Mock Version: 3.5 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/python-gemmi.spec'], chrootPath='/var/lib/mock/openeuler-22.03-x86_64-1682435752.798260/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=1000gid=135user='mockbuild'nspawn_args=[]unshare_net=FalseprintOutput=True) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/python-gemmi.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'} and shell False /etc/profile.d/system-info.sh: line 55: ps: command not found Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/python-gemmi-0.6.1-1.src.rpm Child return code was: 0 Mock Version: 3.5 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/python-gemmi.spec'], chrootPath='/var/lib/mock/openeuler-22.03-x86_64-1682435752.798260/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=1000gid=135user='mockbuild'nspawn_args=[]unshare_net=FalseprintOutput=True) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/python-gemmi.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'} and shell False /etc/profile.d/system-info.sh: line 55: ps: command not found Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/python-gemmi-0.6.1-1.src.rpm Child return code was: 0 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/python-gemmi.spec'], chrootPath='/var/lib/mock/openeuler-22.03-x86_64-1682435752.798260/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=1000gid=135user='mockbuild'nspawn_args=[]unshare_net=FalseprintOutput=True) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/python-gemmi.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'} and shell False /etc/profile.d/system-info.sh: line 55: ps: command not found Building target platforms: x86_64 Building for target x86_64 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.Gs98uz + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf gemmi-0.6.1 + /usr/bin/gzip -dc /builddir/build/SOURCES/gemmi-0.6.1.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + cd gemmi-0.6.1 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.7DYPUQ + umask 022 + cd /builddir/build/BUILD + cd gemmi-0.6.1 + CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection ' + LDFLAGS='-Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/generic-hardened-ld' + /usr/bin/python3 setup.py build '--executable=/usr/bin/python3 -s' /usr/lib/python3.9/site-packages/setuptools/installer.py:27: SetuptoolsDeprecationWarning: setuptools.installer is deprecated. Requirements should be satisfied by a PEP 517 installer. warnings.warn( WARNING: The wheel package is not available. WARNING: Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ReadTimeoutError("HTTPSConnectionPool(host='files.pythonhosted.org', port=443): Read timed out. (read timeout=15)")': /packages/52/ed/68e989fdac8f352cb6d506fac111ba1e1b74c0ef3660fadeeeeb765bc03c/pybind11-2.10.4-py3-none-any.whl running build running build_py creating build creating build/lib.linux-x86_64-3.9 creating build/lib.linux-x86_64-3.9/gemmi-examples copying examples/weight.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/rama_plot.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/mtz_i_sigi.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/mtrix_iso.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/ccd_subgraph.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/long_geom.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/maskdiff.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/from_json.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/simple_search.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/merge_mtz_mmcif.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/matthews.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/aafreq.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/ccd_gi.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/maskcheck.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/cif_i_sigi.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/hello.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/sub_ccd.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/rama_gather.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/map2mtz.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/multiproc.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/col_order.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/__init__.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/__main__.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/monomers.py -> build/lib.linux-x86_64-3.9/gemmi-examples copying examples/patterson_slice.py -> build/lib.linux-x86_64-3.9/gemmi-examples running build_clib building 'gemmi_zlib' library creating build/temp.linux-x86_64-3.9 creating build/temp.linux-x86_64-3.9/third_party creating build/temp.linux-x86_64-3.9/third_party/zlib gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DNO_GZCOMPRESS=1 -DZ_HAVE_UNISTD_H=1 -c third_party/zlib/adler32.c -o build/temp.linux-x86_64-3.9/third_party/zlib/adler32.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DNO_GZCOMPRESS=1 -DZ_HAVE_UNISTD_H=1 -c third_party/zlib/crc32.c -o build/temp.linux-x86_64-3.9/third_party/zlib/crc32.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DNO_GZCOMPRESS=1 -DZ_HAVE_UNISTD_H=1 -c third_party/zlib/gzlib.c -o build/temp.linux-x86_64-3.9/third_party/zlib/gzlib.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DNO_GZCOMPRESS=1 -DZ_HAVE_UNISTD_H=1 -c third_party/zlib/gzread.c -o build/temp.linux-x86_64-3.9/third_party/zlib/gzread.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DNO_GZCOMPRESS=1 -DZ_HAVE_UNISTD_H=1 -c third_party/zlib/inflate.c -o build/temp.linux-x86_64-3.9/third_party/zlib/inflate.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DNO_GZCOMPRESS=1 -DZ_HAVE_UNISTD_H=1 -c third_party/zlib/inftrees.c -o build/temp.linux-x86_64-3.9/third_party/zlib/inftrees.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DNO_GZCOMPRESS=1 -DZ_HAVE_UNISTD_H=1 -c third_party/zlib/inffast.c -o build/temp.linux-x86_64-3.9/third_party/zlib/inffast.o gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DNO_GZCOMPRESS=1 -DZ_HAVE_UNISTD_H=1 -c third_party/zlib/zutil.c -o build/temp.linux-x86_64-3.9/third_party/zlib/zutil.o ar rcs build/temp.linux-x86_64-3.9/libgemmi_zlib.a build/temp.linux-x86_64-3.9/third_party/zlib/adler32.o build/temp.linux-x86_64-3.9/third_party/zlib/crc32.o build/temp.linux-x86_64-3.9/third_party/zlib/gzlib.o build/temp.linux-x86_64-3.9/third_party/zlib/gzread.o build/temp.linux-x86_64-3.9/third_party/zlib/inflate.o build/temp.linux-x86_64-3.9/third_party/zlib/inftrees.o build/temp.linux-x86_64-3.9/third_party/zlib/inffast.o build/temp.linux-x86_64-3.9/third_party/zlib/zutil.o running build_ext creating tmp gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.9 -c /tmp/tmp_f2haa0t.cpp -o tmp/tmp_f2haa0t.o -std=c++20 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.9 -c /tmp/tmpygs2ed5p.cpp -o tmp/tmpygs2ed5p.o -fvisibility=hidden gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.9 -c /tmp/tmp1qzojnyj.cpp -o tmp/tmp1qzojnyj.o -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.9 -c /tmp/tmphy80g_bd.cpp -o tmp/tmphy80g_bd.o -Wl,-s building 'gemmi' extension creating build/temp.linux-x86_64-3.9/python creating build/temp.linux-x86_64-3.9/src gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/align.cpp -o build/temp.linux-x86_64-3.9/python/align.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/ccp4.cpp -o build/temp.linux-x86_64-3.9/python/ccp4.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/chemcomp.cpp -o build/temp.linux-x86_64-3.9/python/chemcomp.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/cif.cpp -o build/temp.linux-x86_64-3.9/python/cif.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/custom.cpp -o build/temp.linux-x86_64-3.9/python/custom.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/elem.cpp -o build/temp.linux-x86_64-3.9/python/elem.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/gemmi.cpp -o build/temp.linux-x86_64-3.9/python/gemmi.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/grid.cpp -o build/temp.linux-x86_64-3.9/python/grid.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/hkl.cpp -o build/temp.linux-x86_64-3.9/python/hkl.o -std=c++20 -fvisibility=hidden -g0 In file included from /usr/include/c++/10.3.1/bits/stl_algo.h:61, from /usr/include/c++/10.3.1/vector:62, from include/gemmi/unitcell.hpp:10, from python/hkl.cpp:3: /usr/include/c++/10.3.1/bits/stl_heap.h: In function ‘constexpr void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >*, std::vector >, std::allocator > > > >; _Distance = long int; _Tp = gemmi::HklValue >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/10.3.1/bits/stl_heap.h:223:5: note: the ABI of passing structure with ‘complex float’ member has changed in GCC 4.4 223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/meta.cpp -o build/temp.linux-x86_64-3.9/python/meta.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/mol.cpp -o build/temp.linux-x86_64-3.9/python/mol.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/monlib.cpp -o build/temp.linux-x86_64-3.9/python/monlib.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/mtz.cpp -o build/temp.linux-x86_64-3.9/python/mtz.o -std=c++20 -fvisibility=hidden -g0 In file included from /usr/include/c++/10.3.1/bits/stl_algo.h:61, from /usr/include/c++/10.3.1/algorithm:62, from include/gemmi/mtz.hpp:12, from python/mtz.cpp:3: /usr/include/c++/10.3.1/bits/stl_heap.h: In function ‘constexpr void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >*, std::vector >, std::allocator > > > >; _Distance = long int; _Tp = gemmi::HklValue >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/10.3.1/bits/stl_heap.h:223:5: note: the ABI of passing structure with ‘complex float’ member has changed in GCC 4.4 223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/read.cpp -o build/temp.linux-x86_64-3.9/python/read.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/recgrid.cpp -o build/temp.linux-x86_64-3.9/python/recgrid.o -std=c++20 -fvisibility=hidden -g0 In file included from /usr/include/c++/10.3.1/bits/stl_algo.h:61, from /usr/include/c++/10.3.1/string:52, from /usr/include/c++/10.3.1/bits/locale_classes.h:40, from /usr/include/c++/10.3.1/bits/ios_base.h:41, from /usr/include/c++/10.3.1/ios:42, from /usr/include/c++/10.3.1/istream:38, from /usr/include/c++/10.3.1/sstream:38, from /usr/include/c++/10.3.1/complex:45, from include/gemmi/asudata.hpp:8, from include/gemmi/recgrid.hpp:8, from python/recgrid.cpp:3: /usr/include/c++/10.3.1/bits/stl_heap.h: In function ‘constexpr void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >*, std::vector >, std::allocator > > > >; _Distance = long int; _Tp = gemmi::HklValue >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/10.3.1/bits/stl_heap.h:223:5: note: the ABI of passing structure with ‘complex float’ member has changed in GCC 4.4 223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/scaling.cpp -o build/temp.linux-x86_64-3.9/python/scaling.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/search.cpp -o build/temp.linux-x86_64-3.9/python/search.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/sf.cpp -o build/temp.linux-x86_64-3.9/python/sf.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c python/sym.cpp -o build/temp.linux-x86_64-3.9/python/sym.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result 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-Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/assembly.cpp -o build/temp.linux-x86_64-3.9/src/assembly.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches 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-DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/crd.cpp -o build/temp.linux-x86_64-3.9/src/crd.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/eig3.cpp -o build/temp.linux-x86_64-3.9/src/eig3.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/mmcif.cpp -o build/temp.linux-x86_64-3.9/src/mmcif.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/mmread_gz.cpp -o build/temp.linux-x86_64-3.9/src/mmread_gz.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/monlib.cpp -o build/temp.linux-x86_64-3.9/src/monlib.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong 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-Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/resinfo.cpp -o build/temp.linux-x86_64-3.9/src/resinfo.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/riding_h.cpp -o build/temp.linux-x86_64-3.9/src/riding_h.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/sprintf.cpp -o build/temp.linux-x86_64-3.9/src/sprintf.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/to_mmcif.cpp -o build/temp.linux-x86_64-3.9/src/to_mmcif.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/to_pdb.cpp -o build/temp.linux-x86_64-3.9/src/to_pdb.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/topo.cpp -o build/temp.linux-x86_64-3.9/src/topo.o -std=c++20 -fvisibility=hidden -g0 gcc -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -DVERSION_INFO="0.6.1" -Ithird_party/zlib -Iinclude -Ithird_party -I/builddir/build/BUILD/gemmi-0.6.1/.eggs/pybind11-2.10.4-py3.9.egg/pybind11/include -I/usr/include/python3.9 -c src/xds_ascii.cpp -o build/temp.linux-x86_64-3.9/src/xds_ascii.o -std=c++20 -fvisibility=hidden -g0 g++ -shared -g -g -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/generic-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-x86_64-3.9/python/align.o build/temp.linux-x86_64-3.9/python/ccp4.o build/temp.linux-x86_64-3.9/python/chemcomp.o build/temp.linux-x86_64-3.9/python/cif.o build/temp.linux-x86_64-3.9/python/custom.o build/temp.linux-x86_64-3.9/python/elem.o build/temp.linux-x86_64-3.9/python/gemmi.o build/temp.linux-x86_64-3.9/python/grid.o build/temp.linux-x86_64-3.9/python/hkl.o build/temp.linux-x86_64-3.9/python/meta.o build/temp.linux-x86_64-3.9/python/mol.o build/temp.linux-x86_64-3.9/python/monlib.o build/temp.linux-x86_64-3.9/python/mtz.o build/temp.linux-x86_64-3.9/python/read.o build/temp.linux-x86_64-3.9/python/recgrid.o build/temp.linux-x86_64-3.9/python/scaling.o build/temp.linux-x86_64-3.9/python/search.o build/temp.linux-x86_64-3.9/python/sf.o build/temp.linux-x86_64-3.9/python/sym.o build/temp.linux-x86_64-3.9/python/topo.o build/temp.linux-x86_64-3.9/python/unitcell.o build/temp.linux-x86_64-3.9/python/write.o build/temp.linux-x86_64-3.9/src/assembly.o build/temp.linux-x86_64-3.9/src/calculate.o build/temp.linux-x86_64-3.9/src/crd.o build/temp.linux-x86_64-3.9/src/eig3.o build/temp.linux-x86_64-3.9/src/mmcif.o build/temp.linux-x86_64-3.9/src/mmread_gz.o build/temp.linux-x86_64-3.9/src/monlib.o build/temp.linux-x86_64-3.9/src/mtz.o build/temp.linux-x86_64-3.9/src/mtz2cif.o build/temp.linux-x86_64-3.9/src/polyheur.o build/temp.linux-x86_64-3.9/src/read_cif.o build/temp.linux-x86_64-3.9/src/resinfo.o build/temp.linux-x86_64-3.9/src/riding_h.o build/temp.linux-x86_64-3.9/src/sprintf.o build/temp.linux-x86_64-3.9/src/to_mmcif.o build/temp.linux-x86_64-3.9/src/to_pdb.o build/temp.linux-x86_64-3.9/src/topo.o build/temp.linux-x86_64-3.9/src/xds_ascii.o -L/usr/lib64 -Lbuild/temp.linux-x86_64-3.9 -lgemmi_zlib -lgemmi_zlib -o build/lib.linux-x86_64-3.9/gemmi.cpython-39-x86_64-linux-gnu.so -Wl,-s + sleep 1 + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.pgEgb2 + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64 ++ dirname /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64 + cd gemmi-0.6.1 + CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection ' + LDFLAGS='-Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/generic-hardened-ld' + /usr/bin/python3 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64 /usr/lib/python3.9/site-packages/setuptools/installer.py:27: SetuptoolsDeprecationWarning: setuptools.installer is deprecated. Requirements should be satisfied by a PEP 517 installer. warnings.warn( WARNING: The wheel package is not available. running install /usr/lib/python3.9/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running install_lib creating /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr creating /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64 creating /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9 creating /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages copying build/lib.linux-x86_64-3.9/gemmi.cpython-39-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages creating /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/weight.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/rama_plot.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/mtz_i_sigi.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/mtrix_iso.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/ccd_subgraph.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/long_geom.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/maskdiff.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/from_json.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/simple_search.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/merge_mtz_mmcif.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/matthews.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/aafreq.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/ccd_gi.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/maskcheck.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/cif_i_sigi.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/hello.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/sub_ccd.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/rama_gather.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/map2mtz.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/multiproc.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/col_order.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/__init__.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/__main__.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/monomers.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples copying build/lib.linux-x86_64-3.9/gemmi-examples/patterson_slice.py -> /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/weight.py to weight.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/rama_plot.py to rama_plot.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/mtz_i_sigi.py to mtz_i_sigi.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/mtrix_iso.py to mtrix_iso.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/ccd_subgraph.py to ccd_subgraph.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/long_geom.py to long_geom.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/maskdiff.py to maskdiff.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/from_json.py to from_json.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/simple_search.py to simple_search.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/merge_mtz_mmcif.py to merge_mtz_mmcif.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/matthews.py to matthews.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/aafreq.py to aafreq.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/ccd_gi.py to ccd_gi.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/maskcheck.py to maskcheck.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/cif_i_sigi.py to cif_i_sigi.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/hello.py to hello.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/sub_ccd.py to sub_ccd.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/rama_gather.py to rama_gather.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/map2mtz.py to map2mtz.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/multiproc.py to multiproc.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/col_order.py to col_order.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/__init__.py to __init__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/__main__.py to __main__.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/monomers.py to monomers.cpython-39.pyc byte-compiling /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-examples/patterson_slice.py to patterson_slice.cpython-39.pyc writing byte-compilation script '/tmp/tmpwla3ke2x.py' /usr/bin/python3 /tmp/tmpwla3ke2x.py removing /tmp/tmpwla3ke2x.py running install_egg_info running egg_info writing gemmi.egg-info/PKG-INFO writing dependency_links to gemmi.egg-info/dependency_links.txt writing top-level names to gemmi.egg-info/top_level.txt reading manifest file 'gemmi.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE.txt' writing manifest file 'gemmi.egg-info/SOURCES.txt' Copying gemmi.egg-info to /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9/site-packages/gemmi-0.6.1-py3.9.egg-info running install_scripts + install -d -m755 /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64//usr/share/doc/python-gemmi + '[' -d doc ']' + '[' -d docs ']' + '[' -d example ']' + '[' -d examples ']' + cp -arf examples /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64//usr/share/doc/python-gemmi + pushd /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64 ~/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64 ~/build/BUILD/gemmi-0.6.1 + '[' -d usr/lib ']' + '[' -d usr/lib64 ']' + find usr/lib64 -type f -printf '/%h/%f\n' + '[' -d usr/bin ']' + '[' -d usr/sbin ']' + touch doclist.lst + '[' -d usr/share/man ']' + popd ~/build/BUILD/gemmi-0.6.1 + mv /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/filelist.lst . + mv /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/doclist.lst . + /usr/bin/find-debuginfo -j4 --strict-build-id -i --build-id-seed 0.6.1-1 --unique-debug-suffix -0.6.1-1.x86_64 --unique-debug-src-base python-gemmi-0.6.1-1.x86_64 -S debugsourcefiles.list /builddir/build/BUILD/gemmi-0.6.1 + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1 1 Bytecompiling .py files below /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64/usr/lib64/python3.9 using /usr/bin/python3.9 + /usr/lib/rpm/brp-python-hardlink Processing files: python3-gemmi-0.6.1-1.x86_64 Provides: python-gemmi python3-gemmi = 0.6.1-1 python3-gemmi(x86-64) = 0.6.1-1 python3.9dist(gemmi) = 0.6.1 python3dist(gemmi) = 0.6.1 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.16)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.4)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_4.0.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.27)(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.11)(64bit) libstdc++.so.6(CXXABI_1.3.2)(64bit) libstdc++.so.6(CXXABI_1.3.3)(64bit) libstdc++.so.6(CXXABI_1.3.5)(64bit) libstdc++.so.6(CXXABI_1.3.8)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) python(abi) = 3.9 rtld(GNU_HASH) Processing files: python-gemmi-help-0.6.1-1.x86_64 warning: Empty %files file /builddir/build/BUILD/gemmi-0.6.1/doclist.lst Provides: python-gemmi-help = 0.6.1-1 python-gemmi-help(x86-64) = 0.6.1-1 python3-gemmi-doc Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: python-gemmi-debuginfo-0.6.1-1.x86_64 Processing files: python-gemmi-debugsource-0.6.1-1.x86_64 warning: Empty %files file /builddir/build/BUILD/gemmi-0.6.1/debugfiles.list warning: Empty %files file /builddir/build/BUILD/gemmi-0.6.1/debugsourcefiles.list Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64 Wrote: /builddir/build/RPMS/python-gemmi-debuginfo-0.6.1-1.x86_64.rpm Wrote: /builddir/build/RPMS/python-gemmi-debugsource-0.6.1-1.x86_64.rpm Wrote: /builddir/build/RPMS/python-gemmi-help-0.6.1-1.x86_64.rpm Wrote: /builddir/build/RPMS/python3-gemmi-0.6.1-1.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.LNaZ8f + umask 022 + cd /builddir/build/BUILD + cd gemmi-0.6.1 + /usr/bin/rm -rf /builddir/build/BUILDROOT/python-gemmi-0.6.1-1.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Child return code was: 0