Mock Version: 3.5
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f43d5a0b8d0>timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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=True)
Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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', 'c38977268b1744cdb9936d3d7e59f8a8', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bs  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1683590400
Wrote: /builddir/build/SRPMS/python-gtdbtk-2.3.0-1.fc39.src.rpm
Child return code was: 0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -br  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f43d5a0b8d0>timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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=TrueraiseExc=FalseprintOutput=True)
Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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', '9124c9af892543aca6b47ec27dfce3c0', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -br  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1683590400
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.UmwVA1
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf gtdbtk-2.3.0
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/gtdbtk-2.3.0.tar.gz
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd gtdbtk-2.3.0
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.HfMsez
+ umask 022
+ cd /builddir/build/BUILD
+ cd gtdbtk-2.3.0
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1  '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(pip) >= 19'
+ echo 'python3dist(packaging)'
+ '[' -f pyproject.toml ']'
+ '[' -f setup.py ']'
+ echo 'python3dist(setuptools) >= 40.8'
+ echo 'python3dist(wheel)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ echo -n
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1  '
+ TMPDIR=/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ RPM_TOXENV=py311
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/gtdbtk-2.3.0/pyproject-wheeldir --output /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-buildrequires
Handling setuptools >= 40.8 from default build backend
Requirement not satisfied: setuptools >= 40.8
Handling wheel from default build backend
Requirement not satisfied: wheel
Exiting dependency generation pass: build backend
+ cat /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-buildrequires
+ rm -rfv '*.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Wrote: /builddir/build/SRPMS/python-gtdbtk-2.3.0-1.fc39.buildreqs.nosrc.rpm
Child return code was: 11
Dynamic buildrequires detected
Going to install missing buildrequires. See root.log for details.
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -br  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f43d5a0b8d0>timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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=TrueraiseExc=FalseprintOutput=True)
Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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', '112d904e73584b4eb43e757aa0215bec', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -br  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1683590400
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.t9IIj8
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf gtdbtk-2.3.0
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/gtdbtk-2.3.0.tar.gz
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd gtdbtk-2.3.0
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.091bLP
+ umask 022
+ cd /builddir/build/BUILD
+ cd gtdbtk-2.3.0
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1  '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(pip) >= 19'
+ echo 'python3dist(packaging)'
+ '[' -f pyproject.toml ']'
+ '[' -f setup.py ']'
+ echo 'python3dist(setuptools) >= 40.8'
+ echo 'python3dist(wheel)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ echo -n
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1  '
+ TMPDIR=/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ RPM_TOXENV=py311
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/gtdbtk-2.3.0/pyproject-wheeldir --output /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-buildrequires
Handling setuptools >= 40.8 from default build backend
Requirement satisfied: setuptools >= 40.8
   (installed: setuptools 67.7.2)
Handling wheel from default build backend
Requirement satisfied: wheel
   (installed: wheel 0.40.0)
running egg_info
writing gtdbtk.egg-info/PKG-INFO
writing dependency_links to gtdbtk.egg-info/dependency_links.txt
writing entry points to gtdbtk.egg-info/entry_points.txt
writing requirements to gtdbtk.egg-info/requires.txt
writing top-level names to gtdbtk.egg-info/top_level.txt
reading manifest file 'gtdbtk.egg-info/SOURCES.txt'
adding license file 'LICENSE'
writing manifest file 'gtdbtk.egg-info/SOURCES.txt'
Handling wheel from get_requires_for_build_wheel
Requirement satisfied: wheel
   (installed: wheel 0.40.0)
running dist_info
writing gtdbtk.egg-info/PKG-INFO
writing dependency_links to gtdbtk.egg-info/dependency_links.txt
writing entry points to gtdbtk.egg-info/entry_points.txt
writing requirements to gtdbtk.egg-info/requires.txt
writing top-level names to gtdbtk.egg-info/top_level.txt
reading manifest file 'gtdbtk.egg-info/SOURCES.txt'
adding license file 'LICENSE'
writing manifest file 'gtdbtk.egg-info/SOURCES.txt'
creating '/builddir/build/BUILD/gtdbtk-2.3.0/gtdbtk-2.3.0.dist-info'
Handling dendropy (>=4.1.0) from hook generated metadata: Requires-Dist
Requirement not satisfied: dendropy (>=4.1.0)
Handling numpy (>=1.9.0) from hook generated metadata: Requires-Dist
Requirement not satisfied: numpy (>=1.9.0)
Handling tqdm (>=4.35.0) from hook generated metadata: Requires-Dist
Requirement not satisfied: tqdm (>=4.35.0)
Handling pydantic from hook generated metadata: Requires-Dist
Requirement not satisfied: pydantic
+ cat /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-buildrequires
+ rm -rfv gtdbtk-2.3.0.dist-info/
removed 'gtdbtk-2.3.0.dist-info/LICENSE'
removed 'gtdbtk-2.3.0.dist-info/METADATA'
removed 'gtdbtk-2.3.0.dist-info/entry_points.txt'
removed 'gtdbtk-2.3.0.dist-info/top_level.txt'
removed directory 'gtdbtk-2.3.0.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Wrote: /builddir/build/SRPMS/python-gtdbtk-2.3.0-1.fc39.buildreqs.nosrc.rpm
Child return code was: 11
Dynamic buildrequires detected
Going to install missing buildrequires. See root.log for details.
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -br  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f43d5a0b8d0>timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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=TrueraiseExc=FalseprintOutput=True)
Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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', 'b104aabfc20a4e569b53cbdda56cc33e', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -br  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1683590400
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.K60oa1
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf gtdbtk-2.3.0
+ /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/gtdbtk-2.3.0.tar.gz
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd gtdbtk-2.3.0
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.wHRKYu
+ umask 022
+ cd /builddir/build/BUILD
+ cd gtdbtk-2.3.0
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1  '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(pip) >= 19'
+ echo 'python3dist(packaging)'
+ '[' -f pyproject.toml ']'
+ '[' -f setup.py ']'
+ echo 'python3dist(setuptools) >= 40.8'
+ echo 'python3dist(wheel)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ echo -n
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1  '
+ TMPDIR=/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ RPM_TOXENV=py311
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/gtdbtk-2.3.0/pyproject-wheeldir --output /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-buildrequires
Handling setuptools >= 40.8 from default build backend
Requirement satisfied: setuptools >= 40.8
   (installed: setuptools 67.7.2)
Handling wheel from default build backend
Requirement satisfied: wheel
   (installed: wheel 0.40.0)
running egg_info
writing gtdbtk.egg-info/PKG-INFO
writing dependency_links to gtdbtk.egg-info/dependency_links.txt
writing entry points to gtdbtk.egg-info/entry_points.txt
writing requirements to gtdbtk.egg-info/requires.txt
writing top-level names to gtdbtk.egg-info/top_level.txt
reading manifest file 'gtdbtk.egg-info/SOURCES.txt'
adding license file 'LICENSE'
writing manifest file 'gtdbtk.egg-info/SOURCES.txt'
Handling wheel from get_requires_for_build_wheel
Requirement satisfied: wheel
   (installed: wheel 0.40.0)
running dist_info
writing gtdbtk.egg-info/PKG-INFO
writing dependency_links to gtdbtk.egg-info/dependency_links.txt
writing entry points to gtdbtk.egg-info/entry_points.txt
writing requirements to gtdbtk.egg-info/requires.txt
writing top-level names to gtdbtk.egg-info/top_level.txt
reading manifest file 'gtdbtk.egg-info/SOURCES.txt'
adding license file 'LICENSE'
writing manifest file 'gtdbtk.egg-info/SOURCES.txt'
creating '/builddir/build/BUILD/gtdbtk-2.3.0/gtdbtk-2.3.0.dist-info'
Handling dendropy (>=4.1.0) from hook generated metadata: Requires-Dist
Requirement satisfied: dendropy (>=4.1.0)
   (installed: dendropy 4.6.0)
Handling numpy (>=1.9.0) from hook generated metadata: Requires-Dist
Requirement satisfied: numpy (>=1.9.0)
   (installed: numpy 1.24.3)
Handling tqdm (>=4.35.0) from hook generated metadata: Requires-Dist
Requirement satisfied: tqdm (>=4.35.0)
   (installed: tqdm 4.65.0)
Handling pydantic from hook generated metadata: Requires-Dist
Requirement satisfied: pydantic
   (installed: pydantic 1.10.7)
+ cat /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-buildrequires
+ rm -rfv gtdbtk-2.3.0.dist-info/
removed 'gtdbtk-2.3.0.dist-info/LICENSE'
removed 'gtdbtk-2.3.0.dist-info/METADATA'
removed 'gtdbtk-2.3.0.dist-info/entry_points.txt'
removed 'gtdbtk-2.3.0.dist-info/top_level.txt'
removed directory 'gtdbtk-2.3.0.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Wrote: /builddir/build/SRPMS/python-gtdbtk-2.3.0-1.fc39.buildreqs.nosrc.rpm
Child return code was: 11
Dynamic buildrequires detected
Going to install missing buildrequires. See root.log for details.
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -ba --noprep  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f43d5a0b8d0>timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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=True)
Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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', 'ef34e85eaa2647028bc56b13c9e312d7', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1683594328.512869/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.4ohtw3qa:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/mapper/control', '--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;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -ba --noprep  --target x86_64 --nodeps /builddir/build/SPECS/python-gtdbtk.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1683590400
Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.YxHsot
+ umask 022
+ cd /builddir/build/BUILD
+ cd gtdbtk-2.3.0
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1  '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ echo pyproject-rpm-macros
+ echo python3-devel
+ echo 'python3dist(pip) >= 19'
+ echo 'python3dist(packaging)'
+ '[' -f pyproject.toml ']'
+ '[' -f setup.py ']'
+ echo 'python3dist(setuptools) >= 40.8'
+ echo 'python3dist(wheel)'
+ rm -rfv '*.dist-info/'
+ '[' -f /usr/bin/python3 ']'
+ mkdir -p /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ echo -n
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1  '
+ TMPDIR=/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ RPM_TOXENV=py311
+ HOSTNAME=rpmbuild
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 --wheeldir /builddir/build/BUILD/gtdbtk-2.3.0/pyproject-wheeldir --output /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-buildrequires
Handling setuptools >= 40.8 from default build backend
Requirement satisfied: setuptools >= 40.8
   (installed: setuptools 67.7.2)
Handling wheel from default build backend
Requirement satisfied: wheel
   (installed: wheel 0.40.0)
running egg_info
writing gtdbtk.egg-info/PKG-INFO
writing dependency_links to gtdbtk.egg-info/dependency_links.txt
writing entry points to gtdbtk.egg-info/entry_points.txt
writing requirements to gtdbtk.egg-info/requires.txt
writing top-level names to gtdbtk.egg-info/top_level.txt
reading manifest file 'gtdbtk.egg-info/SOURCES.txt'
adding license file 'LICENSE'
writing manifest file 'gtdbtk.egg-info/SOURCES.txt'
Handling wheel from get_requires_for_build_wheel
Requirement satisfied: wheel
   (installed: wheel 0.40.0)
running dist_info
writing gtdbtk.egg-info/PKG-INFO
writing dependency_links to gtdbtk.egg-info/dependency_links.txt
writing entry points to gtdbtk.egg-info/entry_points.txt
writing requirements to gtdbtk.egg-info/requires.txt
writing top-level names to gtdbtk.egg-info/top_level.txt
reading manifest file 'gtdbtk.egg-info/SOURCES.txt'
adding license file 'LICENSE'
writing manifest file 'gtdbtk.egg-info/SOURCES.txt'
creating '/builddir/build/BUILD/gtdbtk-2.3.0/gtdbtk-2.3.0.dist-info'
Handling dendropy (>=4.1.0) from hook generated metadata: Requires-Dist
Requirement satisfied: dendropy (>=4.1.0)
   (installed: dendropy 4.6.0)
Handling numpy (>=1.9.0) from hook generated metadata: Requires-Dist
Requirement satisfied: numpy (>=1.9.0)
   (installed: numpy 1.24.3)
Handling tqdm (>=4.35.0) from hook generated metadata: Requires-Dist
Requirement satisfied: tqdm (>=4.35.0)
   (installed: tqdm 4.65.0)
Handling pydantic from hook generated metadata: Requires-Dist
Requirement satisfied: pydantic
   (installed: pydantic 1.10.7)
+ cat /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-buildrequires
+ rm -rfv gtdbtk-2.3.0.dist-info/
removed 'gtdbtk-2.3.0.dist-info/LICENSE'
removed 'gtdbtk-2.3.0.dist-info/METADATA'
removed 'gtdbtk-2.3.0.dist-info/top_level.txt'
removed 'gtdbtk-2.3.0.dist-info/entry_points.txt'
removed directory 'gtdbtk-2.3.0.dist-info/'
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.VBnzWh
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd gtdbtk-2.3.0
+ mkdir -p /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ TMPDIR=/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ /usr/bin/python3 -Bs /usr/lib/rpm/redhat/pyproject_wheel.py /builddir/build/BUILD/gtdbtk-2.3.0/pyproject-wheeldir
Processing /builddir/build/BUILD/gtdbtk-2.3.0
  Preparing metadata (pyproject.toml): started
  Running command Preparing metadata (pyproject.toml)
  running dist_info
  creating /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk.egg-info
  writing /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk.egg-info/PKG-INFO
  writing dependency_links to /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk.egg-info/dependency_links.txt
  writing entry points to /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk.egg-info/entry_points.txt
  writing requirements to /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk.egg-info/requires.txt
  writing top-level names to /builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk.egg-info/top_level.txt
  writing manifest file '/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk.egg-info/SOURCES.txt'
  reading manifest file '/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk.egg-info/SOURCES.txt'
  adding license file 'LICENSE'
  writing manifest file '/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk.egg-info/SOURCES.txt'
  creating '/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-modern-metadata-x_jb7cg5/gtdbtk-2.3.0.dist-info'
  Preparing metadata (pyproject.toml): finished with status 'done'
Building wheels for collected packages: gtdbtk
  Building wheel for gtdbtk (pyproject.toml): started
  Running command Building wheel for gtdbtk (pyproject.toml)
  running bdist_wheel
  running build
  running build_py
  creating build
  creating build/lib
  creating build/lib/tests
  copying tests/test_cli.py -> build/lib/tests
  copying tests/test_classify.py -> build/lib/tests
  copying tests/common.py -> build/lib/tests
  copying tests/__init__.py -> build/lib/tests
  creating build/lib/gtdbtk
  copying gtdbtk/trim_msa.py -> build/lib/gtdbtk
  copying gtdbtk/tools.py -> build/lib/gtdbtk
  copying gtdbtk/split.py -> build/lib/gtdbtk
  copying gtdbtk/reroot_tree.py -> build/lib/gtdbtk
  copying gtdbtk/relative_distance.py -> build/lib/gtdbtk
  copying gtdbtk/misc.py -> build/lib/gtdbtk
  copying gtdbtk/markers.py -> build/lib/gtdbtk
  copying gtdbtk/main.py -> build/lib/gtdbtk
  copying gtdbtk/infer_ranks.py -> build/lib/gtdbtk
  copying gtdbtk/exceptions.py -> build/lib/gtdbtk
  copying gtdbtk/decorate.py -> build/lib/gtdbtk
  copying gtdbtk/cli.py -> build/lib/gtdbtk
  copying gtdbtk/classify.py -> build/lib/gtdbtk
  copying gtdbtk/ani_screen.py -> build/lib/gtdbtk
  copying gtdbtk/ani_rep.py -> build/lib/gtdbtk
  copying gtdbtk/__main__.py -> build/lib/gtdbtk
  copying gtdbtk/__init__.py -> build/lib/gtdbtk
  creating build/lib/tests/test_gtdbtk
  copying tests/test_gtdbtk/test_trim_msa.py -> build/lib/tests/test_gtdbtk
  copying tests/test_gtdbtk/test_tools.py -> build/lib/tests/test_gtdbtk
  copying tests/test_gtdbtk/test_markers.py -> build/lib/tests/test_gtdbtk
  copying tests/test_gtdbtk/test_main.py -> build/lib/tests/test_gtdbtk
  copying tests/test_gtdbtk/test__main__.py -> build/lib/tests/test_gtdbtk
  copying tests/test_gtdbtk/__init__.py -> build/lib/tests/test_gtdbtk
  creating build/lib/tests/test_gtdbtk/test_files
  copying tests/test_gtdbtk/test_files/__init__.py -> build/lib/tests/test_gtdbtk/test_files
  creating build/lib/tests/test_gtdbtk/test_external
  copying tests/test_gtdbtk/test_external/test_fasttree.py -> build/lib/tests/test_gtdbtk/test_external
  copying tests/test_gtdbtk/test_external/test_fastani.py -> build/lib/tests/test_gtdbtk/test_external
  copying tests/test_gtdbtk/test_external/__init__.py -> build/lib/tests/test_gtdbtk/test_external
  creating build/lib/tests/test_gtdbtk/test_biolib_lite
  copying tests/test_gtdbtk/test_biolib_lite/test_taxonomy.py -> build/lib/tests/test_gtdbtk/test_biolib_lite
  copying tests/test_gtdbtk/test_biolib_lite/test_seq_io.py -> build/lib/tests/test_gtdbtk/test_biolib_lite
  copying tests/test_gtdbtk/test_biolib_lite/test_newick.py -> build/lib/tests/test_gtdbtk/test_biolib_lite
  copying tests/test_gtdbtk/test_biolib_lite/test_common.py -> build/lib/tests/test_gtdbtk/test_biolib_lite
  copying tests/test_gtdbtk/test_biolib_lite/__init__.py -> build/lib/tests/test_gtdbtk/test_biolib_lite
  creating build/lib/tests/test_gtdbtk/test_files/test_prodigal
  copying tests/test_gtdbtk/test_files/test_prodigal/test_tln_table_summary.py -> build/lib/tests/test_gtdbtk/test_files/test_prodigal
  copying tests/test_gtdbtk/test_files/test_prodigal/__init__.py -> build/lib/tests/test_gtdbtk/test_files/test_prodigal
  creating build/lib/tests/test_gtdbtk/test_files/test_marker
  copying tests/test_gtdbtk/test_files/test_marker/test_tophit.py -> build/lib/tests/test_gtdbtk/test_files/test_marker
  copying tests/test_gtdbtk/test_files/test_marker/test_copy_number.py -> build/lib/tests/test_gtdbtk/test_files/test_marker
  copying tests/test_gtdbtk/test_files/test_marker/__init__.py -> build/lib/tests/test_gtdbtk/test_files/test_marker
  creating build/lib/gtdbtk/pipeline
  copying gtdbtk/pipeline/export_msa.py -> build/lib/gtdbtk/pipeline
  copying gtdbtk/pipeline/align.py -> build/lib/gtdbtk/pipeline
  copying gtdbtk/pipeline/__init__.py -> build/lib/gtdbtk/pipeline
  creating build/lib/gtdbtk/model
  copying gtdbtk/model/enum.py -> build/lib/gtdbtk/model
  copying gtdbtk/model/__init__.py -> build/lib/gtdbtk/model
  creating build/lib/gtdbtk/files
  copying gtdbtk/files/tree_mapping.py -> build/lib/gtdbtk/files
  copying gtdbtk/files/stage_logger.py -> build/lib/gtdbtk/files
  copying gtdbtk/files/red_dict.py -> build/lib/gtdbtk/files
  copying gtdbtk/files/pplacer_classification.py -> build/lib/gtdbtk/files
  copying gtdbtk/files/missing_genomes.py -> build/lib/gtdbtk/files
  copying gtdbtk/files/marker_info.py -> build/lib/gtdbtk/files
  copying gtdbtk/files/gtdb_radii.py -> build/lib/gtdbtk/files
  copying gtdbtk/files/classify_summary.py -> build/lib/gtdbtk/files
  copying gtdbtk/files/batchfile.py -> build/lib/gtdbtk/files
  copying gtdbtk/files/__init__.py -> build/lib/gtdbtk/files
  creating build/lib/gtdbtk/external
  copying gtdbtk/external/tigrfam_search.py -> build/lib/gtdbtk/external
  copying gtdbtk/external/prodigal.py -> build/lib/gtdbtk/external
  copying gtdbtk/external/pplacer.py -> build/lib/gtdbtk/external
  copying gtdbtk/external/pfam_search.py -> build/lib/gtdbtk/external
  copying gtdbtk/external/mash.py -> build/lib/gtdbtk/external
  copying gtdbtk/external/hmm_aligner.py -> build/lib/gtdbtk/external
  copying gtdbtk/external/fasttree.py -> build/lib/gtdbtk/external
  copying gtdbtk/external/fastani.py -> build/lib/gtdbtk/external
  copying gtdbtk/external/__init__.py -> build/lib/gtdbtk/external
  creating build/lib/gtdbtk/config
  copying gtdbtk/config/output.py -> build/lib/gtdbtk/config
  copying gtdbtk/config/common.py -> build/lib/gtdbtk/config
  copying gtdbtk/config/__init__.py -> build/lib/gtdbtk/config
  creating build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/taxonomy.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/seq_io.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/prodigal_biolib.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/parallel.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/newick.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/logger.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/execute.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/exceptions.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/custom_help_formatter.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/common.py -> build/lib/gtdbtk/biolib_lite
  copying gtdbtk/biolib_lite/__init__.py -> build/lib/gtdbtk/biolib_lite
  creating build/lib/gtdbtk/files/prodigal
  copying gtdbtk/files/prodigal/tln_table_summary.py -> build/lib/gtdbtk/files/prodigal
  copying gtdbtk/files/prodigal/tln_table.py -> build/lib/gtdbtk/files/prodigal
  copying gtdbtk/files/prodigal/__init__.py -> build/lib/gtdbtk/files/prodigal
  creating build/lib/gtdbtk/files/marker
  copying gtdbtk/files/marker/tophit.py -> build/lib/gtdbtk/files/marker
  copying gtdbtk/files/marker/copy_number.py -> build/lib/gtdbtk/files/marker
  copying gtdbtk/files/marker/__init__.py -> build/lib/gtdbtk/files/marker
  creating build/lib/gtdbtk/external/pypfam
  copying gtdbtk/external/pypfam/__init__.py -> build/lib/gtdbtk/external/pypfam
  creating build/lib/gtdbtk/external/pypfam/Scan
  copying gtdbtk/external/pypfam/Scan/__init__.py -> build/lib/gtdbtk/external/pypfam/Scan
  copying gtdbtk/external/pypfam/Scan/PfamScan.py -> build/lib/gtdbtk/external/pypfam/Scan
  creating build/lib/gtdbtk/external/pypfam/HMM
  copying gtdbtk/external/pypfam/HMM/__init__.py -> build/lib/gtdbtk/external/pypfam/HMM
  copying gtdbtk/external/pypfam/HMM/HMMUnit.py -> build/lib/gtdbtk/external/pypfam/HMM
  copying gtdbtk/external/pypfam/HMM/HMMSequence.py -> build/lib/gtdbtk/external/pypfam/HMM
  copying gtdbtk/external/pypfam/HMM/HMMResultsIO.py -> build/lib/gtdbtk/external/pypfam/HMM
  copying gtdbtk/external/pypfam/HMM/HMMResults.py -> build/lib/gtdbtk/external/pypfam/HMM
  copying gtdbtk/external/pypfam/HMM/HMMMatch.py -> build/lib/gtdbtk/external/pypfam/HMM
  creating build/lib/gtdbtk/tests
  creating build/lib/gtdbtk/tests/data
  creating build/lib/gtdbtk/tests/data/genomes
  copying gtdbtk/tests/data/genomes/genome_3.fna -> build/lib/gtdbtk/tests/data/genomes
  copying gtdbtk/tests/data/genomes/genome_2.fna -> build/lib/gtdbtk/tests/data/genomes
  copying gtdbtk/tests/data/genomes/genome_1.fna -> build/lib/gtdbtk/tests/data/genomes
  installing to build/bdist.linux-x86_64/wheel
  running install
  running install_lib
  creating build/bdist.linux-x86_64
  creating build/bdist.linux-x86_64/wheel
  creating build/bdist.linux-x86_64/wheel/gtdbtk
  creating build/bdist.linux-x86_64/wheel/gtdbtk/tests
  creating build/bdist.linux-x86_64/wheel/gtdbtk/tests/data
  creating build/bdist.linux-x86_64/wheel/gtdbtk/tests/data/genomes
  copying build/lib/gtdbtk/tests/data/genomes/genome_1.fna -> build/bdist.linux-x86_64/wheel/gtdbtk/tests/data/genomes
  copying build/lib/gtdbtk/tests/data/genomes/genome_2.fna -> build/bdist.linux-x86_64/wheel/gtdbtk/tests/data/genomes
  copying build/lib/gtdbtk/tests/data/genomes/genome_3.fna -> build/bdist.linux-x86_64/wheel/gtdbtk/tests/data/genomes
  creating build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/common.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/custom_help_formatter.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/exceptions.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/execute.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/logger.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/newick.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/parallel.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/prodigal_biolib.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/seq_io.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  copying build/lib/gtdbtk/biolib_lite/taxonomy.py -> build/bdist.linux-x86_64/wheel/gtdbtk/biolib_lite
  creating build/bdist.linux-x86_64/wheel/gtdbtk/config
  copying build/lib/gtdbtk/config/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/config
  copying build/lib/gtdbtk/config/common.py -> build/bdist.linux-x86_64/wheel/gtdbtk/config
  copying build/lib/gtdbtk/config/output.py -> build/bdist.linux-x86_64/wheel/gtdbtk/config
  creating build/bdist.linux-x86_64/wheel/gtdbtk/external
  creating build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam
  creating build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/HMM
  copying build/lib/gtdbtk/external/pypfam/HMM/HMMMatch.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/HMM
  copying build/lib/gtdbtk/external/pypfam/HMM/HMMResults.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/HMM
  copying build/lib/gtdbtk/external/pypfam/HMM/HMMResultsIO.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/HMM
  copying build/lib/gtdbtk/external/pypfam/HMM/HMMSequence.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/HMM
  copying build/lib/gtdbtk/external/pypfam/HMM/HMMUnit.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/HMM
  copying build/lib/gtdbtk/external/pypfam/HMM/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/HMM
  creating build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/Scan
  copying build/lib/gtdbtk/external/pypfam/Scan/PfamScan.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/Scan
  copying build/lib/gtdbtk/external/pypfam/Scan/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam/Scan
  copying build/lib/gtdbtk/external/pypfam/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external/pypfam
  copying build/lib/gtdbtk/external/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external
  copying build/lib/gtdbtk/external/fastani.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external
  copying build/lib/gtdbtk/external/fasttree.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external
  copying build/lib/gtdbtk/external/hmm_aligner.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external
  copying build/lib/gtdbtk/external/mash.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external
  copying build/lib/gtdbtk/external/pfam_search.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external
  copying build/lib/gtdbtk/external/pplacer.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external
  copying build/lib/gtdbtk/external/prodigal.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external
  copying build/lib/gtdbtk/external/tigrfam_search.py -> build/bdist.linux-x86_64/wheel/gtdbtk/external
  creating build/bdist.linux-x86_64/wheel/gtdbtk/files
  creating build/bdist.linux-x86_64/wheel/gtdbtk/files/marker
  copying build/lib/gtdbtk/files/marker/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files/marker
  copying build/lib/gtdbtk/files/marker/copy_number.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files/marker
  copying build/lib/gtdbtk/files/marker/tophit.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files/marker
  creating build/bdist.linux-x86_64/wheel/gtdbtk/files/prodigal
  copying build/lib/gtdbtk/files/prodigal/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files/prodigal
  copying build/lib/gtdbtk/files/prodigal/tln_table.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files/prodigal
  copying build/lib/gtdbtk/files/prodigal/tln_table_summary.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files/prodigal
  copying build/lib/gtdbtk/files/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  copying build/lib/gtdbtk/files/batchfile.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  copying build/lib/gtdbtk/files/classify_summary.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  copying build/lib/gtdbtk/files/gtdb_radii.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  copying build/lib/gtdbtk/files/marker_info.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  copying build/lib/gtdbtk/files/missing_genomes.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  copying build/lib/gtdbtk/files/pplacer_classification.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  copying build/lib/gtdbtk/files/red_dict.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  copying build/lib/gtdbtk/files/stage_logger.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  copying build/lib/gtdbtk/files/tree_mapping.py -> build/bdist.linux-x86_64/wheel/gtdbtk/files
  creating build/bdist.linux-x86_64/wheel/gtdbtk/model
  copying build/lib/gtdbtk/model/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/model
  copying build/lib/gtdbtk/model/enum.py -> build/bdist.linux-x86_64/wheel/gtdbtk/model
  creating build/bdist.linux-x86_64/wheel/gtdbtk/pipeline
  copying build/lib/gtdbtk/pipeline/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk/pipeline
  copying build/lib/gtdbtk/pipeline/align.py -> build/bdist.linux-x86_64/wheel/gtdbtk/pipeline
  copying build/lib/gtdbtk/pipeline/export_msa.py -> build/bdist.linux-x86_64/wheel/gtdbtk/pipeline
  copying build/lib/gtdbtk/__init__.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/__main__.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/ani_rep.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/ani_screen.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/classify.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/cli.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/decorate.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/exceptions.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/infer_ranks.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/main.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/markers.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/misc.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/relative_distance.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/reroot_tree.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/split.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/tools.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  copying build/lib/gtdbtk/trim_msa.py -> build/bdist.linux-x86_64/wheel/gtdbtk
  creating build/bdist.linux-x86_64/wheel/tests
  creating build/bdist.linux-x86_64/wheel/tests/test_gtdbtk
  creating build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_biolib_lite
  copying build/lib/tests/test_gtdbtk/test_biolib_lite/__init__.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_biolib_lite
  copying build/lib/tests/test_gtdbtk/test_biolib_lite/test_common.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_biolib_lite
  copying build/lib/tests/test_gtdbtk/test_biolib_lite/test_newick.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_biolib_lite
  copying build/lib/tests/test_gtdbtk/test_biolib_lite/test_seq_io.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_biolib_lite
  copying build/lib/tests/test_gtdbtk/test_biolib_lite/test_taxonomy.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_biolib_lite
  creating build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_external
  copying build/lib/tests/test_gtdbtk/test_external/__init__.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_external
  copying build/lib/tests/test_gtdbtk/test_external/test_fastani.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_external
  copying build/lib/tests/test_gtdbtk/test_external/test_fasttree.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_external
  creating build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_files
  creating build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_files/test_marker
  copying build/lib/tests/test_gtdbtk/test_files/test_marker/__init__.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_files/test_marker
  copying build/lib/tests/test_gtdbtk/test_files/test_marker/test_copy_number.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_files/test_marker
  copying build/lib/tests/test_gtdbtk/test_files/test_marker/test_tophit.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_files/test_marker
  creating build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_files/test_prodigal
  copying build/lib/tests/test_gtdbtk/test_files/test_prodigal/__init__.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_files/test_prodigal
  copying build/lib/tests/test_gtdbtk/test_files/test_prodigal/test_tln_table_summary.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_files/test_prodigal
  copying build/lib/tests/test_gtdbtk/test_files/__init__.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk/test_files
  copying build/lib/tests/test_gtdbtk/__init__.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk
  copying build/lib/tests/test_gtdbtk/test__main__.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk
  copying build/lib/tests/test_gtdbtk/test_main.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk
  copying build/lib/tests/test_gtdbtk/test_markers.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk
  copying build/lib/tests/test_gtdbtk/test_tools.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk
  copying build/lib/tests/test_gtdbtk/test_trim_msa.py -> build/bdist.linux-x86_64/wheel/tests/test_gtdbtk
  copying build/lib/tests/__init__.py -> build/bdist.linux-x86_64/wheel/tests
  copying build/lib/tests/common.py -> build/bdist.linux-x86_64/wheel/tests
  copying build/lib/tests/test_classify.py -> build/bdist.linux-x86_64/wheel/tests
  copying build/lib/tests/test_cli.py -> build/bdist.linux-x86_64/wheel/tests
  running install_data
  creating build/bdist.linux-x86_64/wheel/gtdbtk-2.3.0.data
  creating build/bdist.linux-x86_64/wheel/gtdbtk-2.3.0.data/data
  copying LICENSE -> build/bdist.linux-x86_64/wheel/gtdbtk-2.3.0.data/data/
  running install_egg_info
  running egg_info
  writing gtdbtk.egg-info/PKG-INFO
  writing dependency_links to gtdbtk.egg-info/dependency_links.txt
  writing entry points to gtdbtk.egg-info/entry_points.txt
  writing requirements to gtdbtk.egg-info/requires.txt
  writing top-level names to gtdbtk.egg-info/top_level.txt
  reading manifest file 'gtdbtk.egg-info/SOURCES.txt'
  adding license file 'LICENSE'
  writing manifest file 'gtdbtk.egg-info/SOURCES.txt'
  Copying gtdbtk.egg-info to build/bdist.linux-x86_64/wheel/gtdbtk-2.3.0-py3.11.egg-info
  running install_scripts
  creating build/bdist.linux-x86_64/wheel/gtdbtk-2.3.0.dist-info/WHEEL
  creating '/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir/pip-wheel-dhz5jfrp/.tmp-bklnvspy/gtdbtk-2.3.0-py3-none-any.whl' and adding 'build/bdist.linux-x86_64/wheel' to it
  adding 'gtdbtk/__init__.py'
  adding 'gtdbtk/__main__.py'
  adding 'gtdbtk/ani_rep.py'
  adding 'gtdbtk/ani_screen.py'
  adding 'gtdbtk/classify.py'
  adding 'gtdbtk/cli.py'
  adding 'gtdbtk/decorate.py'
  adding 'gtdbtk/exceptions.py'
  adding 'gtdbtk/infer_ranks.py'
  adding 'gtdbtk/main.py'
  adding 'gtdbtk/markers.py'
  adding 'gtdbtk/misc.py'
  adding 'gtdbtk/relative_distance.py'
  adding 'gtdbtk/reroot_tree.py'
  adding 'gtdbtk/split.py'
  adding 'gtdbtk/tools.py'
  adding 'gtdbtk/trim_msa.py'
  adding 'gtdbtk/biolib_lite/__init__.py'
  adding 'gtdbtk/biolib_lite/common.py'
  adding 'gtdbtk/biolib_lite/custom_help_formatter.py'
  adding 'gtdbtk/biolib_lite/exceptions.py'
  adding 'gtdbtk/biolib_lite/execute.py'
  adding 'gtdbtk/biolib_lite/logger.py'
  adding 'gtdbtk/biolib_lite/newick.py'
  adding 'gtdbtk/biolib_lite/parallel.py'
  adding 'gtdbtk/biolib_lite/prodigal_biolib.py'
  adding 'gtdbtk/biolib_lite/seq_io.py'
  adding 'gtdbtk/biolib_lite/taxonomy.py'
  adding 'gtdbtk/config/__init__.py'
  adding 'gtdbtk/config/common.py'
  adding 'gtdbtk/config/output.py'
  adding 'gtdbtk/external/__init__.py'
  adding 'gtdbtk/external/fastani.py'
  adding 'gtdbtk/external/fasttree.py'
  adding 'gtdbtk/external/hmm_aligner.py'
  adding 'gtdbtk/external/mash.py'
  adding 'gtdbtk/external/pfam_search.py'
  adding 'gtdbtk/external/pplacer.py'
  adding 'gtdbtk/external/prodigal.py'
  adding 'gtdbtk/external/tigrfam_search.py'
  adding 'gtdbtk/external/pypfam/__init__.py'
  adding 'gtdbtk/external/pypfam/HMM/HMMMatch.py'
  adding 'gtdbtk/external/pypfam/HMM/HMMResults.py'
  adding 'gtdbtk/external/pypfam/HMM/HMMResultsIO.py'
  adding 'gtdbtk/external/pypfam/HMM/HMMSequence.py'
  adding 'gtdbtk/external/pypfam/HMM/HMMUnit.py'
  adding 'gtdbtk/external/pypfam/HMM/__init__.py'
  adding 'gtdbtk/external/pypfam/Scan/PfamScan.py'
  adding 'gtdbtk/external/pypfam/Scan/__init__.py'
  adding 'gtdbtk/files/__init__.py'
  adding 'gtdbtk/files/batchfile.py'
  adding 'gtdbtk/files/classify_summary.py'
  adding 'gtdbtk/files/gtdb_radii.py'
  adding 'gtdbtk/files/marker_info.py'
  adding 'gtdbtk/files/missing_genomes.py'
  adding 'gtdbtk/files/pplacer_classification.py'
  adding 'gtdbtk/files/red_dict.py'
  adding 'gtdbtk/files/stage_logger.py'
  adding 'gtdbtk/files/tree_mapping.py'
  adding 'gtdbtk/files/marker/__init__.py'
  adding 'gtdbtk/files/marker/copy_number.py'
  adding 'gtdbtk/files/marker/tophit.py'
  adding 'gtdbtk/files/prodigal/__init__.py'
  adding 'gtdbtk/files/prodigal/tln_table.py'
  adding 'gtdbtk/files/prodigal/tln_table_summary.py'
  adding 'gtdbtk/model/__init__.py'
  adding 'gtdbtk/model/enum.py'
  adding 'gtdbtk/pipeline/__init__.py'
  adding 'gtdbtk/pipeline/align.py'
  adding 'gtdbtk/pipeline/export_msa.py'
  adding 'gtdbtk/tests/data/genomes/genome_1.fna'
  adding 'gtdbtk/tests/data/genomes/genome_2.fna'
  adding 'gtdbtk/tests/data/genomes/genome_3.fna'
  adding 'gtdbtk-2.3.0.data/data/LICENSE'
  adding 'tests/__init__.py'
  adding 'tests/common.py'
  adding 'tests/test_classify.py'
  adding 'tests/test_cli.py'
  adding 'tests/test_gtdbtk/__init__.py'
  adding 'tests/test_gtdbtk/test__main__.py'
  adding 'tests/test_gtdbtk/test_main.py'
  adding 'tests/test_gtdbtk/test_markers.py'
  adding 'tests/test_gtdbtk/test_tools.py'
  adding 'tests/test_gtdbtk/test_trim_msa.py'
  adding 'tests/test_gtdbtk/test_biolib_lite/__init__.py'
  adding 'tests/test_gtdbtk/test_biolib_lite/test_common.py'
  adding 'tests/test_gtdbtk/test_biolib_lite/test_newick.py'
  adding 'tests/test_gtdbtk/test_biolib_lite/test_seq_io.py'
  adding 'tests/test_gtdbtk/test_biolib_lite/test_taxonomy.py'
  adding 'tests/test_gtdbtk/test_external/__init__.py'
  adding 'tests/test_gtdbtk/test_external/test_fastani.py'
  adding 'tests/test_gtdbtk/test_external/test_fasttree.py'
  adding 'tests/test_gtdbtk/test_files/__init__.py'
  adding 'tests/test_gtdbtk/test_files/test_marker/__init__.py'
  adding 'tests/test_gtdbtk/test_files/test_marker/test_copy_number.py'
  adding 'tests/test_gtdbtk/test_files/test_marker/test_tophit.py'
  adding 'tests/test_gtdbtk/test_files/test_prodigal/__init__.py'
  adding 'tests/test_gtdbtk/test_files/test_prodigal/test_tln_table_summary.py'
  adding 'gtdbtk-2.3.0.dist-info/LICENSE'
  adding 'gtdbtk-2.3.0.dist-info/METADATA'
  adding 'gtdbtk-2.3.0.dist-info/WHEEL'
  adding 'gtdbtk-2.3.0.dist-info/entry_points.txt'
  adding 'gtdbtk-2.3.0.dist-info/top_level.txt'
  adding 'gtdbtk-2.3.0.dist-info/RECORD'
  removing build/bdist.linux-x86_64/wheel
  Building wheel for gtdbtk (pyproject.toml): finished with status 'done'
  Created wheel for gtdbtk: filename=gtdbtk-2.3.0-py3-none-any.whl size=1829443 sha256=79099b9e2ec9e8b44d6ba3ca47c4c5ead91b41d312d1d1c4f51a30af1aac95d2
  Stored in directory: /builddir/.cache/pip/wheels/01/2e/4d/3e534b223216fc986ded70fdd53bddcc600e720b3efed93ad9
Successfully built gtdbtk
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.TX4lfm
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64
++ dirname /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd gtdbtk-2.3.0
++ ls /builddir/build/BUILD/gtdbtk-2.3.0/pyproject-wheeldir/gtdbtk-2.3.0-py3-none-any.whl
++ xargs basename --multiple
++ sed -E 's/([^-]+)-([^-]+)-.+\.whl/\1==\2/'
+ specifier=gtdbtk==2.3.0
+ TMPDIR=/builddir/build/BUILD/gtdbtk-2.3.0/.pyproject-builddir
+ /usr/bin/python3 -m pip install --root /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64 --prefix /usr --no-deps --disable-pip-version-check --progress-bar off --verbose --ignore-installed --no-warn-script-location --no-index --no-cache-dir --find-links /builddir/build/BUILD/gtdbtk-2.3.0/pyproject-wheeldir gtdbtk==2.3.0
Using pip 23.0.1 from /usr/lib/python3.11/site-packages/pip (python 3.11)
Looking in links: /builddir/build/BUILD/gtdbtk-2.3.0/pyproject-wheeldir
Processing ./pyproject-wheeldir/gtdbtk-2.3.0-py3-none-any.whl
Installing collected packages: gtdbtk
  Creating /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/bin
  changing mode of /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/bin/gtdbtk to 755
Successfully installed gtdbtk-2.3.0
+ '[' -d /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/bin ']'
+ '[' -z sP ']'
+ shebang_flags=-kasP
+ /usr/bin/python3 -B /usr/lib/rpm/redhat/pathfix.py -pni /usr/bin/python3 -kasP /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/bin/gtdbtk
/builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/bin/gtdbtk: updating
+ rm -rfv /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/bin/__pycache__
+ rm -f /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-ghost-distinfo
+ site_dirs=()
+ '[' -d /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages ']'
+ site_dirs+=("/usr/lib/python3.11/site-packages")
+ '[' /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib64/python3.11/site-packages '!=' /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages ']'
+ '[' -d /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib64/python3.11/site-packages ']'
+ for site_dir in ${site_dirs[@]}
+ for distinfo in /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64$site_dir/*.dist-info
+ echo '%ghost /usr/lib/python3.11/site-packages/gtdbtk-2.3.0.dist-info'
+ sed -i s/pip/rpm/ /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages/gtdbtk-2.3.0.dist-info/INSTALLER
+ PYTHONPATH=/usr/lib/rpm/redhat
+ /usr/bin/python3 -B /usr/lib/rpm/redhat/pyproject_preprocess_record.py --buildroot /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64 --record /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages/gtdbtk-2.3.0.dist-info/RECORD --output /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-record
+ rm -fv /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages/gtdbtk-2.3.0.dist-info/RECORD
removed '/builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages/gtdbtk-2.3.0.dist-info/RECORD'
+ rm -fv /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages/gtdbtk-2.3.0.dist-info/REQUESTED
removed '/builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages/gtdbtk-2.3.0.dist-info/REQUESTED'
++ wc -l /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-ghost-distinfo
++ cut -f1 '-d '
+ lines=1
+ '[' 1 -ne 1 ']'
+ /usr/bin/python3 /usr/lib/rpm/redhat/pyproject_save_files.py --output-files /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-files --output-modules /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-modules --buildroot /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64 --sitelib /usr/lib/python3.11/site-packages --sitearch /usr/lib64/python3.11/site-packages --python-version 3.11 --pyproject-record /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-record --prefix /usr '*' +auto
+ /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 2.3.0-1.fc39 --unique-debug-suffix -2.3.0-1.fc39.x86_64 --unique-debug-src-base python-gtdbtk-2.3.0-1.fc39.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/gtdbtk-2.3.0
find: 'debug': No such file or directory
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/check-rpaths
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
+ /usr/lib/rpm/brp-remove-la-files
+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j2
Bytecompiling .py files below /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11 using python3.11
+ /usr/lib/rpm/redhat/brp-python-hardlink
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.iIa9hS
+ 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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64   -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -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 -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
+ export RUSTFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ cd gtdbtk-2.3.0
+ '[' '!' -f /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-modules ']'
+ PATH=/builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/bin:/builddir/.local/bin:/builddir/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin
+ PYTHONPATH=/builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib64/python3.11/site-packages:/builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages
+ _PYTHONSITE=/builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib64/python3.11/site-packages:/builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64/usr/lib/python3.11/site-packages
+ PYTHONDONTWRITEBYTECODE=1
+ /usr/bin/python3 -sP /usr/lib/rpm/redhat/import_all_modules.py -f /builddir/build/BUILD/python-gtdbtk-2.3.0-1.fc39.x86_64-pyproject-modules -t
Check import: gtdbtk
Check import: tests
+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: python3-gtdbtk-2.3.0-1.fc39.noarch
Provides: python-gtdbtk = 2.3.0-1.fc39 python3-gtdbtk = 2.3.0-1.fc39 python3.11-gtdbtk = 2.3.0-1.fc39 python3.11dist(gtdbtk) = 2.3 python3dist(gtdbtk) = 2.3
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: /usr/bin/python3 python(abi) = 3.11 python3.11dist(dendropy) >= 4.1 python3.11dist(numpy) >= 1.9 python3.11dist(pydantic) python3.11dist(tqdm) >= 4.35
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64
Wrote: /builddir/build/SRPMS/python-gtdbtk-2.3.0-1.fc39.src.rpm
Wrote: /builddir/build/RPMS/python3-gtdbtk-2.3.0-1.fc39.noarch.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.yLt0Vs
+ umask 022
+ cd /builddir/build/BUILD
+ cd gtdbtk-2.3.0
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/python-gtdbtk-2.3.0-1.fc39.x86_64
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.sbhbr4
+ umask 022
+ cd /builddir/build/BUILD
+ rm -rf gtdbtk-2.3.0 gtdbtk-2.3.0.gemspec
+ RPM_EC=0
++ jobs -p
+ exit 0
Child return code was: 0