’} [-Wsign-compare] 1399 | if (n == string::npos) | ~~^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp: In member function ‘OpenBabel::MCDLFormat::solve(int, int (*) [4], int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:390:24: warning: ‘numdups’ may be used uninitialized [-Wmaybe-uninitialized] 390 | for (j=0; j dupfrag) | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/MCDLformat.cpp:242:19: note: ‘dupfrag’ was declared here 242 | int numdups, dupfrag, jump; | ^~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/cacheformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cacheformat.dir/build.make src/formats/CMakeFiles/cacheformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Linking CXX shared module ../../lib64/bgfformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/bgfformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/bgfformat.so CMakeFiles/bgfformat.dir/bgfformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target bgfformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/carformat.dir/build.make src/formats/CMakeFiles/carformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/carformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/carformat.dir/build.make src/formats/CMakeFiles/carformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Building CXX object src/formats/CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dcacaoformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o -MF CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o.d -o CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cacaoformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cacaoformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Building CXX object src/formats/CMakeFiles/cacheformat.dir/cacheformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dcacheformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/cacheformat.dir/cacheformat.cpp.o -MF CMakeFiles/cacheformat.dir/cacheformat.cpp.o.d -o CMakeFiles/cacheformat.dir/cacheformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cacheformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cacheformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Linking CXX shared module ../../lib64/cacaoformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/cacaoformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/cacaoformat.so CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target cacaoformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cccformat.dir/build.make src/formats/CMakeFiles/cccformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/cccformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cccformat.dir/build.make src/formats/CMakeFiles/cccformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Linking CXX shared module ../../lib64/cacheformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/cacheformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/cacheformat.so CMakeFiles/cacheformat.dir/cacheformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target cacheformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Building CXX object src/formats/CMakeFiles/carformat.dir/carformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dcarformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/carformat.dir/carformat.cpp.o -MF CMakeFiles/carformat.dir/carformat.cpp.o.d -o CMakeFiles/carformat.dir/carformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/carformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/carformat.cpp:18: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Linking CXX shared module ../../lib64/carformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/carformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/carformat.so CMakeFiles/carformat.dir/carformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target carformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/chem3dformat.dir/build.make src/formats/CMakeFiles/chem3dformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Building CXX object src/formats/CMakeFiles/cccformat.dir/cccformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dcccformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/cccformat.dir/cccformat.cpp.o -MF CMakeFiles/cccformat.dir/cccformat.cpp.o.d -o CMakeFiles/cccformat.dir/cccformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cccformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cccformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/chem3dformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/chem3dformat.dir/build.make src/formats/CMakeFiles/chem3dformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Linking CXX shared module ../../lib64/cccformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/cccformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/cccformat.so CMakeFiles/cccformat.dir/cccformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target cccformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/chemdrawct.dir/build.make src/formats/CMakeFiles/chemdrawct.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/chemdrawct.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/chemdrawct.dir/build.make src/formats/CMakeFiles/chemdrawct.dir/build /usr/bin/make -f src/formats/CMakeFiles/chemtoolformat.dir/build.make src/formats/CMakeFiles/chemtoolformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/chemtoolformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/chemtoolformat.dir/build.make src/formats/CMakeFiles/chemtoolformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Building CXX object src/formats/CMakeFiles/chem3dformat.dir/chem3dformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dchem3dformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/chem3dformat.dir/chem3dformat.cpp.o -MF CMakeFiles/chem3dformat.dir/chem3dformat.cpp.o.d -o CMakeFiles/chem3dformat.dir/chem3dformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/chem3dformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/chem3dformat.cpp:18: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/math/matrix3x3.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/chem3dformat.cpp:17: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 50%] Linking CXX shared module ../../lib64/MCDLformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/MCDLformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/MCDLformat.so CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target MCDLformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cifformat.dir/build.make src/formats/CMakeFiles/cifformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/cifformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cifformat.dir/build.make src/formats/CMakeFiles/cifformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Building CXX object src/formats/CMakeFiles/chemdrawct.dir/chemdrawct.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dchemdrawct_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/chemdrawct.dir/chemdrawct.cpp.o -MF CMakeFiles/chemdrawct.dir/chemdrawct.cpp.o.d -o CMakeFiles/chemdrawct.dir/chemdrawct.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/chemdrawct.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/chemdrawct.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Linking CXX shared module ../../lib64/chem3dformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/chem3dformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/chem3dformat.so CMakeFiles/chem3dformat.dir/chem3dformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target chem3dformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cofformat.dir/build.make src/formats/CMakeFiles/cofformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/cofformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cofformat.dir/build.make src/formats/CMakeFiles/cofformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Linking CXX shared module ../../lib64/chemdrawct.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemdrawct.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/chemdrawct.so CMakeFiles/chemdrawct.dir/chemdrawct.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target chemdrawct make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/crkformat.dir/build.make src/formats/CMakeFiles/crkformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/crkformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/crkformat.dir/build.make src/formats/CMakeFiles/crkformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Building CXX object src/formats/CMakeFiles/chemtoolformat.dir/chemtoolformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dchemtoolformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/chemtoolformat.dir/chemtoolformat.cpp.o -MF CMakeFiles/chemtoolformat.dir/chemtoolformat.cpp.o.d -o CMakeFiles/chemtoolformat.dir/chemtoolformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/chemtoolformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/chemtoolformat.cpp:19: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Linking CXX shared module ../../lib64/chemtoolformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemtoolformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/chemtoolformat.so CMakeFiles/chemtoolformat.dir/chemtoolformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target chemtoolformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cssrformat.dir/build.make src/formats/CMakeFiles/cssrformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/cssrformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/cssrformat.dir/build.make src/formats/CMakeFiles/cssrformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Building CXX object src/formats/CMakeFiles/crkformat.dir/crkformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dcrkformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/crkformat.dir/crkformat.cpp.o -MF CMakeFiles/crkformat.dir/crkformat.cpp.o.d -o CMakeFiles/crkformat.dir/crkformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/crkformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/crkformat.cpp:16: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Linking CXX shared module ../../lib64/crkformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/crkformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/crkformat.so CMakeFiles/crkformat.dir/crkformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Built target crkformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/dlpolyformat.dir/build.make src/formats/CMakeFiles/dlpolyformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/dlpolyformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/dlpolyformat.dir/build.make src/formats/CMakeFiles/dlpolyformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Building CXX object src/formats/CMakeFiles/cssrformat.dir/cssrformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dcssrformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/cssrformat.dir/cssrformat.cpp.o -MF CMakeFiles/cssrformat.dir/cssrformat.cpp.o.d -o CMakeFiles/cssrformat.dir/cssrformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cssrformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cssrformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 51%] Building CXX object src/formats/CMakeFiles/cofformat.dir/cofformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dcofformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/cofformat.dir/cofformat.cpp.o -MF CMakeFiles/cofformat.dir/cofformat.cpp.o.d -o CMakeFiles/cofformat.dir/cofformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cofformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cofformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cofformat.cpp: In member function ‘virtual bool OpenBabel::COFFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cofformat.cpp:133:22: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 133 | if(vs.size() < offset+9) | ~~~~~~~~~~^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cofformat.cpp:180:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 180 | for(int j=0 ; j< natoms ; j++) | ~^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cofformat.cpp: In member function ‘virtual bool OpenBabel::COFFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/cofformat.cpp:368:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 368 | for( int j=0; j struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp: In function ‘bool OpenBabel::OutputTree(OBConversion*, OBMol&, std::ostream&, std::map&, unsigned int, bool, bool)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp:581:20: warning: unused variable ‘child’ [-Wunused-variable] 581 | unsigned int child=i; | ^~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp: In function ‘bool OpenBabel::Separate_preserve_charges(OBMol&, std::vector&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp:797:9: warning: unused variable ‘fragments’ [-Wunused-variable] 797 | int fragments = 0; | ^~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp: At global scope: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp:750:16: warning: ‘unsigned int OpenBabel::AtomsSoFar(const std::map&, unsigned int)’ defined but not used [-Wunused-function] 750 | unsigned int AtomsSoFar(const map & tree, unsigned int depth) | ^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp: In function ‘OpenBabel::OutputAtom(OpenBabel::OBAtom*, std::basic_ostream >&, unsigned int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp:345:52: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 345 | snprintf(type_name, sizeof(type_name), " %-3s", tmp); | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘OpenBabel::OutputAtom(OpenBabel::OBAtom*, std::basic_ostream >&, unsigned int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp:345:15: /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 5 and 11 bytes into a destination of size 10 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp: In function ‘OpenBabel::OutputAtom(OpenBabel::OBAtom*, std::basic_ostream >&, unsigned int)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp:363:60: warning: ‘__snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=] 363 | snprintf(padded_name, sizeof(padded_name), " %-3s", tmp); | ^ In function ‘snprintf’, inlined from ‘OpenBabel::OutputAtom(OpenBabel::OBAtom*, std::basic_ostream >&, unsigned int)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp:363:19: /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 5 and 11 bytes into a destination of size 10 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp: In member function ‘OpenBabel::PDBQTFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/pdbqtformat.cpp:923:22: warning: ‘strncpy’ specified bound 10 equals destination size [-Wstringop-truncation] 923 | strncpy(type_name, OBElements::GetSymbol(rotBondTable[rotBondId][bondAtomNum]->GetAtomicNum()), sizeof(type_name)); | ^ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Building CXX object src/formats/CMakeFiles/shelxformat.dir/shelxformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dshelxformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/shelxformat.dir/shelxformat.cpp.o -MF CMakeFiles/shelxformat.dir/shelxformat.cpp.o.d -o CMakeFiles/shelxformat.dir/shelxformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/shelxformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/shelxformat.cpp:18: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/math/matrix3x3.h:24, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/shelxformat.cpp:17: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Linking CXX shared module ../../lib64/shelxformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/shelxformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/shelxformat.so CMakeFiles/shelxformat.dir/shelxformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Built target shelxformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/stlformat.dir/build.make src/formats/CMakeFiles/stlformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Linking CXX shared module ../../lib64/pqrformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/pqrformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/pqrformat.so CMakeFiles/pqrformat.dir/pqrformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Built target pqrformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/thermoformat.dir/build.make src/formats/CMakeFiles/thermoformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/stlformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/stlformat.dir/build.make src/formats/CMakeFiles/stlformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/thermoformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/thermoformat.dir/build.make src/formats/CMakeFiles/thermoformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Building CXX object src/formats/CMakeFiles/stlformat.dir/stlformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dstlformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/stlformat.dir/stlformat.cpp.o -MF CMakeFiles/stlformat.dir/stlformat.cpp.o.d -o CMakeFiles/stlformat.dir/stlformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/stlformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/stlformat.cpp:32: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/mol.h:44, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/stlformat.cpp:28: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/stlformat.cpp: In function ‘void OpenBabel::map_sphere(std::vector&, vector3, double, uint16_t)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/stlformat.cpp:157:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 157 | for( int i=0 ; i < points.size()-2; i++ ) { | ~~^~~~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Linking CXX shared module ../../lib64/pdbqtformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/pdbqtformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/pdbqtformat.so CMakeFiles/pdbqtformat.dir/pdbqtformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Built target pdbqtformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/tinkerformat.dir/build.make src/formats/CMakeFiles/tinkerformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/tinkerformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/tinkerformat.dir/build.make src/formats/CMakeFiles/tinkerformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Linking CXX shared module ../../lib64/stlformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/stlformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/stlformat.so CMakeFiles/stlformat.dir/stlformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Built target stlformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/unichemformat.dir/build.make src/formats/CMakeFiles/unichemformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Building CXX object src/formats/CMakeFiles/smileyformat.dir/smileyformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dsmileyformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/smileyformat.dir/smileyformat.cpp.o -MF CMakeFiles/smileyformat.dir/smileyformat.cpp.o.d -o CMakeFiles/smileyformat.dir/smileyformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:15: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp: In member function ‘void OpenBabel::OpenBabelCallback::setChiral(int, Smiley::Chirality, const std::vector&)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘NotChiral’ not handled in switch [-Wswitch] 158 | switch (chirality) { | ^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TH1’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TH2’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘AL1’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘AL2’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘SP1’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘SP2’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘SP3’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB1’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB2’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB3’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB4’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB5’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB6’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB7’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB8’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB9’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB10’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB11’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB12’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB13’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB14’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB15’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB16’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB17’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB18’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB19’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘TB20’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH1’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH2’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH3’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH4’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH5’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH6’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH7’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH8’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH9’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH10’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH11’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH12’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH13’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH14’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH15’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH16’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH17’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH18’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH19’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH20’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH21’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH22’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH23’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH24’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH25’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH26’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH27’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH28’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH29’ not handled in switch [-Wswitch] /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: enumeration value ‘OH30’ not handled in switch [-Wswitch] In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:26: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h: In instantiation of ‘void Smiley::Parser::processStereochemistry() [with Callback = OpenBabel::OpenBabelCallback]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2707:9: required from ‘void Smiley::Parser::parse(const std::string&) [with Callback = OpenBabel::OpenBabelCallback; std::string = std::__cxx11::basic_string]’ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: 2707 | processStereochemistry(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: | ^~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:370:19: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: 370 | parser.parse(smiles); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:158:14: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2642 | if (m_chiralInfo[i].nbrs.size() != expectedValence && m_exceptions & InvalidChiralValence) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h: In instantiation of ‘Smiley::Parser::RingBondInfo::RingBondInfo(int, int, bool, bool, bool, std::size_t) [with Callback = OpenBabel::OpenBabelCallback; std::size_t = long unsigned int]’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2409:41: required from ‘void Smiley::Parser::processRingBond(int, std::size_t) [with Callback = OpenBabel::OpenBabelCallback; std::size_t = long unsigned int]’ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: 2409 | m_ringBonds[m_prev].push_back(RingBondInfo(rnum, m_bondOrder, m_isUp, m_isDown, m_explicitBond, pos)); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2429:11: required from ‘void Smiley::Parser::parseRingBond() [with Callback = OpenBabel::OpenBabelCallback]’ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: 2429 | processRingBond(m_str[m_pos] - '0', m_pos); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2507:13: required from ‘void Smiley::Parser::parseChain() [with Callback = OpenBabel::OpenBabelCallback]’ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: 2507 | parseRingBond(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: | ^~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2698:9: required from ‘void Smiley::Parser::parse(const std::string&) [with Callback = OpenBabel::OpenBabelCallback; std::string = std::__cxx11::basic_string]’ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: 2698 | parseChain(); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: | ^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smileyformat.cpp:370:19: required from here /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: 370 | parser.parse(smiles); /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:2642:43: warning: | ~~~~~~~~~~~~^~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:986:14: warning: ‘Smiley::Parser::RingBondInfo::isExplicit’ will be initialized after [-Wreorder] 986 | bool isExplicit; | ^~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:981:21: warning: ‘std::size_t Smiley::Parser::RingBondInfo::pos’ [-Wreorder] 981 | std::size_t pos; | ^~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/smiley.h:974:9: warning: when initialized here [-Wreorder] 974 | RingBondInfo(int number_, int order_, bool isUp_, bool isDown_, | ^~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Building CXX object src/formats/CMakeFiles/thermoformat.dir/thermoformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dthermoformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/thermoformat.dir/thermoformat.cpp.o -MF CMakeFiles/thermoformat.dir/thermoformat.cpp.o.d -o CMakeFiles/thermoformat.dir/thermoformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/thermoformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/unichemformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/unichemformat.dir/build.make src/formats/CMakeFiles/unichemformat.dir/build In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/thermoformat.cpp:23: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/thermoformat.cpp:21: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 63%] Linking CXX shared module ../../lib64/thermoformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/thermoformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/thermoformat.so CMakeFiles/thermoformat.dir/thermoformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 63%] Built target thermoformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/viewmolformat.dir/build.make src/formats/CMakeFiles/viewmolformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/viewmolformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/viewmolformat.dir/build.make src/formats/CMakeFiles/viewmolformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 63%] Building CXX object src/formats/CMakeFiles/unichemformat.dir/unichemformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dunichemformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/unichemformat.dir/unichemformat.cpp.o -MF CMakeFiles/unichemformat.dir/unichemformat.cpp.o.d -o CMakeFiles/unichemformat.dir/unichemformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/unichemformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/unichemformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 62%] Building CXX object src/formats/CMakeFiles/tinkerformat.dir/tinkerformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dtinkerformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/tinkerformat.dir/tinkerformat.cpp.o -MF CMakeFiles/tinkerformat.dir/tinkerformat.cpp.o.d -o CMakeFiles/tinkerformat.dir/tinkerformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/tinkerformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/tinkerformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/tinkerformat.cpp: In function ‘int OpenBabel::SetMM3Type(OBAtom*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/tinkerformat.cpp:415:11: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 415 | if (b->GetHyb() == 2) // S=C | ^~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/tinkerformat.cpp:416:31: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 416 | countNeighborC++; break; | ^~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 64%] Linking CXX shared module ../../lib64/unichemformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/unichemformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/unichemformat.so CMakeFiles/unichemformat.dir/unichemformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 64%] Built target unichemformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/wlnformat.dir/build.make src/formats/CMakeFiles/wlnformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/wlnformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/wlnformat.dir/build.make src/formats/CMakeFiles/wlnformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 64%] Linking CXX shared module ../../lib64/tinkerformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/tinkerformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/tinkerformat.so CMakeFiles/tinkerformat.dir/tinkerformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 65%] Built target tinkerformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 63%] Building CXX object src/formats/CMakeFiles/viewmolformat.dir/viewmolformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dviewmolformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/viewmolformat.dir/viewmolformat.cpp.o -MF CMakeFiles/viewmolformat.dir/viewmolformat.cpp.o.d -o CMakeFiles/viewmolformat.dir/viewmolformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/viewmolformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/viewmolformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 63%] Linking CXX shared module ../../lib64/smileyformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/smileyformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/smileyformat.so CMakeFiles/smileyformat.dir/smileyformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 65%] Built target smileyformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/xedformat.dir/build.make src/formats/CMakeFiles/xedformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/xedformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/xedformat.dir/build.make src/formats/CMakeFiles/xedformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 65%] Linking CXX shared module ../../lib64/viewmolformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/viewmolformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/viewmolformat.so CMakeFiles/viewmolformat.dir/viewmolformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 65%] Built target viewmolformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/xyzformat.dir/build.make src/formats/CMakeFiles/xyzformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 65%] Building CXX object src/formats/CMakeFiles/wlnformat.dir/wlnformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dwlnformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/wlnformat.dir/wlnformat.cpp.o -MF CMakeFiles/wlnformat.dir/wlnformat.cpp.o.d -o CMakeFiles/wlnformat.dir/wlnformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/wlnformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/yasaraformat.dir/build.make src/formats/CMakeFiles/yasaraformat.dir/depend In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/wlnformat.cpp:18: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/wlnformat.cpp: In member function ‘virtual bool OpenBabel::WLNFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/wlnformat.cpp:138:17: warning: unused variable ‘title’ [-Wunused-variable] 138 | const char* title = pConv->GetTitle(); | ^~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/xyzformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/xyzformat.dir/build.make src/formats/CMakeFiles/xyzformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/yasaraformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/yasaraformat.dir/build.make src/formats/CMakeFiles/yasaraformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 65%] Building CXX object src/formats/CMakeFiles/xedformat.dir/xedformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dxedformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/xedformat.dir/xedformat.cpp.o -MF CMakeFiles/xedformat.dir/xedformat.cpp.o.d -o CMakeFiles/xedformat.dir/xedformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/xedformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/xedformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 66%] Linking CXX shared module ../../lib64/xedformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/xedformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/xedformat.so CMakeFiles/xedformat.dir/xedformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 66%] Built target xedformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/rxnformat.dir/build.make src/formats/CMakeFiles/rxnformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/rxnformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/rxnformat.dir/build.make src/formats/CMakeFiles/rxnformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 66%] Building CXX object src/formats/CMakeFiles/yasaraformat.dir/yasaraformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dyasaraformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/yasaraformat.dir/yasaraformat.cpp.o -MF CMakeFiles/yasaraformat.dir/yasaraformat.cpp.o.d -o CMakeFiles/yasaraformat.dir/yasaraformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:34: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp: In function ‘OpenBabel::mobatom* OpenBabel::mob_next(mobatom*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:45:33: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] 45 | #define mem_inc(POINTER,INC) (*((char**)&(POINTER))+=(INC)) | ~^~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:227:3: note: in expansion of macro ‘mem_inc’ 227 | { mem_inc(atom,mob_atomsize(atom)); | ^~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp: In member function ‘virtual bool OpenBabel::YOBFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:374:21: warning: variable ‘reslen’ set but not used [-Wunused-but-set-variable] 374 | int /*samenames,*/reslen,charged; | ^~~~~~ In file included from /usr/include/string.h:548, from /usr/include/c++/14/cstring:43, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:29: In function ‘memcpy’, inlined from ‘OpenBabel::YOBFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:440:82: /usr/include/bits/string_fortified.h:29:33: warning: ‘memcpy’ accessing 4 bytes at offsets 0 and 1 overlaps 3 bytes at offset 1 [-Wrestrict] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp: In member function ‘OpenBabel::YOBFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:572:36: warning: ‘__snprintf_chk’ output truncated before the last format character [-Wformat-truncation=] 572 | snprintf(&buffer[12], 4, "%4d",res->GetNum()); } | ^ In file included from /usr/include/stdio.h:980, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/ext/string_conversions.h:45, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54: In function ‘snprintf’, inlined from ‘OpenBabel::YOBFormat::WriteMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’ at /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:572:15: /usr/include/bits/stdio2.h:68:35: note: ‘__snprintf_chk’ output between 5 and 12 bytes into a destination of size 4 68 | return __builtin___snprintf_chk (__s, __n, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp: In function ‘OpenBabel::mob_getid(OpenBabel::atomid*, OpenBabel::mobatom*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:245:26: warning: array subscript 4 is above array bounds of ‘int32[4]’ [-Warray-bounds=] 245 | { inscodealtloc=int32le(atom->link[idpos++]); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:192:9: note: while referencing ‘link’ 192 | int32 link[4]; }; | ^~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:253:60: warning: array subscript 4 is above array bounds of ‘int32[4]’ [-Warray-bounds=] 253 | if (flags&MOB_SEGMENTFLAG) id->segment=atom->link[idpos++]; | ~~~~~~~~~~~~~~~~~~^ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/yasaraformat.cpp:192:9: note: while referencing ‘link’ 192 | int32 link[4]; }; | ^~~~ make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 66%] Building CXX object src/formats/CMakeFiles/xyzformat.dir/xyzformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dxyzformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/xyzformat.dir/xyzformat.cpp.o -MF CMakeFiles/xyzformat.dir/xyzformat.cpp.o.d -o CMakeFiles/xyzformat.dir/xyzformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/xyzformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obmolecformat.h:36, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/xyzformat.cpp:17: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:24: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 66%] Linking CXX shared module ../../lib64/yasaraformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/yasaraformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/yasaraformat.so CMakeFiles/yasaraformat.dir/yasaraformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 66%] Built target yasaraformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/chemdrawcdx.dir/build.make src/formats/CMakeFiles/chemdrawcdx.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/chemdrawcdx.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/chemdrawcdx.dir/build.make src/formats/CMakeFiles/chemdrawcdx.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 65%] Building CXX object src/formats/CMakeFiles/wlnformat.dir/wln-nextmove.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Dwlnformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/wlnformat.dir/wln-nextmove.cpp.o -MF CMakeFiles/wlnformat.dir/wln-nextmove.cpp.o.d -o CMakeFiles/wlnformat.dir/wln-nextmove.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/wln-nextmove.cpp make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 66%] Linking CXX shared module ../../lib64/xyzformat.so cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/cmake -E cmake_link_script CMakeFiles/xyzformat.dir/link.txt --verbose=1 /usr/bin/g++ -fPIC -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings -Wl,--no-undefined -lc -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -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 -shared -o ../../lib64/xyzformat.so CMakeFiles/xyzformat.dir/xyzformat.cpp.o -lm -ldl -lz -lcairo -linchi -lm ../../lib64/libopenbabel.so.7.0.0 -lm -ldl -lz make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' make[1]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 67%] Built target xyzformat make[1]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/chemkinformat.dir/build.make src/formats/CMakeFiles/chemkinformat.dir/depend make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /builddir/build/BUILD/openbabel-openbabel-3-1-1 /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats/CMakeFiles/chemkinformat.dir/DependInfo.cmake "--color=" make[2]: Leaving directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' /usr/bin/make -f src/formats/CMakeFiles/chemkinformat.dir/build.make src/formats/CMakeFiles/chemkinformat.dir/build make[2]: Entering directory '/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu' [ 66%] Building CXX object src/formats/CMakeFiles/rxnformat.dir/rxnformat.cpp.o cd /builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/src/formats && /usr/bin/g++ -DBUILD_LINK_AS_DLL -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64 -D__WXGTK__ -Drxnformat_EXPORTS -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/x86_64-redhat-linux-gnu/include -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/data -I/builddir/build/BUILD/openbabel-openbabel-3-1-1/include -I/usr/include/eigen3 -I/usr/include/cairo -I/usr/include/inchi -I/usr/include/libxml2 -isystem /usr/lib64/wx/include/gtk3-unicode-3.2 -isystem /usr/include/wx-3.2 -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 -march=x86-64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -pthread -DNDEBUG -O3 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/formats/CMakeFiles/rxnformat.dir/rxnformat.cpp.o -MF CMakeFiles/rxnformat.dir/rxnformat.cpp.o.d -o CMakeFiles/rxnformat.dir/rxnformat.cpp.o -c /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/rxnformat.cpp In file included from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/format.h:22, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/obconversion.h:37, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/rxnformat.cpp:26: /builddir/build/BUILD/openbabel-openbabel-3-1-1/include/openbabel/plugin.h:41:42: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 41 | struct OBERROR CharPtrLess : public std::binary_function | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/rxnformat.cpp:18: /usr/include/c++/14/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/rxnformat.cpp: In member function ‘virtual bool OpenBabel::RXNFormat::ReadMolecule(OpenBabel::OBBase*, OpenBabel::OBConversion*)’: /builddir/build/BUILD/openbabel-openbabel-3-1-1/src/formats/rxnformat.cpp:196:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 196 | for (int i=0; i