Mock Version: 2.15 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/python-staphb-toolkit.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/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=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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', '18707bfa67bb4832872def7a682b44ce', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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;\\007"', '--setenv=PS1= \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/python-staphb-toolkit.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1640908800 Wrote: /builddir/build/SRPMS/python-staphb-toolkit-1.3.7-1.fc36.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-staphb-toolkit.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/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=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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', 'fe4ff6232ea141d9babfe1373a730526', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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;\\007"', '--setenv=PS1= \\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-staphb-toolkit.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1640908800 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.TPOy5q + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf staphb_toolkit-1.3.7 + /usr/bin/gzip -dc /builddir/build/SOURCES/staphb_toolkit-1.3.7.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + cd staphb_toolkit-1.3.7 + /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.ztXeaJ + umask 022 + cd /builddir/build/BUILD + cd staphb_toolkit-1.3.7 + 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 ']' + RPM_TOXENV=py310 + HOSTNAME=rpmbuild + /usr/bin/python3 -s /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 -r 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 + RPM_EC=0 ++ jobs -p + exit 0 Wrote: /builddir/build/SRPMS/python-staphb-toolkit-1.3.7-1.fc36.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-staphb-toolkit.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/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=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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', '2a61e1dc760945eebd2cde581fb2afac', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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;\\007"', '--setenv=PS1= \\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-staphb-toolkit.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1640908800 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.D4xdnR + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf staphb_toolkit-1.3.7 + /usr/bin/gzip -dc /builddir/build/SOURCES/staphb_toolkit-1.3.7.tar.gz + /usr/bin/tar -xof - + STATUS=0 + '[' 0 -ne 0 ']' + cd staphb_toolkit-1.3.7 + /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.W3KO82 + umask 022 + cd /builddir/build/BUILD + cd staphb_toolkit-1.3.7 + 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 ']' + RPM_TOXENV=py310 + HOSTNAME=rpmbuild + /usr/bin/python3 -s /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 -r Handling setuptools >= 40.8 from default build backend Requirement satisfied: setuptools >= 40.8 (installed: setuptools 59.6.0) Handling wheel from default build backend Requirement satisfied: wheel (installed: wheel 0.37.0) warning: no files found matching 'staphb_toolkit/requirements.txt' HOOK STDOUT: running egg_info HOOK STDOUT: writing staphb_toolkit.egg-info/PKG-INFO HOOK STDOUT: writing dependency_links to staphb_toolkit.egg-info/dependency_links.txt HOOK STDOUT: writing entry points to staphb_toolkit.egg-info/entry_points.txt HOOK STDOUT: writing requirements to staphb_toolkit.egg-info/requires.txt HOOK STDOUT: writing top-level names to staphb_toolkit.egg-info/top_level.txt HOOK STDOUT: reading manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: reading manifest template 'MANIFEST.in' HOOK STDOUT: writing manifest file 'staphb_toolkit.egg-info/SOURCES.txt' Handling wheel from get_requires_for_build_wheel Requirement satisfied: wheel (installed: wheel 0.37.0) warning: no files found matching 'staphb_toolkit/requirements.txt' HOOK STDOUT: running dist_info HOOK STDOUT: writing staphb_toolkit.egg-info/PKG-INFO HOOK STDOUT: writing dependency_links to staphb_toolkit.egg-info/dependency_links.txt HOOK STDOUT: writing entry points to staphb_toolkit.egg-info/entry_points.txt HOOK STDOUT: writing requirements to staphb_toolkit.egg-info/requires.txt HOOK STDOUT: writing top-level names to staphb_toolkit.egg-info/top_level.txt HOOK STDOUT: reading manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: reading manifest template 'MANIFEST.in' HOOK STDOUT: writing manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: creating '/builddir/build/BUILD/staphb_toolkit-1.3.7/staphb_toolkit.dist-info' Handling spython (>=0.0.73) from wheel metadata: Requires-Dist Requirement not satisfied: spython (>=0.0.73) Handling psutil (>=5.6.3) from wheel metadata: Requires-Dist Requirement not satisfied: psutil (>=5.6.3) Handling docker (>=4.1.0) from wheel metadata: Requires-Dist Requirement not satisfied: docker (>=4.1.0) Handling pexpect (>=4.8) from wheel metadata: Requires-Dist Requirement not satisfied: pexpect (>=4.8) + RPM_EC=0 ++ jobs -p + exit 0 Wrote: /builddir/build/SRPMS/python-staphb-toolkit-1.3.7-1.fc36.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-staphb-toolkit.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/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=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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', 'b085a008d84f4422ada19d52e1446c7f', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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;\\007"', '--setenv=PS1= \\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-staphb-toolkit.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1640908800 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.TBpizs + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf staphb_toolkit-1.3.7 + /usr/bin/tar -xof - + /usr/bin/gzip -dc /builddir/build/SOURCES/staphb_toolkit-1.3.7.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd staphb_toolkit-1.3.7 + /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.Mhk8Wh + umask 022 + cd /builddir/build/BUILD + cd staphb_toolkit-1.3.7 + 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 ']' + RPM_TOXENV=py310 + HOSTNAME=rpmbuild + /usr/bin/python3 -s /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 -r Handling setuptools >= 40.8 from default build backend Requirement satisfied: setuptools >= 40.8 (installed: setuptools 59.6.0) Handling wheel from default build backend Requirement satisfied: wheel (installed: wheel 0.37.0) warning: no files found matching 'staphb_toolkit/requirements.txt' HOOK STDOUT: running egg_info HOOK STDOUT: writing staphb_toolkit.egg-info/PKG-INFO HOOK STDOUT: writing dependency_links to staphb_toolkit.egg-info/dependency_links.txt HOOK STDOUT: writing entry points to staphb_toolkit.egg-info/entry_points.txt HOOK STDOUT: writing requirements to staphb_toolkit.egg-info/requires.txt HOOK STDOUT: writing top-level names to staphb_toolkit.egg-info/top_level.txt HOOK STDOUT: reading manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: reading manifest template 'MANIFEST.in' HOOK STDOUT: writing manifest file 'staphb_toolkit.egg-info/SOURCES.txt' Handling wheel from get_requires_for_build_wheel Requirement satisfied: wheel (installed: wheel 0.37.0) warning: no files found matching 'staphb_toolkit/requirements.txt' HOOK STDOUT: running dist_info HOOK STDOUT: writing staphb_toolkit.egg-info/PKG-INFO HOOK STDOUT: writing dependency_links to staphb_toolkit.egg-info/dependency_links.txt HOOK STDOUT: writing entry points to staphb_toolkit.egg-info/entry_points.txt HOOK STDOUT: writing requirements to staphb_toolkit.egg-info/requires.txt HOOK STDOUT: writing top-level names to staphb_toolkit.egg-info/top_level.txt HOOK STDOUT: reading manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: reading manifest template 'MANIFEST.in' HOOK STDOUT: writing manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: creating '/builddir/build/BUILD/staphb_toolkit-1.3.7/staphb_toolkit.dist-info' Handling spython (>=0.0.73) from wheel metadata: Requires-Dist Requirement satisfied: spython (>=0.0.73) (installed: spython 0.1.17) Handling psutil (>=5.6.3) from wheel metadata: Requires-Dist Requirement satisfied: psutil (>=5.6.3) (installed: psutil 5.8.0) Handling docker (>=4.1.0) from wheel metadata: Requires-Dist Requirement satisfied: docker (>=4.1.0) (installed: docker 5.0.3) Handling pexpect (>=4.8) from wheel metadata: Requires-Dist Requirement satisfied: pexpect (>=4.8) (installed: pexpect 4.8.0) + RPM_EC=0 ++ jobs -p + exit 0 Wrote: /builddir/build/SRPMS/python-staphb-toolkit-1.3.7-1.fc36.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-staphb-toolkit.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/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=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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', '71a035da57524109bd52035e67bd5980', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1641104268.101289/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.bgu813cc:/etc/resolv.conf', '--bind=/dev/btrfs-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;\\007"', '--setenv=PS1= \\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-staphb-toolkit.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1640908800 Executing(%generate_buildrequires): /bin/sh -e /var/tmp/rpm-tmp.UvDLbD + umask 022 + cd /builddir/build/BUILD + cd staphb_toolkit-1.3.7 + 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 staphb_toolkit.dist-info/ removed 'staphb_toolkit.dist-info/METADATA' removed 'staphb_toolkit.dist-info/entry_points.txt' removed 'staphb_toolkit.dist-info/top_level.txt' removed directory 'staphb_toolkit.dist-info/' + '[' -f /usr/bin/python3 ']' + RPM_TOXENV=py310 + HOSTNAME=rpmbuild + /usr/bin/python3 -s /usr/lib/rpm/redhat/pyproject_buildrequires.py --generate-extras --python3_pkgversion 3 -r Handling setuptools >= 40.8 from default build backend Requirement satisfied: setuptools >= 40.8 (installed: setuptools 59.6.0) Handling wheel from default build backend Requirement satisfied: wheel (installed: wheel 0.37.0) warning: no files found matching 'staphb_toolkit/requirements.txt' HOOK STDOUT: running egg_info HOOK STDOUT: creating staphb_toolkit.egg-info HOOK STDOUT: writing staphb_toolkit.egg-info/PKG-INFO HOOK STDOUT: writing dependency_links to staphb_toolkit.egg-info/dependency_links.txt HOOK STDOUT: writing entry points to staphb_toolkit.egg-info/entry_points.txt HOOK STDOUT: writing requirements to staphb_toolkit.egg-info/requires.txt HOOK STDOUT: writing top-level names to staphb_toolkit.egg-info/top_level.txt HOOK STDOUT: writing manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: reading manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: reading manifest template 'MANIFEST.in' HOOK STDOUT: writing manifest file 'staphb_toolkit.egg-info/SOURCES.txt' Handling wheel from get_requires_for_build_wheel Requirement satisfied: wheel (installed: wheel 0.37.0) warning: no files found matching 'staphb_toolkit/requirements.txt' HOOK STDOUT: running dist_info HOOK STDOUT: writing staphb_toolkit.egg-info/PKG-INFO HOOK STDOUT: writing dependency_links to staphb_toolkit.egg-info/dependency_links.txt HOOK STDOUT: writing entry points to staphb_toolkit.egg-info/entry_points.txt HOOK STDOUT: writing requirements to staphb_toolkit.egg-info/requires.txt HOOK STDOUT: writing top-level names to staphb_toolkit.egg-info/top_level.txt HOOK STDOUT: reading manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: reading manifest template 'MANIFEST.in' HOOK STDOUT: writing manifest file 'staphb_toolkit.egg-info/SOURCES.txt' HOOK STDOUT: creating '/builddir/build/BUILD/staphb_toolkit-1.3.7/staphb_toolkit.dist-info' Handling spython (>=0.0.73) from wheel metadata: Requires-Dist Requirement satisfied: spython (>=0.0.73) (installed: spython 0.1.17) Handling psutil (>=5.6.3) from wheel metadata: Requires-Dist Requirement satisfied: psutil (>=5.6.3) (installed: psutil 5.8.0) Handling docker (>=4.1.0) from wheel metadata: Requires-Dist Requirement satisfied: docker (>=4.1.0) (installed: docker 5.0.3) Handling pexpect (>=4.8) from wheel metadata: Requires-Dist Requirement satisfied: pexpect (>=4.8) (installed: pexpect 4.8.0) + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.ldq2Rg + umask 022 + cd /builddir/build/BUILD + cd staphb_toolkit-1.3.7 + mkdir -p /builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -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' + 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/staphb_toolkit-1.3.7/.pyproject-builddir + /usr/bin/python3 -m pip wheel --wheel-dir /builddir/build/BUILD/staphb_toolkit-1.3.7/pyproject-wheeldir --no-deps --use-pep517 --no-build-isolation --disable-pip-version-check --no-clean --progress-bar off --verbose . Processing /builddir/build/BUILD/staphb_toolkit-1.3.7 Preparing metadata (pyproject.toml): started Running command /usr/bin/python3 /usr/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py prepare_metadata_for_build_wheel /builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/tmp2smxmal9 running dist_info creating /builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.egg-info writing /builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.egg-info/PKG-INFO writing dependency_links to /builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.egg-info/dependency_links.txt writing entry points to /builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.egg-info/entry_points.txt writing requirements to /builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.egg-info/requires.txt writing top-level names to /builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.egg-info/top_level.txt writing manifest file '/builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.egg-info/SOURCES.txt' reading manifest file '/builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'staphb_toolkit/requirements.txt' writing manifest file '/builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.egg-info/SOURCES.txt' creating '/builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-modern-metadata-nwlut6pm/staphb_toolkit.dist-info' Preparing metadata (pyproject.toml): finished with status 'done' Building wheels for collected packages: staphb-toolkit Building wheel for staphb-toolkit (pyproject.toml): started Running command /usr/bin/python3 /usr/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py build_wheel /builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/tmp3i7k9cvq running bdist_wheel running build running build_py creating build creating build/lib creating build/lib/staphb_toolkit copying staphb_toolkit/toolkit_workflows.py -> build/lib/staphb_toolkit copying staphb_toolkit/toolkit_apps.py -> build/lib/staphb_toolkit copying staphb_toolkit/__init__.py -> build/lib/staphb_toolkit creating build/lib/staphb_toolkit/workflows copying staphb_toolkit/workflows/__init__.py -> build/lib/staphb_toolkit/workflows creating build/lib/staphb_toolkit/core copying staphb_toolkit/core/wdl_fastq_input.py -> build/lib/staphb_toolkit/core copying staphb_toolkit/core/update_app.py -> build/lib/staphb_toolkit/core copying staphb_toolkit/core/sb_programs.py -> build/lib/staphb_toolkit/core copying staphb_toolkit/core/fileparser.py -> build/lib/staphb_toolkit/core copying staphb_toolkit/core/callsing.py -> build/lib/staphb_toolkit/core copying staphb_toolkit/core/calldocker.py -> build/lib/staphb_toolkit/core copying staphb_toolkit/core/basemount.py -> build/lib/staphb_toolkit/core copying staphb_toolkit/core/autopath.py -> build/lib/staphb_toolkit/core copying staphb_toolkit/core/__init__.py -> build/lib/staphb_toolkit/core creating build/lib/staphb_toolkit/apps copying staphb_toolkit/apps/sb_mash_species.py -> build/lib/staphb_toolkit/apps copying staphb_toolkit/apps/__init__.py -> build/lib/staphb_toolkit/apps running egg_info creating staphb_toolkit.egg-info writing staphb_toolkit.egg-info/PKG-INFO writing dependency_links to staphb_toolkit.egg-info/dependency_links.txt writing entry points to staphb_toolkit.egg-info/entry_points.txt writing requirements to staphb_toolkit.egg-info/requires.txt writing top-level names to staphb_toolkit.egg-info/top_level.txt writing manifest file 'staphb_toolkit.egg-info/SOURCES.txt' reading manifest file 'staphb_toolkit.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'staphb_toolkit/requirements.txt' writing manifest file 'staphb_toolkit.egg-info/SOURCES.txt' creating build/lib/staphb_toolkit/lib copying staphb_toolkit/lib/nextflow -> build/lib/staphb_toolkit/lib copying staphb_toolkit/workflows/universal_config_template.config -> build/lib/staphb_toolkit/workflows creating build/lib/staphb_toolkit/workflows/tredegar copying staphb_toolkit/workflows/tredegar/tredegar.nf -> build/lib/staphb_toolkit/workflows/tredegar copying staphb_toolkit/workflows/tredegar/tredegar.config -> build/lib/staphb_toolkit/workflows/tredegar copying staphb_toolkit/workflows/tredegar/nextflow.config -> build/lib/staphb_toolkit/workflows/tredegar creating build/lib/staphb_toolkit/workflows/tredegar/configs copying staphb_toolkit/workflows/tredegar/configs/tredegar_config_template.config -> build/lib/staphb_toolkit/workflows/tredegar/configs copying staphb_toolkit/workflows/tredegar/configs/singularity.config -> build/lib/staphb_toolkit/workflows/tredegar/configs copying staphb_toolkit/workflows/tredegar/configs/docker_containers.config -> build/lib/staphb_toolkit/workflows/tredegar/configs copying staphb_toolkit/workflows/tredegar/configs/docker.config -> build/lib/staphb_toolkit/workflows/tredegar/configs copying staphb_toolkit/workflows/tredegar/configs/aws_batch.config -> build/lib/staphb_toolkit/workflows/tredegar/configs creating build/lib/staphb_toolkit/workflows/monroe copying staphb_toolkit/workflows/monroe/nextflow.config -> build/lib/staphb_toolkit/workflows/monroe copying staphb_toolkit/workflows/monroe/monroe_se_assembly.nf -> build/lib/staphb_toolkit/workflows/monroe copying staphb_toolkit/workflows/monroe/monroe_pe_assembly.nf -> build/lib/staphb_toolkit/workflows/monroe copying staphb_toolkit/workflows/monroe/monroe_ont_assembly.nf -> build/lib/staphb_toolkit/workflows/monroe copying staphb_toolkit/workflows/monroe/monroe_cluster_analysis.nf -> build/lib/staphb_toolkit/workflows/monroe copying staphb_toolkit/workflows/monroe/monroe_clearlabs_assembly.nf -> build/lib/staphb_toolkit/workflows/monroe copying staphb_toolkit/workflows/monroe/monroe.config -> build/lib/staphb_toolkit/workflows/monroe creating build/lib/staphb_toolkit/workflows/monroe/report copying staphb_toolkit/workflows/monroe/report/report.Rmd -> build/lib/staphb_toolkit/workflows/monroe/report creating build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/singularity.config -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/se_user_config.config -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/pe_user_config.config -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/ont_user_config.config -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/docker_containers.config -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/docker.config -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/cluster_user_config.config -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/clearlabs_user_config.config -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/artic_V3_nCoV-2019.bed -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/artic_V2_nCoV-2019.bed -> build/lib/staphb_toolkit/workflows/monroe/configs copying staphb_toolkit/workflows/monroe/configs/artic_V1_nCoV-2019.bed -> build/lib/staphb_toolkit/workflows/monroe/configs creating build/lib/staphb_toolkit/workflows/hickory copying staphb_toolkit/workflows/hickory/nextflow.config -> build/lib/staphb_toolkit/workflows/hickory copying staphb_toolkit/workflows/hickory/hickory.nf -> build/lib/staphb_toolkit/workflows/hickory copying staphb_toolkit/workflows/hickory/hickory.config -> build/lib/staphb_toolkit/workflows/hickory creating build/lib/staphb_toolkit/workflows/hickory/configs copying staphb_toolkit/workflows/hickory/configs/singularity.config -> build/lib/staphb_toolkit/workflows/hickory/configs copying staphb_toolkit/workflows/hickory/configs/hickory_config_template.config -> build/lib/staphb_toolkit/workflows/hickory/configs copying staphb_toolkit/workflows/hickory/configs/docker_containers.config -> build/lib/staphb_toolkit/workflows/hickory/configs copying staphb_toolkit/workflows/hickory/configs/docker.config -> build/lib/staphb_toolkit/workflows/hickory/configs copying staphb_toolkit/workflows/hickory/configs/aws_batch.config -> build/lib/staphb_toolkit/workflows/hickory/configs creating build/lib/staphb_toolkit/workflows/foushee copying staphb_toolkit/workflows/foushee/nextflow.config -> build/lib/staphb_toolkit/workflows/foushee copying staphb_toolkit/workflows/foushee/foushee.nf -> build/lib/staphb_toolkit/workflows/foushee copying staphb_toolkit/workflows/foushee/foushee.config -> build/lib/staphb_toolkit/workflows/foushee creating build/lib/staphb_toolkit/workflows/foushee/report copying staphb_toolkit/workflows/foushee/report/report.Rmd -> build/lib/staphb_toolkit/workflows/foushee/report creating build/lib/staphb_toolkit/workflows/foushee/configs copying staphb_toolkit/workflows/foushee/configs/singularity.config -> build/lib/staphb_toolkit/workflows/foushee/configs copying staphb_toolkit/workflows/foushee/configs/foushee_config_template.config -> build/lib/staphb_toolkit/workflows/foushee/configs copying staphb_toolkit/workflows/foushee/configs/docker_containers.config -> build/lib/staphb_toolkit/workflows/foushee/configs copying staphb_toolkit/workflows/foushee/configs/docker.config -> build/lib/staphb_toolkit/workflows/foushee/configs copying staphb_toolkit/workflows/foushee/configs/aws_batch.config -> build/lib/staphb_toolkit/workflows/foushee/configs creating build/lib/staphb_toolkit/workflows/dryad copying staphb_toolkit/workflows/dryad/rebuild_report.nf -> build/lib/staphb_toolkit/workflows/dryad copying staphb_toolkit/workflows/dryad/nextflow.config -> build/lib/staphb_toolkit/workflows/dryad copying staphb_toolkit/workflows/dryad/dryad_report.py -> build/lib/staphb_toolkit/workflows/dryad copying staphb_toolkit/workflows/dryad/dryad.py -> build/lib/staphb_toolkit/workflows/dryad copying staphb_toolkit/workflows/dryad/dryad.nf -> build/lib/staphb_toolkit/workflows/dryad copying staphb_toolkit/workflows/dryad/dryad.config -> build/lib/staphb_toolkit/workflows/dryad creating build/lib/staphb_toolkit/workflows/dryad/report copying staphb_toolkit/workflows/dryad/report/report.Rmd -> build/lib/staphb_toolkit/workflows/dryad/report creating build/lib/staphb_toolkit/workflows/dryad/configs copying staphb_toolkit/workflows/dryad/configs/singularity.config -> build/lib/staphb_toolkit/workflows/dryad/configs copying staphb_toolkit/workflows/dryad/configs/multiqc_config.yaml -> build/lib/staphb_toolkit/workflows/dryad/configs copying staphb_toolkit/workflows/dryad/configs/dryad_config_template.config -> build/lib/staphb_toolkit/workflows/dryad/configs copying staphb_toolkit/workflows/dryad/configs/docker_containers.config -> build/lib/staphb_toolkit/workflows/dryad/configs copying staphb_toolkit/workflows/dryad/configs/docker.config -> build/lib/staphb_toolkit/workflows/dryad/configs creating build/lib/staphb_toolkit/workflows/dryad/assets copying staphb_toolkit/workflows/dryad/assets/dryad_logo_500.png -> build/lib/staphb_toolkit/workflows/dryad/assets copying staphb_toolkit/workflows/dryad/assets/dryad_logo_250.png -> build/lib/staphb_toolkit/workflows/dryad/assets creating build/lib/staphb_toolkit/workflows/cutshaw copying staphb_toolkit/workflows/cutshaw/nextflow.config -> build/lib/staphb_toolkit/workflows/cutshaw copying staphb_toolkit/workflows/cutshaw/cutshaw.nf -> build/lib/staphb_toolkit/workflows/cutshaw copying staphb_toolkit/workflows/cutshaw/cutshaw.config -> build/lib/staphb_toolkit/workflows/cutshaw creating build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes copying staphb_toolkit/workflows/cutshaw/pt_genomes/reference_list.txt -> build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes copying staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-H9654.fasta -> build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes copying staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-8729.fasta -> build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes copying staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-6199.fasta -> build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes copying staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-0432.fasta -> build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes copying staphb_toolkit/workflows/cutshaw/pt_genomes/LMP18-H8393.fasta -> build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes copying staphb_toolkit/workflows/cutshaw/pt_genomes/LMP18-H2446.fasta -> build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes creating build/lib/staphb_toolkit/workflows/cutshaw/configs copying staphb_toolkit/workflows/cutshaw/configs/singularity.config -> build/lib/staphb_toolkit/workflows/cutshaw/configs copying staphb_toolkit/workflows/cutshaw/configs/docker_containers.config -> build/lib/staphb_toolkit/workflows/cutshaw/configs copying staphb_toolkit/workflows/cutshaw/configs/docker.config -> build/lib/staphb_toolkit/workflows/cutshaw/configs copying staphb_toolkit/workflows/cutshaw/configs/cutshaw_config_template.config -> build/lib/staphb_toolkit/workflows/cutshaw/configs creating build/lib/staphb_toolkit/workflows/cecret copying staphb_toolkit/workflows/cecret/nextflow.config -> build/lib/staphb_toolkit/workflows/cecret copying staphb_toolkit/workflows/cecret/cecret.nf -> build/lib/staphb_toolkit/workflows/cecret copying staphb_toolkit/workflows/cecret/cecret.config -> build/lib/staphb_toolkit/workflows/cecret copying staphb_toolkit/workflows/cecret/README.md -> build/lib/staphb_toolkit/workflows/cecret creating build/lib/staphb_toolkit/workflows/cecret/configs copying staphb_toolkit/workflows/cecret/configs/singularity.config -> build/lib/staphb_toolkit/workflows/cecret/configs copying staphb_toolkit/workflows/cecret/configs/nCoV-2019.insert.bed -> build/lib/staphb_toolkit/workflows/cecret/configs copying staphb_toolkit/workflows/cecret/configs/docker_containers.config -> build/lib/staphb_toolkit/workflows/cecret/configs copying staphb_toolkit/workflows/cecret/configs/docker.config -> build/lib/staphb_toolkit/workflows/cecret/configs copying staphb_toolkit/workflows/cecret/configs/cecret_config_template.config -> build/lib/staphb_toolkit/workflows/cecret/configs copying staphb_toolkit/workflows/cecret/configs/artic_V3_nCoV-2019.bed -> build/lib/staphb_toolkit/workflows/cecret/configs copying staphb_toolkit/workflows/cecret/configs/MN908947.3.gff -> build/lib/staphb_toolkit/workflows/cecret/configs copying staphb_toolkit/workflows/cecret/configs/MN908947.3.fasta -> build/lib/staphb_toolkit/workflows/cecret/configs creating build/lib/staphb_toolkit/workflows/cecret/bin copying staphb_toolkit/workflows/cecret/bin/genbank_submission.sh -> build/lib/staphb_toolkit/workflows/cecret/bin copying staphb_toolkit/core/docker_config.json -> build/lib/staphb_toolkit/core copying staphb_toolkit/core/VERSION -> build/lib/staphb_toolkit/core 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/staphb_toolkit creating build/bdist.linux-x86_64/wheel/staphb_toolkit/lib copying build/lib/staphb_toolkit/lib/nextflow -> build/bdist.linux-x86_64/wheel/staphb_toolkit/lib creating build/bdist.linux-x86_64/wheel/staphb_toolkit/apps copying build/lib/staphb_toolkit/apps/__init__.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/apps copying build/lib/staphb_toolkit/apps/sb_mash_species.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/apps creating build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/VERSION -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/docker_config.json -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/__init__.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/autopath.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/basemount.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/calldocker.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/callsing.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/fileparser.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/sb_programs.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/update_app.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core copying build/lib/staphb_toolkit/core/wdl_fastq_input.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/core creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/bin copying build/lib/staphb_toolkit/workflows/cecret/bin/genbank_submission.sh -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/bin creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/configs copying build/lib/staphb_toolkit/workflows/cecret/configs/MN908947.3.fasta -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/configs copying build/lib/staphb_toolkit/workflows/cecret/configs/MN908947.3.gff -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/configs copying build/lib/staphb_toolkit/workflows/cecret/configs/artic_V3_nCoV-2019.bed -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/configs copying build/lib/staphb_toolkit/workflows/cecret/configs/cecret_config_template.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/configs copying build/lib/staphb_toolkit/workflows/cecret/configs/docker.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/configs copying build/lib/staphb_toolkit/workflows/cecret/configs/docker_containers.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/configs copying build/lib/staphb_toolkit/workflows/cecret/configs/nCoV-2019.insert.bed -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/configs copying build/lib/staphb_toolkit/workflows/cecret/configs/singularity.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret/configs copying build/lib/staphb_toolkit/workflows/cecret/README.md -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret copying build/lib/staphb_toolkit/workflows/cecret/cecret.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret copying build/lib/staphb_toolkit/workflows/cecret/cecret.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret copying build/lib/staphb_toolkit/workflows/cecret/nextflow.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cecret creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/configs copying build/lib/staphb_toolkit/workflows/cutshaw/configs/cutshaw_config_template.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/configs copying build/lib/staphb_toolkit/workflows/cutshaw/configs/docker.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/configs copying build/lib/staphb_toolkit/workflows/cutshaw/configs/docker_containers.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/configs copying build/lib/staphb_toolkit/workflows/cutshaw/configs/singularity.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/configs creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/pt_genomes copying build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes/LMP18-H2446.fasta -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/pt_genomes copying build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes/LMP18-H8393.fasta -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/pt_genomes copying build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-0432.fasta -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/pt_genomes copying build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-6199.fasta -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/pt_genomes copying build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-8729.fasta -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/pt_genomes copying build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-H9654.fasta -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/pt_genomes copying build/lib/staphb_toolkit/workflows/cutshaw/pt_genomes/reference_list.txt -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw/pt_genomes copying build/lib/staphb_toolkit/workflows/cutshaw/cutshaw.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw copying build/lib/staphb_toolkit/workflows/cutshaw/cutshaw.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw copying build/lib/staphb_toolkit/workflows/cutshaw/nextflow.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/cutshaw creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/assets copying build/lib/staphb_toolkit/workflows/dryad/assets/dryad_logo_250.png -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/assets copying build/lib/staphb_toolkit/workflows/dryad/assets/dryad_logo_500.png -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/assets creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/configs copying build/lib/staphb_toolkit/workflows/dryad/configs/docker.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/configs copying build/lib/staphb_toolkit/workflows/dryad/configs/docker_containers.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/configs copying build/lib/staphb_toolkit/workflows/dryad/configs/dryad_config_template.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/configs copying build/lib/staphb_toolkit/workflows/dryad/configs/multiqc_config.yaml -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/configs copying build/lib/staphb_toolkit/workflows/dryad/configs/singularity.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/configs creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/report copying build/lib/staphb_toolkit/workflows/dryad/report/report.Rmd -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad/report copying build/lib/staphb_toolkit/workflows/dryad/dryad.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad copying build/lib/staphb_toolkit/workflows/dryad/dryad.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad copying build/lib/staphb_toolkit/workflows/dryad/dryad.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad copying build/lib/staphb_toolkit/workflows/dryad/dryad_report.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad copying build/lib/staphb_toolkit/workflows/dryad/nextflow.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad copying build/lib/staphb_toolkit/workflows/dryad/rebuild_report.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/dryad creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee/configs copying build/lib/staphb_toolkit/workflows/foushee/configs/aws_batch.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee/configs copying build/lib/staphb_toolkit/workflows/foushee/configs/docker.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee/configs copying build/lib/staphb_toolkit/workflows/foushee/configs/docker_containers.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee/configs copying build/lib/staphb_toolkit/workflows/foushee/configs/foushee_config_template.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee/configs copying build/lib/staphb_toolkit/workflows/foushee/configs/singularity.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee/configs creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee/report copying build/lib/staphb_toolkit/workflows/foushee/report/report.Rmd -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee/report copying build/lib/staphb_toolkit/workflows/foushee/foushee.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee copying build/lib/staphb_toolkit/workflows/foushee/foushee.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee copying build/lib/staphb_toolkit/workflows/foushee/nextflow.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/foushee creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory/configs copying build/lib/staphb_toolkit/workflows/hickory/configs/aws_batch.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory/configs copying build/lib/staphb_toolkit/workflows/hickory/configs/docker.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory/configs copying build/lib/staphb_toolkit/workflows/hickory/configs/docker_containers.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory/configs copying build/lib/staphb_toolkit/workflows/hickory/configs/hickory_config_template.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory/configs copying build/lib/staphb_toolkit/workflows/hickory/configs/singularity.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory/configs copying build/lib/staphb_toolkit/workflows/hickory/hickory.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory copying build/lib/staphb_toolkit/workflows/hickory/hickory.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory copying build/lib/staphb_toolkit/workflows/hickory/nextflow.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/hickory creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/artic_V1_nCoV-2019.bed -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/artic_V2_nCoV-2019.bed -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/artic_V3_nCoV-2019.bed -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/clearlabs_user_config.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/cluster_user_config.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/docker.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/docker_containers.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/ont_user_config.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/pe_user_config.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/se_user_config.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs copying build/lib/staphb_toolkit/workflows/monroe/configs/singularity.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/configs creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/report copying build/lib/staphb_toolkit/workflows/monroe/report/report.Rmd -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe/report copying build/lib/staphb_toolkit/workflows/monroe/monroe.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe copying build/lib/staphb_toolkit/workflows/monroe/monroe_clearlabs_assembly.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe copying build/lib/staphb_toolkit/workflows/monroe/monroe_cluster_analysis.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe copying build/lib/staphb_toolkit/workflows/monroe/monroe_ont_assembly.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe copying build/lib/staphb_toolkit/workflows/monroe/monroe_pe_assembly.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe copying build/lib/staphb_toolkit/workflows/monroe/monroe_se_assembly.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe copying build/lib/staphb_toolkit/workflows/monroe/nextflow.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/monroe creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar creating build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar/configs copying build/lib/staphb_toolkit/workflows/tredegar/configs/aws_batch.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar/configs copying build/lib/staphb_toolkit/workflows/tredegar/configs/docker.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar/configs copying build/lib/staphb_toolkit/workflows/tredegar/configs/docker_containers.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar/configs copying build/lib/staphb_toolkit/workflows/tredegar/configs/singularity.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar/configs copying build/lib/staphb_toolkit/workflows/tredegar/configs/tredegar_config_template.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar/configs copying build/lib/staphb_toolkit/workflows/tredegar/nextflow.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar copying build/lib/staphb_toolkit/workflows/tredegar/tredegar.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar copying build/lib/staphb_toolkit/workflows/tredegar/tredegar.nf -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows/tredegar copying build/lib/staphb_toolkit/workflows/universal_config_template.config -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows copying build/lib/staphb_toolkit/workflows/__init__.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit/workflows copying build/lib/staphb_toolkit/__init__.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit copying build/lib/staphb_toolkit/toolkit_apps.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit copying build/lib/staphb_toolkit/toolkit_workflows.py -> build/bdist.linux-x86_64/wheel/staphb_toolkit running install_egg_info Copying staphb_toolkit.egg-info to build/bdist.linux-x86_64/wheel/staphb_toolkit-1.3.7-py3.10.egg-info running install_scripts creating build/bdist.linux-x86_64/wheel/staphb_toolkit-1.3.7.dist-info/WHEEL creating '/builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir/pip-wheel-urutp322/tmp8v3cis03/staphb_toolkit-1.3.7-py3-none-any.whl' and adding 'build/bdist.linux-x86_64/wheel' to it adding 'staphb_toolkit/__init__.py' adding 'staphb_toolkit/toolkit_apps.py' adding 'staphb_toolkit/toolkit_workflows.py' adding 'staphb_toolkit/apps/__init__.py' adding 'staphb_toolkit/apps/sb_mash_species.py' adding 'staphb_toolkit/core/VERSION' adding 'staphb_toolkit/core/__init__.py' adding 'staphb_toolkit/core/autopath.py' adding 'staphb_toolkit/core/basemount.py' adding 'staphb_toolkit/core/calldocker.py' adding 'staphb_toolkit/core/callsing.py' adding 'staphb_toolkit/core/docker_config.json' adding 'staphb_toolkit/core/fileparser.py' adding 'staphb_toolkit/core/sb_programs.py' adding 'staphb_toolkit/core/update_app.py' adding 'staphb_toolkit/core/wdl_fastq_input.py' adding 'staphb_toolkit/lib/nextflow' adding 'staphb_toolkit/workflows/__init__.py' adding 'staphb_toolkit/workflows/universal_config_template.config' adding 'staphb_toolkit/workflows/cecret/README.md' adding 'staphb_toolkit/workflows/cecret/cecret.config' adding 'staphb_toolkit/workflows/cecret/cecret.nf' adding 'staphb_toolkit/workflows/cecret/nextflow.config' adding 'staphb_toolkit/workflows/cecret/bin/genbank_submission.sh' adding 'staphb_toolkit/workflows/cecret/configs/MN908947.3.fasta' adding 'staphb_toolkit/workflows/cecret/configs/MN908947.3.gff' adding 'staphb_toolkit/workflows/cecret/configs/artic_V3_nCoV-2019.bed' adding 'staphb_toolkit/workflows/cecret/configs/cecret_config_template.config' adding 'staphb_toolkit/workflows/cecret/configs/docker.config' adding 'staphb_toolkit/workflows/cecret/configs/docker_containers.config' adding 'staphb_toolkit/workflows/cecret/configs/nCoV-2019.insert.bed' adding 'staphb_toolkit/workflows/cecret/configs/singularity.config' adding 'staphb_toolkit/workflows/cutshaw/cutshaw.config' adding 'staphb_toolkit/workflows/cutshaw/cutshaw.nf' adding 'staphb_toolkit/workflows/cutshaw/nextflow.config' adding 'staphb_toolkit/workflows/cutshaw/configs/cutshaw_config_template.config' adding 'staphb_toolkit/workflows/cutshaw/configs/docker.config' adding 'staphb_toolkit/workflows/cutshaw/configs/docker_containers.config' adding 'staphb_toolkit/workflows/cutshaw/configs/singularity.config' adding 'staphb_toolkit/workflows/cutshaw/pt_genomes/LMP18-H2446.fasta' adding 'staphb_toolkit/workflows/cutshaw/pt_genomes/LMP18-H8393.fasta' adding 'staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-0432.fasta' adding 'staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-6199.fasta' adding 'staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-8729.fasta' adding 'staphb_toolkit/workflows/cutshaw/pt_genomes/SAP18-H9654.fasta' adding 'staphb_toolkit/workflows/cutshaw/pt_genomes/reference_list.txt' adding 'staphb_toolkit/workflows/dryad/dryad.config' adding 'staphb_toolkit/workflows/dryad/dryad.nf' adding 'staphb_toolkit/workflows/dryad/dryad.py' adding 'staphb_toolkit/workflows/dryad/dryad_report.py' adding 'staphb_toolkit/workflows/dryad/nextflow.config' adding 'staphb_toolkit/workflows/dryad/rebuild_report.nf' adding 'staphb_toolkit/workflows/dryad/assets/dryad_logo_250.png' adding 'staphb_toolkit/workflows/dryad/assets/dryad_logo_500.png' adding 'staphb_toolkit/workflows/dryad/configs/docker.config' adding 'staphb_toolkit/workflows/dryad/configs/docker_containers.config' adding 'staphb_toolkit/workflows/dryad/configs/dryad_config_template.config' adding 'staphb_toolkit/workflows/dryad/configs/multiqc_config.yaml' adding 'staphb_toolkit/workflows/dryad/configs/singularity.config' adding 'staphb_toolkit/workflows/dryad/report/report.Rmd' adding 'staphb_toolkit/workflows/foushee/foushee.config' adding 'staphb_toolkit/workflows/foushee/foushee.nf' adding 'staphb_toolkit/workflows/foushee/nextflow.config' adding 'staphb_toolkit/workflows/foushee/configs/aws_batch.config' adding 'staphb_toolkit/workflows/foushee/configs/docker.config' adding 'staphb_toolkit/workflows/foushee/configs/docker_containers.config' adding 'staphb_toolkit/workflows/foushee/configs/foushee_config_template.config' adding 'staphb_toolkit/workflows/foushee/configs/singularity.config' adding 'staphb_toolkit/workflows/foushee/report/report.Rmd' adding 'staphb_toolkit/workflows/hickory/hickory.config' adding 'staphb_toolkit/workflows/hickory/hickory.nf' adding 'staphb_toolkit/workflows/hickory/nextflow.config' adding 'staphb_toolkit/workflows/hickory/configs/aws_batch.config' adding 'staphb_toolkit/workflows/hickory/configs/docker.config' adding 'staphb_toolkit/workflows/hickory/configs/docker_containers.config' adding 'staphb_toolkit/workflows/hickory/configs/hickory_config_template.config' adding 'staphb_toolkit/workflows/hickory/configs/singularity.config' adding 'staphb_toolkit/workflows/monroe/monroe.config' adding 'staphb_toolkit/workflows/monroe/monroe_clearlabs_assembly.nf' adding 'staphb_toolkit/workflows/monroe/monroe_cluster_analysis.nf' adding 'staphb_toolkit/workflows/monroe/monroe_ont_assembly.nf' adding 'staphb_toolkit/workflows/monroe/monroe_pe_assembly.nf' adding 'staphb_toolkit/workflows/monroe/monroe_se_assembly.nf' adding 'staphb_toolkit/workflows/monroe/nextflow.config' adding 'staphb_toolkit/workflows/monroe/configs/artic_V1_nCoV-2019.bed' adding 'staphb_toolkit/workflows/monroe/configs/artic_V2_nCoV-2019.bed' adding 'staphb_toolkit/workflows/monroe/configs/artic_V3_nCoV-2019.bed' adding 'staphb_toolkit/workflows/monroe/configs/clearlabs_user_config.config' adding 'staphb_toolkit/workflows/monroe/configs/cluster_user_config.config' adding 'staphb_toolkit/workflows/monroe/configs/docker.config' adding 'staphb_toolkit/workflows/monroe/configs/docker_containers.config' adding 'staphb_toolkit/workflows/monroe/configs/ont_user_config.config' adding 'staphb_toolkit/workflows/monroe/configs/pe_user_config.config' adding 'staphb_toolkit/workflows/monroe/configs/se_user_config.config' adding 'staphb_toolkit/workflows/monroe/configs/singularity.config' adding 'staphb_toolkit/workflows/monroe/report/report.Rmd' adding 'staphb_toolkit/workflows/tredegar/nextflow.config' adding 'staphb_toolkit/workflows/tredegar/tredegar.config' adding 'staphb_toolkit/workflows/tredegar/tredegar.nf' adding 'staphb_toolkit/workflows/tredegar/configs/aws_batch.config' adding 'staphb_toolkit/workflows/tredegar/configs/docker.config' adding 'staphb_toolkit/workflows/tredegar/configs/docker_containers.config' adding 'staphb_toolkit/workflows/tredegar/configs/singularity.config' adding 'staphb_toolkit/workflows/tredegar/configs/tredegar_config_template.config' adding 'staphb_toolkit-1.3.7.dist-info/METADATA' adding 'staphb_toolkit-1.3.7.dist-info/WHEEL' adding 'staphb_toolkit-1.3.7.dist-info/entry_points.txt' adding 'staphb_toolkit-1.3.7.dist-info/top_level.txt' adding 'staphb_toolkit-1.3.7.dist-info/RECORD' removing build/bdist.linux-x86_64/wheel Building wheel for staphb-toolkit (pyproject.toml): finished with status 'done' Created wheel for staphb-toolkit: filename=staphb_toolkit-1.3.7-py3-none-any.whl size=7970249 sha256=f01462cc156cc53c9f3efe4f2dd95cba23cc349c7f30d4e1011956970e5601fd Stored in directory: /builddir/.cache/pip/wheels/66/a2/26/670eedeeb974d5a02c492c0d07c4d7889af3b05ba007363464 Successfully built staphb-toolkit + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.x4Ta8V + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64 ++ dirname /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64 + cd staphb_toolkit-1.3.7 ++ ls /builddir/build/BUILD/staphb_toolkit-1.3.7/pyproject-wheeldir/staphb_toolkit-1.3.7-py3-none-any.whl ++ sed -E 's/([^-]+)-([^-]+)-.+\.whl/\1==\2/' ++ xargs basename --multiple + specifier=staphb_toolkit==1.3.7 + TMPDIR=/builddir/build/BUILD/staphb_toolkit-1.3.7/.pyproject-builddir + /usr/bin/python3 -m pip install --root /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64 --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/staphb_toolkit-1.3.7/pyproject-wheeldir staphb_toolkit==1.3.7 Using pip 21.3.1 from /usr/lib/python3.10/site-packages/pip (python 3.10) Looking in links: /builddir/build/BUILD/staphb_toolkit-1.3.7/pyproject-wheeldir Processing ./pyproject-wheeldir/staphb_toolkit-1.3.7-py3-none-any.whl Installing collected packages: staphb-toolkit Creating /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin changing mode of /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin/staphb-tk to 755 changing mode of /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin/staphb-wf to 755 Successfully installed staphb-toolkit-1.3.7 + '[' -d /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin ']' + '[' -f /usr/bin/pathfix3.10.py ']' + pathfix=/usr/bin/pathfix3.10.py + '[' -z s ']' + shebang_flags=-kas + /usr/bin/pathfix3.10.py -pni /usr/bin/python3 -kas /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin/staphb-tk /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin/staphb-wf /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin/staphb-tk: updating /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin/staphb-wf: updating + rm -rfv /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin/__pycache__ + rm -f /builddir/build/BUILD/pyproject-ghost-distinfo + site_dirs=() + '[' -d /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages ']' + site_dirs+=("/usr/lib/python3.10/site-packages") + '[' /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib64/python3.10/site-packages '!=' /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages ']' + '[' -d /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib64/python3.10/site-packages ']' + for site_dir in ${site_dirs[@]} + for distinfo in /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64$site_dir/*.dist-info + echo '%ghost /usr/lib/python3.10/site-packages/staphb_toolkit-1.3.7.dist-info' + sed -i s/pip/rpm/ /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages/staphb_toolkit-1.3.7.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-staphb-toolkit-1.3.7-1.fc36.x86_64 --record /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages/staphb_toolkit-1.3.7.dist-info/RECORD --output /builddir/build/BUILD/pyproject-record + rm -fv /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages/staphb_toolkit-1.3.7.dist-info/RECORD removed '/builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages/staphb_toolkit-1.3.7.dist-info/RECORD' + rm -fv /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages/staphb_toolkit-1.3.7.dist-info/REQUESTED removed '/builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages/staphb_toolkit-1.3.7.dist-info/REQUESTED' ++ wc -l /builddir/build/BUILD/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/pyproject-files --output-modules /builddir/build/BUILD/pyproject-modules --buildroot /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64 --sitelib /usr/lib/python3.10/site-packages --sitearch /usr/lib64/python3.10/site-packages --python-version 3.10 --pyproject-record /builddir/build/BUILD/pyproject-record '*' +auto + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 1.3.7-1.fc36 --unique-debug-suffix -1.3.7-1.fc36.x86_64 --unique-debug-src-base python-staphb-toolkit-1.3.7-1.fc36.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/staphb_toolkit-1.3.7 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 mangling shebang in /usr/lib/python3.10/site-packages/staphb_toolkit/workflows/tredegar/tredegar.nf from /usr/bin/env nextflow to #!/usr/bin/nextflow mangling shebang in /usr/lib/python3.10/site-packages/staphb_toolkit/workflows/hickory/hickory.nf from /usr/bin/env nextflow to #!/usr/bin/nextflow mangling shebang in /usr/lib/python3.10/site-packages/staphb_toolkit/workflows/dryad/dryad.py from /usr/bin/env python3 to #!/usr/bin/python3 mangling shebang in /usr/lib/python3.10/site-packages/staphb_toolkit/workflows/dryad/dryad.nf from /usr/bin/env nextflow to #!/usr/bin/nextflow mangling shebang in /usr/lib/python3.10/site-packages/staphb_toolkit/lib/nextflow from /usr/bin/env bash to #!/usr/bin/bash + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 Bytecompiling .py files below /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10 using python3.10 + /usr/lib/rpm/redhat/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.SVqUIm + umask 022 + cd /builddir/build/BUILD + cd staphb_toolkit-1.3.7 + '[' '!' -f /builddir/build/BUILD/pyproject-modules ']' + PATH=/builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/bin:/builddir/.local/bin:/builddir/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin + PYTHONPATH=/builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib64/python3.10/site-packages:/builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages + _PYTHONSITE=/builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib64/python3.10/site-packages:/builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64/usr/lib/python3.10/site-packages + PYTHONDONTWRITEBYTECODE=1 + /usr/bin/python3 -s /usr/lib/rpm/redhat/import_all_modules.py -f /builddir/build/BUILD/pyproject-modules -t Check import: staphb_toolkit + RPM_EC=0 ++ jobs -p + exit 0 Processing files: python3-staphb-toolkit-1.3.7-1.fc36.noarch Provides: python-staphb-toolkit = 1.3.7-1.fc36 python3-staphb-toolkit = 1.3.7-1.fc36 python3.10-staphb-toolkit = 1.3.7-1.fc36 python3.10dist(staphb-toolkit) = 1.3.7 python3dist(staphb-toolkit) = 1.3.7 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/bash /usr/bin/nextflow /usr/bin/python3 python(abi) = 3.10 python3.10dist(docker) >= 4.1 python3.10dist(pexpect) >= 4.8 python3.10dist(psutil) >= 5.6.3 python3.10dist(spython) >= 0.0.73 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64 Wrote: /builddir/build/SRPMS/python-staphb-toolkit-1.3.7-1.fc36.src.rpm Wrote: /builddir/build/RPMS/python3-staphb-toolkit-1.3.7-1.fc36.noarch.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.oUeboY + umask 022 + cd /builddir/build/BUILD + cd staphb_toolkit-1.3.7 + /usr/bin/rm -rf /builddir/build/BUILDROOT/python-staphb-toolkit-1.3.7-1.fc36.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Child return code was: 0