Mock Version: 3.5
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs  --target x86_64 --nodeps /builddir/build/SPECS/python-trisicell.spec'], chrootPath='/var/lib/mock/openeuler-22.03-x86_64-1683314038.820483/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 0x7f2bd5624890>timeout=0uid=1000gid=135user='mockbuild'nspawn_args=[]unshare_net=FalseprintOutput=True)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs  --target x86_64 --nodeps /builddir/build/SPECS/python-trisicell.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'} and shell False
/etc/profile.d/system-info.sh: line 55: ps: command not found
Building target platforms: x86_64
Building for target x86_64
Wrote: /builddir/build/SRPMS/python-trisicell-0.2.1-1.src.rpm
Child return code was: 0
Mock Version: 3.5
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs  --target x86_64 --nodeps /builddir/build/SPECS/python-trisicell.spec'], chrootPath='/var/lib/mock/openeuler-22.03-x86_64-1683314038.820483/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 0x7fe8ab07a750>timeout=0uid=1000gid=135user='mockbuild'nspawn_args=[]unshare_net=FalseprintOutput=True)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs  --target x86_64 --nodeps /builddir/build/SPECS/python-trisicell.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'} and shell False
/etc/profile.d/system-info.sh: line 55: ps: command not found
Building target platforms: x86_64
Building for target x86_64
Wrote: /builddir/build/SRPMS/python-trisicell-0.2.1-1.src.rpm
Child return code was: 0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb  --target x86_64 --nodeps /builddir/build/SPECS/python-trisicell.spec'], chrootPath='/var/lib/mock/openeuler-22.03-x86_64-1683314038.820483/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 0x7fe8ab07a750>timeout=0uid=1000gid=135user='mockbuild'nspawn_args=[]unshare_net=FalseprintOutput=True)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb  --target x86_64 --nodeps /builddir/build/SPECS/python-trisicell.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'} and shell False
/etc/profile.d/system-info.sh: line 55: ps: command not found
Building target platforms: x86_64
Building for target x86_64
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.GvRSl1
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf trisicell-0.2.1
+ /usr/bin/gzip -dc /builddir/build/SOURCES/trisicell-0.2.1.tar.gz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd trisicell-0.2.1
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.ZhkMMQ
+ umask 022
+ cd /builddir/build/BUILD
+ cd trisicell-0.2.1
+ CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection '
+ LDFLAGS='-Wl,-z,relro   -Wl,-z,now -specs=/usr/lib/rpm/generic-hardened-ld'
+ /usr/bin/python3 setup.py build '--executable=/usr/bin/python3 -s'
/usr/lib/python3.9/site-packages/setuptools/installer.py:27: SetuptoolsDeprecationWarning: setuptools.installer is deprecated. Requirements should be satisfied by a PEP 517 installer.
  warnings.warn(
WARNING: The wheel package is not available.
WARNING: The wheel package is not available.
WARNING: The wheel package is not available.
WARNING: The wheel package is not available.
/usr/lib64/python3.9/distutils/dist.py:274: UserWarning: Unknown distribution option: 'email'
  warnings.warn(msg)
running build
running build_py
creating build
creating build/lib.linux-x86_64-3.9
creating build/lib.linux-x86_64-3.9/tests
copying tests/__init__.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_ul.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_pl.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_tl_solvers.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_logging.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_datasets.py -> build/lib.linux-x86_64-3.9/tests
copying tests/_helpers.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_tl_scores.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_io.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_commands.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_tl_consensus.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_tl_partition_function.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_tl_solvers_tmp.py -> build/lib.linux-x86_64-3.9/tests
copying tests/test_pp.py -> build/lib.linux-x86_64-3.9/tests
creating build/lib.linux-x86_64-3.9/trisicell
copying trisicell/__init__.py -> build/lib.linux-x86_64-3.9/trisicell
creating build/lib.linux-x86_64-3.9/trisicell/datasets
copying trisicell/datasets/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/datasets
copying trisicell/datasets/_simulate.py -> build/lib.linux-x86_64-3.9/trisicell/datasets
copying trisicell/datasets/_datasets.py -> build/lib.linux-x86_64-3.9/trisicell/datasets
creating build/lib.linux-x86_64-3.9/trisicell/pp
copying trisicell/pp/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/pp
copying trisicell/pp/_binary.py -> build/lib.linux-x86_64-3.9/trisicell/pp
copying trisicell/pp/_bifiltering.py -> build/lib.linux-x86_64-3.9/trisicell/pp
copying trisicell/pp/_readcount.py -> build/lib.linux-x86_64-3.9/trisicell/pp
copying trisicell/pp/_tree.py -> build/lib.linux-x86_64-3.9/trisicell/pp
creating build/lib.linux-x86_64-3.9/trisicell/logging
copying trisicell/logging/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/logging
copying trisicell/logging/_logging.py -> build/lib.linux-x86_64-3.9/trisicell/logging
creating build/lib.linux-x86_64-3.9/trisicell/ul
copying trisicell/ul/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/ul
copying trisicell/ul/_trees.py -> build/lib.linux-x86_64-3.9/trisicell/ul
copying trisicell/ul/_utils.py -> build/lib.linux-x86_64-3.9/trisicell/ul
copying trisicell/ul/_hclustering.py -> build/lib.linux-x86_64-3.9/trisicell/ul
copying trisicell/ul/_servers.py -> build/lib.linux-x86_64-3.9/trisicell/ul
copying trisicell/ul/_packages.py -> build/lib.linux-x86_64-3.9/trisicell/ul
creating build/lib.linux-x86_64-3.9/trisicell/io
copying trisicell/io/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/io
copying trisicell/io/_genotype.py -> build/lib.linux-x86_64-3.9/trisicell/io
copying trisicell/io/_tree.py -> build/lib.linux-x86_64-3.9/trisicell/io
creating build/lib.linux-x86_64-3.9/trisicell/pl
copying trisicell/pl/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/pl
copying trisicell/pl/_helper.py -> build/lib.linux-x86_64-3.9/trisicell/pl
copying trisicell/pl/_trees.py -> build/lib.linux-x86_64-3.9/trisicell/pl
copying trisicell/pl/_data.py -> build/lib.linux-x86_64-3.9/trisicell/pl
creating build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/_betabinom.py -> build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/_mp3.py -> build/lib.linux-x86_64-3.9/trisicell/external
creating build/lib.linux-x86_64-3.9/trisicell/settings
copying trisicell/settings/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/settings
copying trisicell/settings/_settings.py -> build/lib.linux-x86_64-3.9/trisicell/settings
creating build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_trees.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_scistree.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_grmt.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_sphyr.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_search.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_bnb.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/trisicell.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_score.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_consensus.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_onconem.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_gpps.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_mcalling.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_phiscs.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_scite.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_siclonefit.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_booster.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_huntress.py -> build/lib.linux-x86_64-3.9/trisicell/commands
copying trisicell/commands/_partf.py -> build/lib.linux-x86_64-3.9/trisicell/commands
creating build/lib.linux-x86_64-3.9/trisicell/tl
copying trisicell/tl/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/tl
creating build/lib.linux-x86_64-3.9/trisicell/external/gpps
copying trisicell/external/gpps/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/external/gpps
copying trisicell/external/gpps/_utils_hc.py -> build/lib.linux-x86_64-3.9/trisicell/external/gpps
copying trisicell/external/gpps/_gpps_hc.py -> build/lib.linux-x86_64-3.9/trisicell/external/gpps
copying trisicell/external/gpps/_gpps_ilp.py -> build/lib.linux-x86_64-3.9/trisicell/external/gpps
copying trisicell/external/gpps/_utils_ilp.py -> build/lib.linux-x86_64-3.9/trisicell/external/gpps
copying trisicell/external/gpps/_nh2lgf.py -> build/lib.linux-x86_64-3.9/trisicell/external/gpps
creating build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s05calling.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s09expressing.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s02mapping.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s04mapping.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/z03clean.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/z01status.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s07merging.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s01indexing.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s06jointcalling.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s10velocitying.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/z02matrixing.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s03indexing.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
copying trisicell/commands/mcalling/s08annotating.py -> build/lib.linux-x86_64-3.9/trisicell/commands/mcalling
creating build/lib.linux-x86_64-3.9/trisicell/tl/fitch
copying trisicell/tl/fitch/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/tl/fitch
copying trisicell/tl/fitch/_fitch.py -> build/lib.linux-x86_64-3.9/trisicell/tl/fitch
creating build/lib.linux-x86_64-3.9/trisicell/tl/consensus
copying trisicell/tl/consensus/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/tl/consensus
copying trisicell/tl/consensus/_consensus_day.py -> build/lib.linux-x86_64-3.9/trisicell/tl/consensus
copying trisicell/tl/consensus/_consensus.py -> build/lib.linux-x86_64-3.9/trisicell/tl/consensus
creating build/lib.linux-x86_64-3.9/trisicell/tl/cna
copying trisicell/tl/cna/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/tl/cna
copying trisicell/tl/cna/_cna.py -> build/lib.linux-x86_64-3.9/trisicell/tl/cna
creating build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_dendro.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_cellphy.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_scistree.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_grmt.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_sphyr.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_bnb.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_onconem.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_gpps.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_phiscs.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_scite.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_scelestial.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_siclonefit.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_sasc.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_cardelino.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_sbm.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
copying trisicell/tl/solver/_sciphi.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver
creating build/lib.linux-x86_64-3.9/trisicell/tl/partition_function
copying trisicell/tl/partition_function/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/tl/partition_function
copying trisicell/tl/partition_function/_partition_function.py -> build/lib.linux-x86_64-3.9/trisicell/tl/partition_function
copying trisicell/tl/partition_function/_clt_sampler.py -> build/lib.linux-x86_64-3.9/trisicell/tl/partition_function
copying trisicell/tl/partition_function/_pf.py -> build/lib.linux-x86_64-3.9/trisicell/tl/partition_function
creating build/lib.linux-x86_64-3.9/trisicell/tl/score
copying trisicell/tl/score/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/tl/score
copying trisicell/tl/score/_ours.py -> build/lib.linux-x86_64-3.9/trisicell/tl/score
copying trisicell/tl/score/_others.py -> build/lib.linux-x86_64-3.9/trisicell/tl/score
creating build/lib.linux-x86_64-3.9/trisicell/tl/solver/huntress
copying trisicell/tl/solver/huntress/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver/huntress
copying trisicell/tl/solver/huntress/_huntress.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver/huntress
creating build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster
copying trisicell/tl/solver/booster/__init__.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster
copying trisicell/tl/solver/booster/_dependencies.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster
copying trisicell/tl/solver/booster/_reconstruct_big_tree.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster
copying trisicell/tl/solver/booster/_subsamples.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster
copying trisicell/tl/solver/booster/_booster.py -> build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster
running egg_info
writing trisicell.egg-info/PKG-INFO
writing dependency_links to trisicell.egg-info/dependency_links.txt
writing entry points to trisicell.egg-info/entry_points.txt
writing requirements to trisicell.egg-info/requires.txt
writing top-level names to trisicell.egg-info/top_level.txt
reading manifest file 'trisicell.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
no previously-included directories found matching '.scripts'
no previously-included directories found matching '.github'
adding license file 'LICENSE'
writing manifest file 'trisicell.egg-info/SOURCES.txt'
creating build/lib.linux-x86_64-3.9/trisicell/datasets/data
copying trisicell/datasets/data/expression.h5ad.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/data
copying trisicell/datasets/data/genotype.h5ad.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/data
creating build/lib.linux-x86_64-3.9/trisicell/datasets/real
copying trisicell/datasets/real/colorectal2.h5ad -> build/lib.linux-x86_64-3.9/trisicell/datasets/real
copying trisicell/datasets/real/colorectal2.rc.h5ad -> build/lib.linux-x86_64-3.9/trisicell/datasets/real
copying trisicell/datasets/real/ovarian.h5ad.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/real
creating build/lib.linux-x86_64-3.9/trisicell/datasets/test
copying trisicell/datasets/test/T00.nwk -> build/lib.linux-x86_64-3.9/trisicell/datasets/test
copying trisicell/datasets/test/T06.nwk -> build/lib.linux-x86_64-3.9/trisicell/datasets/test
copying trisicell/datasets/test/fp_0-fn_0-na_0.ground.CFMatrix -> build/lib.linux-x86_64-3.9/trisicell/datasets/test
copying trisicell/datasets/test/fp_1-fn_0.1-na_0.bnb.CFMatrix -> build/lib.linux-x86_64-3.9/trisicell/datasets/test
copying trisicell/datasets/test/mcalling_config.yml -> build/lib.linux-x86_64-3.9/trisicell/datasets/test
copying trisicell/datasets/test/test.tsv -> build/lib.linux-x86_64-3.9/trisicell/datasets/test
creating build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus
copying trisicell/datasets/test/consensus/biorxiv.fig3b.CFMatrix -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus
copying trisicell/datasets/test/consensus/biorxiv.fig3c.CFMatrix -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus
copying trisicell/datasets/test/consensus/biorxiv.fig4b.CFMatrix -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus
copying trisicell/datasets/test/consensus/biorxiv.fig4c.CFMatrix -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus
copying trisicell/datasets/test/consensus/biorxiv.figs18a.CFMatrix -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus
copying trisicell/datasets/test/consensus/recomb.fig1a.CFMatrix -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus
copying trisicell/datasets/test/consensus/recomb.fig1b.CFMatrix -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus
creating build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell0_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell0_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell1_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell1_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell2_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell2_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell3_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell3_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell4_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell4_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell5_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell5_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell6_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell6_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell7_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell7_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell8_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell8_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell9_1.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/datasets/test/mcalling/cell9_2.fastq.gz -> build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling
copying trisicell/external/_mltd.cpp -> build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/_mltd.pyx -> build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/_scistree.cpp -> build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/_scistree.pyx -> build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/_scite.cpp -> build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/_scite.pyx -> build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/_scprob.cpp -> build/lib.linux-x86_64-3.9/trisicell/external
copying trisicell/external/_scprob.pyx -> build/lib.linux-x86_64-3.9/trisicell/external
creating build/lib.linux-x86_64-3.9/trisicell/external/mltd
copying trisicell/external/mltd/mltd.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/mltd
copying trisicell/external/mltd/mltd.h -> build/lib.linux-x86_64-3.9/trisicell/external/mltd
creating build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/BinaryMatrix.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/BinaryMatrix.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/BioSequenceMatrix.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/BioSequenceMatrix.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/GenotypeMatrix.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/GenotypeMatrix.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/MarginalTree.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/MarginalTree.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/PhylogenyTree.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/PhylogenyTree.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/PhylogenyTreeBasic.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/PhylogenyTreeBasic.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/RBT.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/RBT.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/RerootTreeUtils.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/RerootTreeUtils.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistDoublet.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistDoublet.hpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistErrRateInf.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistErrRateInf.hpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistGenotype.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistGenotype.hpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistPerfPhyImp.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistPerfPhyImp.hpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistPerfPhyUtils.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ScistPerfPhyUtils.hpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/TreeBuilder.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/TreeBuilder.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/UnWeightedGraph.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/UnWeightedGraph.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/Utils.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/Utils.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/Utils2.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/Utils2.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/Utils3.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/Utils3.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/Utils4.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/Utils4.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/UtilsNumerical.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/UtilsNumerical.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/ctpl_stl.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/main.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
copying trisicell/external/scistree/main.h -> build/lib.linux-x86_64-3.9/trisicell/external/scistree
creating build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/findBestTrees.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/findBestTrees.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/matrices.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/matrices.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/mcmc.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/mcmc.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/mcmcBinTreeMove.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/mcmcBinTreeMove.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/mcmcTreeMove.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/mcmcTreeMove.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/output.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/output.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/rand.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/rand.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/scoreBinTree.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/scoreBinTree.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/scoreTree.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/scoreTree.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/treelist.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/treelist.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/trees.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scite
copying trisicell/external/scite/trees.h -> build/lib.linux-x86_64-3.9/trisicell/external/scite
creating build/lib.linux-x86_64-3.9/trisicell/external/scprob
copying trisicell/external/scprob/main.cpp -> build/lib.linux-x86_64-3.9/trisicell/external/scprob
copying trisicell/external/scprob/main.h -> build/lib.linux-x86_64-3.9/trisicell/external/scprob
running build_ext
building 'trisicell.external._mltd' extension
creating build/temp.linux-x86_64-3.9
creating build/temp.linux-x86_64-3.9/trisicell
creating build/temp.linux-x86_64-3.9/trisicell/external
creating build/temp.linux-x86_64-3.9/trisicell/external/mltd
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/mltd -I/usr/include/python3.9 -c trisicell/external/_mltd.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/_mltd.o -std=c++11
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/mltd -I/usr/include/python3.9 -c trisicell/external/mltd/mltd.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/mltd/mltd.o -std=c++11
g++ -shared -g -g -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/generic-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-x86_64-3.9/trisicell/external/_mltd.o build/temp.linux-x86_64-3.9/trisicell/external/mltd/mltd.o -L/usr/lib64 -o build/lib.linux-x86_64-3.9/trisicell/external/_mltd.cpython-39-x86_64-linux-gnu.so
building 'trisicell.external._scprob' extension
creating build/temp.linux-x86_64-3.9/trisicell/external/scprob
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scprob -I/usr/include/python3.9 -c trisicell/external/_scprob.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/_scprob.o -std=c++11
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scprob -I/usr/include/python3.9 -c trisicell/external/scprob/main.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scprob/main.o -std=c++11
trisicell/external/scprob/main.cpp:501:13: warning: ‘void AdjustReadCountForDrop(int, int, const std::map<std::pair<int, int>, std::pair<int, int> >&, std::pair<int, int>&)’ defined but not used [-Wunused-function]
  501 | static void AdjustReadCountForDrop(int cell, int site, const map<pair<int,int>, pair<int,int> > &setDropPos, pair<int,int> &readCount)
      |             ^~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scprob/main.cpp:487:13: warning: ‘void ConvReadBasedProbToGeno(const std::vector<std::vector<std::vector<double> > >&, std::vector<std::vector<int> >&)’ defined but not used [-Wunused-function]
  487 | static void ConvReadBasedProbToGeno( const vector<vector<vector<double> > > &listReadBasedProb, vector<vector<int> > &listGenos)
      |             ^~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scprob/main.cpp:440:12: warning: ‘int CountTotAlleleForGenos(const std::map<int, std::pair<int, int> >&)’ defined but not used [-Wunused-function]
  440 | static int CountTotAlleleForGenos(const map<int,pair<int,int> > &mapGenosOfCells)
      |            ^~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scprob/main.cpp:426:12: warning: ‘int CalcAllele0FreqForGenos(const std::vector<int>&)’ defined but not used [-Wunused-function]
  426 | static int CalcAllele0FreqForGenos(const vector<int> &listGenos)
      |            ^~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scprob/main.cpp:242:13: warning: ‘void CalcGenotypeProbOfReads(const std::pair<int, int>&, double, std::vector<double>&)’ defined but not used [-Wunused-function]
  242 | static void CalcGenotypeProbOfReads(const pair<int,int> &readsCount01, double allele0Freq, vector<double> &listGenoProbs)
      |             ^~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scprob/main.cpp:166:15: warning: ‘double CalcProb1()’ defined but not used [-Wunused-function]
  166 | static double CalcProb1()
      |               ^~~~~~~~~
trisicell/external/scprob/main.cpp:158:15: warning: ‘double CalcProb0(int)’ defined but not used [-Wunused-function]
  158 | static double CalcProb0(int cell)
      |               ^~~~~~~~~
trisicell/external/scprob/main.cpp:37:15: warning: ‘stdStrandBias’ defined but not used [-Wunused-variable]
   37 | static double stdStrandBias = 0.0;
      |               ^~~~~~~~~~~~~
trisicell/external/scprob/main.cpp:36:15: warning: ‘aveStrandBias’ defined but not used [-Wunused-variable]
   36 | static double aveStrandBias = 0.0;
      |               ^~~~~~~~~~~~~
trisicell/external/scprob/main.cpp:35:15: warning: ‘stdReadDepth’ defined but not used [-Wunused-variable]
   35 | static double stdReadDepth = 2.0;
      |               ^~~~~~~~~~~~
trisicell/external/scprob/main.cpp:34:15: warning: ‘aveReadDepth’ defined but not used [-Wunused-variable]
   34 | static double aveReadDepth = 4.0;
      |               ^~~~~~~~~~~~
trisicell/external/scprob/main.cpp:28:15: warning: ‘minAlleFreq’ defined but not used [-Wunused-variable]
   28 | static double minAlleFreq = 0.0;
      |               ^~~~~~~~~~~
trisicell/external/scprob/main.cpp:27:13: warning: ‘seedRndUserDef’ defined but not used [-Wunused-variable]
   27 | static bool seedRndUserDef = true;
      |             ^~~~~~~~~~~~~~
trisicell/external/scprob/main.cpp:26:15: warning: ‘fracMissing’ defined but not used [-Wunused-variable]
   26 | static double fracMissing = 0.0;
      |               ^~~~~~~~~~~
trisicell/external/scprob/main.cpp:24:15: warning: ‘rateDropoutstd’ defined but not used [-Wunused-variable]
   24 | static double rateDropoutstd = 0.0;
      |               ^~~~~~~~~~~~~~
g++ -shared -g -g -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/generic-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-x86_64-3.9/trisicell/external/_scprob.o build/temp.linux-x86_64-3.9/trisicell/external/scprob/main.o -L/usr/lib64 -o build/lib.linux-x86_64-3.9/trisicell/external/_scprob.cpython-39-x86_64-linux-gnu.so
building 'trisicell.external._scistree' extension
creating build/temp.linux-x86_64-3.9/trisicell/external/scistree
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/_scistree.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/_scistree.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/BinaryMatrix.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/BinaryMatrix.o -O3 -std=c++11 -c
trisicell/external/scistree/BinaryMatrix.cpp: In member function ‘void BinaryMatrix::TrimDupSites(std::set<int>*, bool)’:
trisicell/external/scistree/BinaryMatrix.cpp:96:9: warning: variable ‘f’ set but not used [-Wunused-but-set-variable]
   96 |    bool f = false;
      |         ^
trisicell/external/scistree/BinaryMatrix.cpp: In member function ‘bool BinaryMatrix::IsCompatibleRooted(int, int, int, int)’:
trisicell/external/scistree/BinaryMatrix.cpp:870:7: warning: variable ‘f00’ set but not used [-Wunused-but-set-variable]
  870 |  bool f00 = false;
      |       ^~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/BioSequenceMatrix.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/BioSequenceMatrix.o -O3 -std=c++11 -c
trisicell/external/scistree/BioSequenceMatrix.cpp: In member function ‘void BioSequenceMatrix::TrimDupRows(std::set<int>*, std::vector<std::pair<int, int> >*)’:
trisicell/external/scistree/BioSequenceMatrix.cpp:273:7: warning: variable ‘res’ set but not used [-Wunused-but-set-variable]
  273 |  bool res = false; // we stop unless we find some duplicate rows and/or non-informat site
      |       ^~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/GenotypeMatrix.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/GenotypeMatrix.o -O3 -std=c++11 -c
trisicell/external/scistree/GenotypeMatrix.cpp: In member function ‘bool GenotypeMatrix::AreColumnsComplete(int, int)’:
trisicell/external/scistree/GenotypeMatrix.cpp:140:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::pair<int, int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  140 |     for (int i = 0; i < completePairs.size(); ++i)
      |                     ~~^~~~~~~~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/MarginalTree.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/MarginalTree.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/PhylogenyTree.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/PhylogenyTree.o -O3 -std=c++11 -c
trisicell/external/scistree/PhylogenyTree.cpp: In member function ‘void PhylogenyTree::SortByOneBit(int, const BinaryMatrix&, const std::vector<int>&, std::vector<int>&)’:
trisicell/external/scistree/PhylogenyTree.cpp:95:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   95 |     for (int i = 0; i < preList.size(); ++i)
      |                     ~~^~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp:107:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  107 |     for (int i = 0; i < preList.size(); ++i)
      |                     ~~^~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp: In member function ‘void PhylogenyTree::RemoveDupSites(const BinaryMatrix&, std::vector<int>&, std::vector<std::vector<int> >&)’:
trisicell/external/scistree/PhylogenyTree.cpp:129:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  129 |     for (int i = 1; i < sortedPosList.size(); ++i)
      |                     ~~^~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp: In member function ‘void PhylogenyTree::ComputeLijLj(const BinaryMatrix&, const std::vector<int>&, const std::vector<int>&, std::vector<int*>&, std::vector<int>&)’:
trisicell/external/scistree/PhylogenyTree.cpp:182:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  182 |         for (int j = 0; j < sortedPosList.size(); ++j)
      |                         ~~^~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp:199:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  199 |     for (int j = 0; j < sortedPosList.size(); ++j)
      |                     ~~^~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp: In member function ‘bool PhylogenyTree::ExamineLijLj(const BinaryMatrix&, const std::vector<int>&, const std::vector<int>&, const std::vector<int*>&, const std::vector<int>&)’:
trisicell/external/scistree/PhylogenyTree.cpp:221:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  221 |         for (int j = 0; j < sortedPosList.size(); ++j)
      |                         ~~^~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp: In member function ‘void PhylogenyTree::BuildTree(const BinaryMatrix&, const std::vector<int>&, const std::vector<int>&, const std::vector<std::vector<int> >&, const std::vector<int>&)’:
trisicell/external/scistree/PhylogenyTree.cpp:250:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  250 |     for (int i = 0; i < sortedPosList.size(); ++i)
      |                     ~~^~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp:257:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  257 |     for (int j = 0; j < Lj.size(); ++j)
      |                     ~~^~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp:263:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  263 |         for (int dup = 0; dup < duplicates[j].size(); ++dup)
      |                           ~~~~^~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp: In member function ‘void PhylogenyTree::CleanupTree(const BinaryMatrix&)’:
trisicell/external/scistree/PhylogenyTree.cpp:373:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  373 |             for (int i = 0; i < curTN->nodeValues.size(); ++i)
      |                             ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp:399:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TreeNode*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  399 |         for (int i = 0; i < curTN->listChildren.size(); ++i)
      |                         ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp: In member function ‘void PhylogenyTree::RemoveDegreeTwoNodes()’:
trisicell/external/scistree/PhylogenyTree.cpp:424:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<TreeNode*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  424 |         for (int i = 0; i < curTN->listChildren.size(); ++i)
      |                         ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp: In member function ‘bool PhylogenyTree::ConsOnBinMatrix(const BinaryMatrix&)’:
trisicell/external/scistree/PhylogenyTree.cpp:522:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  522 |     for (int i = 0; i < Lij.size(); ++i)
      |                     ~~^~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTree.cpp: In function ‘std::string ConsRootedPerfectPhylogenyFromMat(const BinaryMatrix&, bool, bool)’:
trisicell/external/scistree/PhylogenyTree.cpp:564:26: warning: comparison of integer expressions of different signedness: ‘std::set<int>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare]
  564 |         if (split.size() == matInput.GetRowNum())
      |             ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/PhylogenyTreeBasic.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/PhylogenyTreeBasic.o -O3 -std=c++11 -c
trisicell/external/scistree/PhylogenyTreeBasic.cpp: In function ‘bool ReadinPhyloTreesNewick(std::ifstream&, int, std::vector<PhylogenyTreeBasic*>&, TaxaMapper*)’:
trisicell/external/scistree/PhylogenyTreeBasic.cpp:105:9: warning: variable ‘nLvs’ set but not used [-Wunused-but-set-variable]
  105 |     int nLvs = numLeaves;
      |         ^~~~
trisicell/external/scistree/PhylogenyTreeBasic.cpp: In member function ‘void TreeNode::IncEdgeLabelsBy(int, bool)’:
trisicell/external/scistree/PhylogenyTreeBasic.cpp:2346:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 2346 |         for (int j = 0; j < listEdgeLabels[i].size(); ++j)
      |                         ~~^~~~~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/PhylogenyTreeBasic.cpp: In member function ‘TreeNode* PhylogenyTreeBasic::ConsOnNewickSubtree(const string&, int&, int&, int, bool, TaxaMapper*)’:
trisicell/external/scistree/PhylogenyTreeBasic.cpp:3543:13: warning: variable ‘rightPos’ set but not used [-Wunused-but-set-variable]
 3543 |         int rightPos = (int)nwStringPart.size() - 1;
      |             ^~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/RBT.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/RBT.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/RerootTreeUtils.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/RerootTreeUtils.o -O3 -std=c++11 -c
trisicell/external/scistree/RerootTreeUtils.cpp: In function ‘double stringToDouble(std::string&)’:
trisicell/external/scistree/RerootTreeUtils.cpp:62:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   62 |     for (; i < content.size() && content[i] != '.'; ++i)
      |            ~~^~~~~~~~~~~~~~~~
trisicell/external/scistree/RerootTreeUtils.cpp: In function ‘void buildGraph(std::vector<std::__cxx11::basic_string<char> >&, std::map<int, std::map<int, double> >&, std::map<std::__cxx11::basic_string<char>, int>&)’:
trisicell/external/scistree/RerootTreeUtils.cpp:95:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   95 |     for (int i = 0; i < elements.size(); ++i)
      |                     ~~^~~~~~~~~~~~~~~~~
trisicell/external/scistree/RerootTreeUtils.cpp: In function ‘void Test_split()’:
trisicell/external/scistree/RerootTreeUtils.cpp:384:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  384 |     for (int i = 0; i < elements.size(); ++i)
      |                     ~~^~~~~~~~~~~~~~~~~
trisicell/external/scistree/RerootTreeUtils.cpp:390:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  390 |     for (int i = 0; i < elements.size(); ++i)
      |                     ~~^~~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/ScistDoublet.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistDoublet.o -O3 -std=c++11 -c
trisicell/external/scistree/ScistDoublet.cpp:744:15: warning: ‘std::string GetNonDoubleName(const string&)’ defined but not used [-Wunused-function]
  744 | static string GetNonDoubleName(const string &strTaxon)
      |               ^~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/ScistErrRateInf.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistErrRateInf.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/ScistGenotype.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistGenotype.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/ScistPerfPhyImp.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistPerfPhyImp.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/ScistPerfPhyUtils.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistPerfPhyUtils.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/TreeBuilder.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/TreeBuilder.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/UnWeightedGraph.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/UnWeightedGraph.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/Utils.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/Utils.o -O3 -std=c++11 -c
trisicell/external/scistree/Utils.cpp: In function ‘void DumpIntVec(const std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:175:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  175 |  for(int i=0; i<intVec.size(); ++i)
      |               ~^~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void PopulateSetByVec(std::set<int>&, const std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:186:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  186 |  for(int i=0; i<srcVec.size(); ++i)
      |               ~^~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void CopyIntVec(std::vector<int>&, const std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:216:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  216 |  for(int i=0; i<src.size(); ++i)
      |               ~^~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘bool IsVecSame(const std::vector<int>&, const std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:239:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  239 |  for(int i=0; i<v1.size(); ++i)
      |               ~^~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void ReverseIntVec(std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:335:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  335 |     for(int i=0; i<vec.size()/2; ++i)
      |                  ~^~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘bool GetNextEnumVec(std::vector<int>&, const std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:389:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  389 |  for(int j=i+1; j<curPos.size(); ++j)
      |                 ~^~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void GetBoolVec(int, const std::vector<int>&, std::vector<bool>&)’:
trisicell/external/scistree/Utils.cpp:634:10: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  634 |   if(pos >= posvec.size() ||  i < posvec[pos] )
      |      ~~~~^~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void GetIntVec(int, const std::vector<int>&, std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:657:10: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  657 |   if(pos >= posvec.size() ||  i < posvec[pos] )
      |      ~~~~^~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘bool GetNextPermutation(std::vector<int>&, const std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:856:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  856 |   for(int j=i+1; j<nvec.size(); ++j)
      |                  ~^~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void RecombSequencesAt(const SEQUENCE&, const SEQUENCE&, int, SEQUENCE&)’:
trisicell/external/scistree/Utils.cpp:1003:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1003 |  for(int i=brPt+1; i < s2.size(); ++i)
      |                    ~~^~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void AddUniqueSeqToVec(const SEQUENCE&, std::vector<std::vector<int> >&)’:
trisicell/external/scistree/Utils.cpp:1084:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1084 |   for(int i=0; i<vecSeqs.size(); ++i)
      |                ~^~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘bool IsSeqInVec(const SEQUENCE&, const std::vector<std::vector<int> >&)’:
trisicell/external/scistree/Utils.cpp:1096:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1096 |   for(int i=0; i<vecSeqs.size(); ++i)
      |                ~^~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void GetEqualSubseq(const SEQUENCE&, const SEQUENCE&, int, int&, int&)’:
trisicell/external/scistree/Utils.cpp:1124:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1124 |  if(seedPos < 0 || seedPos >= seq1.size() )
      |                    ~~~~~~~~^~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp:1144:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1144 |  for(i=seedPos+1; i<seq1.size(); ++i)
      |                   ~^~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp:1151:7: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1151 |  if( i< seq1.size() )
      |      ~^~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘int IsSeqsMutPair(const SEQUENCE&, const SEQUENCE&)’:
trisicell/external/scistree/Utils.cpp:1183:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1183 |  for(int i=0; i<seq1.size(); ++i)
      |               ~^~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘int CalcSequencesDistance(const SEQUENCE&, const SEQUENCE&)’:
trisicell/external/scistree/Utils.cpp:1205:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1205 |  for(int i=0; i<seq1.size(); ++i)
      |               ~^~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘bool IsTwoLabelSetsCompatible(const std::set<int>&, const std::vector<int>&, bool&)’:
trisicell/external/scistree/Utils.cpp:1244:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1244 |     for(int i=0; i<genoSite.size(); ++i)
      |                  ~^~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp:1258:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1258 |     for(int i=0; i<genoSite.size(); ++i)
      |                  ~^~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp:1274:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1274 |     for(int i=0; i<genoSite.size(); ++i)
      |                  ~^~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp:1303:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1303 |         for(int i=0; i<genoSite.size(); ++i)
      |                      ~^~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void GenGenoPartitions(const std::vector<int>&, std::vector<int>&, std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:1357:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1357 |     for(int i=0; i<genoSite.size(); ++i)
      |                  ~^~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘bool IsTwoLabelSetContained(int, const std::vector<int>&, const std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:1405:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1405 |     for(int i=0; i<setContainer.size(); ++i)
      |                  ~^~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp:1409:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1409 |     for(int i=0; i<setContained.size(); ++i)
      |                  ~^~~~~~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: In function ‘void CalcGenoNum(int, const std::vector<int>&, std::vector<int>&)’:
trisicell/external/scistree/Utils.cpp:1440:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
 1440 |     for(int i=0; i<partition.size(); ++i)
      |                  ~^~~~~~~~~~~~~~~~~
trisicell/external/scistree/Utils.cpp: At global scope:
trisicell/external/scistree/Utils.cpp:10:13: warning: ‘void MakeComplementSet(int, int, const std::set<int>&, std::set<int>&)’ defined but not used [-Wunused-function]
   10 | static void MakeComplementSet( int start, int end,
      |             ^~~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/Utils2.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/Utils2.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/Utils3.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/Utils3.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/Utils4.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/Utils4.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/UtilsNumerical.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/UtilsNumerical.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scistree -I/usr/include/python3.9 -c trisicell/external/scistree/main.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scistree/main.o -O3 -std=c++11 -c
g++ -shared -g -g -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/generic-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-x86_64-3.9/trisicell/external/_scistree.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/BinaryMatrix.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/BioSequenceMatrix.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/GenotypeMatrix.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/MarginalTree.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/PhylogenyTree.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/PhylogenyTreeBasic.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/RBT.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/RerootTreeUtils.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistDoublet.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistErrRateInf.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistGenotype.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistPerfPhyImp.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/ScistPerfPhyUtils.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/TreeBuilder.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/UnWeightedGraph.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/Utils.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/Utils2.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/Utils3.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/Utils4.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/UtilsNumerical.o build/temp.linux-x86_64-3.9/trisicell/external/scistree/main.o -L/usr/lib64 -o build/lib.linux-x86_64-3.9/trisicell/external/_scistree.cpython-39-x86_64-linux-gnu.so
building 'trisicell.external._scite' extension
creating build/temp.linux-x86_64-3.9/trisicell/external/scite
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/_scite.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/_scite.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/findBestTrees.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/findBestTrees.o -O3 -std=c++11 -c
trisicell/external/scite/findBestTrees.cpp: In function ‘int* getParentVectorFromGVfile(std::string, int)’:
trisicell/external/scite/findBestTrees.cpp:206:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::__cxx11::basic_string<char> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  206 |  for(int i=0; i < lines.size(); i++){
      |               ~~^~~~~~~~~~~~~~
trisicell/external/scite/findBestTrees.cpp: In function ‘int getMinDist(int*, std::vector<bool**>, int)’:
trisicell/external/scite/findBestTrees.cpp:222:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<bool**>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  222 |  for(int i=0; i<optimalTrees.size(); i++){
      |               ~^~~~~~~~~~~~~~~~~~~~
trisicell/external/scite/findBestTrees.cpp: In function ‘std::vector<double> setMoveProbs()’:
trisicell/external/scite/findBestTrees.cpp:356:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  356 |   for(int i=0; i< treeMoves.size(); i++){ sum += treeMoves[i]; }
      |                ~^~~~~~~~~~~~~~~~~~
trisicell/external/scite/findBestTrees.cpp:359:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  359 |    for(int i=0; i< treeMoves.size(); i++){
      |                 ~^~~~~~~~~~~~~~~~~~
trisicell/external/scite/findBestTrees.cpp:363:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  363 |    for(int i=0; i< treeMoves.size(); i++){ cout << " " << treeMoves[i];}
      |                 ~^~~~~~~~~~~~~~~~~~
trisicell/external/scite/findBestTrees.cpp:366:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  366 |   for(int i=0; i< treeMoves.size(); i++){
      |                ~^~~~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/matrices.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/matrices.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/mcmc.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/mcmc.o -O3 -std=c++11 -c
trisicell/external/scite/mcmc.cpp: In function ‘std::string runMCMCbeta(std::vector<treeBeta>&, double*, int, int, double, std::vector<double>, int, int, int**, char, int*, int, bool, double, double, bool, char)’:
trisicell/external/scite/mcmc.cpp:87:15: warning: variable ‘moveAccepted’ set but not used [-Wunused-but-set-variable]
   87 |          bool moveAccepted = false;                                           // Is the MCMC move accepted?
      |               ^~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/mcmcBinTreeMove.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/mcmcBinTreeMove.o -O3 -std=c++11 -c
trisicell/external/scite/mcmcBinTreeMove.cpp: In function ‘int pickNodeToMove(int*, int)’:
trisicell/external/scite/mcmcBinTreeMove.cpp:75:1: warning: control reaches end of non-void function [-Wreturn-type]
   75 | }
      | ^
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/mcmcTreeMove.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/mcmcTreeMove.o -O3 -std=c++11 -c
trisicell/external/scite/mcmcTreeMove.cpp: In function ‘bool** getNewAncMatrix(bool**, int, std::vector<int>, std::vector<int>, int, bool**)’:
trisicell/external/scite/mcmcTreeMove.cpp:177:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  177 |   for(int i=0; i<possibleParents.size(); i++){
      |                ~^~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scite/mcmcTreeMove.cpp:178:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  178 |      for(int j=0; j<descendants.size(); j++){
      |                   ~^~~~~~~~~~~~~~~~~~~
trisicell/external/scite/mcmcTreeMove.cpp:185:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  185 |         for(int i=0; i<possibleParents.size(); i++){
      |                      ~^~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scite/mcmcTreeMove.cpp:186:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  186 |      for(int j=0; j<descendants.size(); j++){
      |                   ~^~~~~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/output.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/output.o -O3 -std=c++11 -c
trisicell/external/scite/output.cpp: In function ‘void printParentVectors(std::vector<bool**>, int, int, double**, int**)’:
trisicell/external/scite/output.cpp:298:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<bool**>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  298 |  for(int i=0; i<optimalTrees.size(); i++){
      |               ~^~~~~~~~~~~~~~~~~~~~
trisicell/external/scite/output.cpp: In function ‘void printSampleTrees(std::vector<int*>, int, std::string)’:
trisicell/external/scite/output.cpp:320:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  320 |  for(int i=0; i<list.size(); i++){
      |               ~^~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/rand.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/rand.o -O3 -std=c++11 -c
trisicell/external/scite/rand.cpp: In function ‘int sampleRandomMove(std::vector<double>)’:
trisicell/external/scite/rand.cpp:53:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<double>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   53 |     for(int i=1; i<prob.size()-1; i++){    // start at index 1; the probability at prob[0] is for changing the error rate (which is treated separately)
      |                  ~^~~~~~~~~~~~~~
trisicell/external/scite/rand.cpp: In function ‘int getElemFromQueue(int, std::vector<int>)’:
trisicell/external/scite/rand.cpp:96:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   96 |  if (index != queue.size() - 1)
      |      ~~~~~~^~~~~~~~~~~~~~~~~~~
trisicell/external/scite/rand.cpp: In function ‘int* getRandomBinaryTree(int)’:
trisicell/external/scite/rand.cpp:119:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  119 |   if (pos != queue.size() - 1){queue[pos] = std::move(queue.back());}
      |       ~~~~^~~~~~~~~~~~~~~~~~~
trisicell/external/scite/rand.cpp:125:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  125 |   if (pos != queue.size() - 1){queue[pos] = std::move(queue.back());}
      |       ~~~~^~~~~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/scoreBinTree.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/scoreBinTree.o -O3 -std=c++11 -c
trisicell/external/scite/scoreBinTree.cpp: In function ‘double getBinTreeScore(int**, int, int, double**, int*)’:
trisicell/external/scite/scoreBinTree.cpp:78:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   78 |  for(int i=0; i<childLists.size(); i++){
      |               ~^~~~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/scoreTree.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/scoreTree.o -O3 -std=c++11 -c
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/treelist.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/treelist.o -O3 -std=c++11 -c
trisicell/external/scite/treelist.cpp: In function ‘void emptyVectorFast(std::vector<treeBeta>&, int)’:
trisicell/external/scite/treelist.cpp:51:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<treeBeta>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   51 |     for(int i=0; i<optimalTrees.size(); i++){
      |                  ~^~~~~~~~~~~~~~~~~~~~
trisicell/external/scite/treelist.cpp: In function ‘void emptyTreeList(std::vector<int*>&, int)’:
trisicell/external/scite/treelist.cpp:59:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int*>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   59 |     for(int i=0; i<optimalTrees.size(); i++){
      |                  ~^~~~~~~~~~~~~~~~~~~~
trisicell/external/scite/treelist.cpp: In function ‘bool isDuplicateTreeFast(std::vector<treeBeta>&, int*, int)’:
trisicell/external/scite/treelist.cpp:75:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<treeBeta>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   75 |     for(int k=0; k<optimalTrees.size(); k++){
      |                  ~^~~~~~~~~~~~~~~~~~~~
g++ -Wno-unused-result -Wsign-compare -DDYNAMIC_ANNOTATIONS_ENABLED=1 -DNDEBUG -D_GNU_SOURCE -fPIC -fwrapv -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -D_GNU_SOURCE -fPIC -fwrapv -fstack-protector-strong -D_FORTIFY_SOURCE=2 -O2 -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -Itrisicell/external/scite -I/usr/include/python3.9 -c trisicell/external/scite/trees.cpp -o build/temp.linux-x86_64-3.9/trisicell/external/scite/trees.o -O3 -std=c++11 -c
trisicell/external/scite/trees.cpp: In function ‘int countBranches(int*, int)’:
trisicell/external/scite/trees.cpp:55:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   55 |  for(int i=0; i<childList.size(); i++){
      |               ~^~~~~~~~~~~~~~~~~
trisicell/external/scite/trees.cpp:58:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   58 |  for(int i=0; i<childList.size(); i++){
      |               ~^~~~~~~~~~~~~~~~~
trisicell/external/scite/trees.cpp: In function ‘void deleteChildLists(std::vector<std::vector<int> >&)’:
trisicell/external/scite/trees.cpp:76:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   76 |  for(int i=0; i<childLists.size(); i++){
      |               ~^~~~~~~~~~~~~~~~~~
trisicell/external/scite/trees.cpp: In function ‘std::string getNewickCode(std::vector<std::vector<int> >, int)’:
trisicell/external/scite/trees.cpp:90:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   90 |   for(int i=0; i<rootChilds.size(); i++){
      |                ~^~~~~~~~~~~~~~~~~~
trisicell/external/scite/trees.cpp: In function ‘int* getBreadthFirstTraversal(int*, int)’:
trisicell/external/scite/trees.cpp:114:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  114 |   for(int j=0; j<childLists[bft[i]].size(); j++){
      |                ~^~~~~~~~~~~~~~~~~~~~~~~~~~
trisicell/external/scite/trees.cpp:118:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::vector<int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  118 |  for(int i=0; i<childLists.size(); i++){
      |               ~^~~~~~~~~~~~~~~~~~
g++ -shared -g -g -Wl,-z,relro -Wl,-z,now -specs=/usr/lib/rpm/generic-hardened-ld -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-x86_64-3.9/trisicell/external/_scite.o build/temp.linux-x86_64-3.9/trisicell/external/scite/findBestTrees.o build/temp.linux-x86_64-3.9/trisicell/external/scite/matrices.o build/temp.linux-x86_64-3.9/trisicell/external/scite/mcmc.o build/temp.linux-x86_64-3.9/trisicell/external/scite/mcmcBinTreeMove.o build/temp.linux-x86_64-3.9/trisicell/external/scite/mcmcTreeMove.o build/temp.linux-x86_64-3.9/trisicell/external/scite/output.o build/temp.linux-x86_64-3.9/trisicell/external/scite/rand.o build/temp.linux-x86_64-3.9/trisicell/external/scite/scoreBinTree.o build/temp.linux-x86_64-3.9/trisicell/external/scite/scoreTree.o build/temp.linux-x86_64-3.9/trisicell/external/scite/treelist.o build/temp.linux-x86_64-3.9/trisicell/external/scite/trees.o -L/usr/lib64 -o build/lib.linux-x86_64-3.9/trisicell/external/_scite.cpython-39-x86_64-linux-gnu.so
+ sleep 1
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.GWYmDd
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64
++ dirname /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64
+ cd trisicell-0.2.1
+ CFLAGS='-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/generic-hardened-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection '
+ LDFLAGS='-Wl,-z,relro   -Wl,-z,now -specs=/usr/lib/rpm/generic-hardened-ld'
+ /usr/bin/python3 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64
/usr/lib/python3.9/site-packages/setuptools/installer.py:27: SetuptoolsDeprecationWarning: setuptools.installer is deprecated. Requirements should be satisfied by a PEP 517 installer.
  warnings.warn(
WARNING: The wheel package is not available.
WARNING: The wheel package is not available.
WARNING: The wheel package is not available.
WARNING: The wheel package is not available.
/usr/lib64/python3.9/distutils/dist.py:274: UserWarning: Unknown distribution option: 'email'
  warnings.warn(msg)
running install
/usr/lib/python3.9/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
  warnings.warn(
running install_lib
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_ul.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_pl.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_tl_solvers.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_logging.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_datasets.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/_helpers.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_tl_scores.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_io.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_commands.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_tl_consensus.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_tl_partition_function.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_tl_solvers_tmp.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
copying build/lib.linux-x86_64-3.9/tests/test_pp.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell
copying build/lib.linux-x86_64-3.9/trisicell/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets
copying build/lib.linux-x86_64-3.9/trisicell/datasets/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets
copying build/lib.linux-x86_64-3.9/trisicell/datasets/_simulate.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/data
copying build/lib.linux-x86_64-3.9/trisicell/datasets/data/expression.h5ad.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/data
copying build/lib.linux-x86_64-3.9/trisicell/datasets/data/genotype.h5ad.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/data
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/real
copying build/lib.linux-x86_64-3.9/trisicell/datasets/real/colorectal2.h5ad -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/real
copying build/lib.linux-x86_64-3.9/trisicell/datasets/real/ovarian.h5ad.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/real
copying build/lib.linux-x86_64-3.9/trisicell/datasets/real/colorectal2.rc.h5ad -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/real
copying build/lib.linux-x86_64-3.9/trisicell/datasets/_datasets.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/consensus
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus/biorxiv.fig3c.CFMatrix -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/consensus
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus/recomb.fig1a.CFMatrix -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/consensus
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus/biorxiv.fig3b.CFMatrix -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/consensus
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus/biorxiv.figs18a.CFMatrix -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/consensus
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus/biorxiv.fig4b.CFMatrix -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/consensus
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus/biorxiv.fig4c.CFMatrix -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/consensus
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/consensus/recomb.fig1b.CFMatrix -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/consensus
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/fp_1-fn_0.1-na_0.bnb.CFMatrix -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/fp_0-fn_0-na_0.ground.CFMatrix -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/T06.nwk -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell9_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell4_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell3_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell5_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell6_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell6_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell7_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell3_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell8_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell8_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell0_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell1_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell5_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell2_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell1_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell9_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell7_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell2_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell0_2.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling/cell4_1.fastq.gz -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/mcalling_config.yml -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/test.tsv -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test
copying build/lib.linux-x86_64-3.9/trisicell/datasets/test/T00.nwk -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/test
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp
copying build/lib.linux-x86_64-3.9/trisicell/pp/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp
copying build/lib.linux-x86_64-3.9/trisicell/pp/_binary.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp
copying build/lib.linux-x86_64-3.9/trisicell/pp/_bifiltering.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp
copying build/lib.linux-x86_64-3.9/trisicell/pp/_readcount.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp
copying build/lib.linux-x86_64-3.9/trisicell/pp/_tree.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/logging
copying build/lib.linux-x86_64-3.9/trisicell/logging/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/logging
copying build/lib.linux-x86_64-3.9/trisicell/logging/_logging.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/logging
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul
copying build/lib.linux-x86_64-3.9/trisicell/ul/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul
copying build/lib.linux-x86_64-3.9/trisicell/ul/_trees.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul
copying build/lib.linux-x86_64-3.9/trisicell/ul/_utils.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul
copying build/lib.linux-x86_64-3.9/trisicell/ul/_hclustering.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul
copying build/lib.linux-x86_64-3.9/trisicell/ul/_servers.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul
copying build/lib.linux-x86_64-3.9/trisicell/ul/_packages.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/io
copying build/lib.linux-x86_64-3.9/trisicell/io/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/io
copying build/lib.linux-x86_64-3.9/trisicell/io/_genotype.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/io
copying build/lib.linux-x86_64-3.9/trisicell/io/_tree.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/io
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pl
copying build/lib.linux-x86_64-3.9/trisicell/pl/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pl
copying build/lib.linux-x86_64-3.9/trisicell/pl/_helper.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pl
copying build/lib.linux-x86_64-3.9/trisicell/pl/_trees.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pl
copying build/lib.linux-x86_64-3.9/trisicell/pl/_data.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pl
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/output.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/scoreTree.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/mcmc.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/trees.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/findBestTrees.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/trees.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/mcmcTreeMove.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/matrices.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/mcmcBinTreeMove.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/rand.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/rand.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/scoreBinTree.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/matrices.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/mcmcBinTreeMove.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/treelist.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/scoreBinTree.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/mcmcTreeMove.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/scoreTree.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/treelist.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/findBestTrees.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/mcmc.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/scite/output.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scite
copying build/lib.linux-x86_64-3.9/trisicell/external/_scite.cpython-39-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_scite.pyx -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/mltd
copying build/lib.linux-x86_64-3.9/trisicell/external/mltd/mltd.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/mltd
copying build/lib.linux-x86_64-3.9/trisicell/external/mltd/mltd.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/mltd
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scprob
copying build/lib.linux-x86_64-3.9/trisicell/external/scprob/main.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scprob
copying build/lib.linux-x86_64-3.9/trisicell/external/scprob/main.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scprob
copying build/lib.linux-x86_64-3.9/trisicell/external/_scprob.pyx -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_mltd.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/RBT.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistDoublet.hpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/MarginalTree.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistPerfPhyImp.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/MarginalTree.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/Utils2.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/Utils3.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/BioSequenceMatrix.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ctpl_stl.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/Utils4.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/Utils4.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/PhylogenyTree.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistErrRateInf.hpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/TreeBuilder.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistErrRateInf.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/GenotypeMatrix.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/RerootTreeUtils.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistPerfPhyImp.hpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/BioSequenceMatrix.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/Utils2.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/UtilsNumerical.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/TreeBuilder.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/RBT.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistGenotype.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/PhylogenyTreeBasic.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/UnWeightedGraph.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/Utils.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/UtilsNumerical.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/BinaryMatrix.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/BinaryMatrix.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/main.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/Utils.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/PhylogenyTree.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/RerootTreeUtils.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistGenotype.hpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistDoublet.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/PhylogenyTreeBasic.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/main.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/GenotypeMatrix.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/Utils3.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistPerfPhyUtils.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/ScistPerfPhyUtils.hpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/scistree/UnWeightedGraph.h -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/scistree
copying build/lib.linux-x86_64-3.9/trisicell/external/_scistree.pyx -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_betabinom.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_scistree.cpython-39-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_mltd.pyx -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_mltd.cpython-39-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_scprob.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_mp3.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_scprob.cpython-39-x86_64-linux-gnu.so -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps
copying build/lib.linux-x86_64-3.9/trisicell/external/gpps/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps
copying build/lib.linux-x86_64-3.9/trisicell/external/gpps/_utils_hc.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps
copying build/lib.linux-x86_64-3.9/trisicell/external/gpps/_gpps_hc.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps
copying build/lib.linux-x86_64-3.9/trisicell/external/gpps/_gpps_ilp.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps
copying build/lib.linux-x86_64-3.9/trisicell/external/gpps/_utils_ilp.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps
copying build/lib.linux-x86_64-3.9/trisicell/external/gpps/_nh2lgf.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps
copying build/lib.linux-x86_64-3.9/trisicell/external/_scite.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
copying build/lib.linux-x86_64-3.9/trisicell/external/_scistree.cpp -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/settings
copying build/lib.linux-x86_64-3.9/trisicell/settings/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/settings
copying build/lib.linux-x86_64-3.9/trisicell/settings/_settings.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/settings
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_trees.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_scistree.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_grmt.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_sphyr.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_search.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_bnb.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/trisicell.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_score.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_consensus.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_onconem.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_gpps.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_mcalling.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_phiscs.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s05calling.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s09expressing.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s02mapping.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s04mapping.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/z03clean.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/z01status.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s07merging.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s01indexing.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s06jointcalling.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s10velocitying.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/z02matrixing.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s03indexing.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/mcalling/s08annotating.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling
copying build/lib.linux-x86_64-3.9/trisicell/commands/_scite.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_siclonefit.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_booster.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_huntress.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
copying build/lib.linux-x86_64-3.9/trisicell/commands/_partf.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl
copying build/lib.linux-x86_64-3.9/trisicell/tl/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/fitch
copying build/lib.linux-x86_64-3.9/trisicell/tl/fitch/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/fitch
copying build/lib.linux-x86_64-3.9/trisicell/tl/fitch/_fitch.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/fitch
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/consensus
copying build/lib.linux-x86_64-3.9/trisicell/tl/consensus/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/consensus
copying build/lib.linux-x86_64-3.9/trisicell/tl/consensus/_consensus_day.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/consensus
copying build/lib.linux-x86_64-3.9/trisicell/tl/consensus/_consensus.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/consensus
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/cna
copying build/lib.linux-x86_64-3.9/trisicell/tl/cna/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/cna
copying build/lib.linux-x86_64-3.9/trisicell/tl/cna/_cna.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/cna
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_dendro.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_cellphy.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_scistree.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_grmt.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_sphyr.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/huntress
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/huntress/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/huntress
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/huntress/_huntress.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/huntress
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_bnb.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_onconem.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_gpps.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_phiscs.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_scite.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_scelestial.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster/_dependencies.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster/_reconstruct_big_tree.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster/_subsamples.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/booster/_booster.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_siclonefit.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_sasc.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_cardelino.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_sbm.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
copying build/lib.linux-x86_64-3.9/trisicell/tl/solver/_sciphi.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/partition_function
copying build/lib.linux-x86_64-3.9/trisicell/tl/partition_function/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/partition_function
copying build/lib.linux-x86_64-3.9/trisicell/tl/partition_function/_partition_function.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/partition_function
copying build/lib.linux-x86_64-3.9/trisicell/tl/partition_function/_clt_sampler.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/partition_function
copying build/lib.linux-x86_64-3.9/trisicell/tl/partition_function/_pf.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/partition_function
creating /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/score
copying build/lib.linux-x86_64-3.9/trisicell/tl/score/__init__.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/score
copying build/lib.linux-x86_64-3.9/trisicell/tl/score/_ours.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/score
copying build/lib.linux-x86_64-3.9/trisicell/tl/score/_others.py -> /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/score
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_ul.py to test_ul.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_pl.py to test_pl.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_tl_solvers.py to test_tl_solvers.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_logging.py to test_logging.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_datasets.py to test_datasets.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/_helpers.py to _helpers.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_tl_scores.py to test_tl_scores.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_io.py to test_io.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_commands.py to test_commands.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_tl_consensus.py to test_tl_consensus.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_tl_partition_function.py to test_tl_partition_function.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_tl_solvers_tmp.py to test_tl_solvers_tmp.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/tests/test_pp.py to test_pp.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/_simulate.py to _simulate.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/datasets/_datasets.py to _datasets.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp/_binary.py to _binary.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp/_bifiltering.py to _bifiltering.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp/_readcount.py to _readcount.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pp/_tree.py to _tree.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/logging/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/logging/_logging.py to _logging.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul/_trees.py to _trees.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul/_utils.py to _utils.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul/_hclustering.py to _hclustering.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul/_servers.py to _servers.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/ul/_packages.py to _packages.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/io/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/io/_genotype.py to _genotype.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/io/_tree.py to _tree.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pl/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pl/_helper.py to _helper.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pl/_trees.py to _trees.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/pl/_data.py to _data.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_betabinom.py to _betabinom.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_mp3.py to _mp3.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps/_utils_hc.py to _utils_hc.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps/_gpps_hc.py to _gpps_hc.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps/_gpps_ilp.py to _gpps_ilp.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps/_utils_ilp.py to _utils_ilp.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/gpps/_nh2lgf.py to _nh2lgf.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/settings/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/settings/_settings.py to _settings.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_trees.py to _trees.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_scistree.py to _scistree.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_grmt.py to _grmt.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_sphyr.py to _sphyr.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_search.py to _search.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_bnb.py to _bnb.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/trisicell.py to trisicell.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_score.py to _score.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_consensus.py to _consensus.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_onconem.py to _onconem.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_gpps.py to _gpps.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_mcalling.py to _mcalling.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_phiscs.py to _phiscs.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s05calling.py to s05calling.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s09expressing.py to s09expressing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s02mapping.py to s02mapping.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s04mapping.py to s04mapping.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/z03clean.py to z03clean.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/z01status.py to z01status.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s07merging.py to s07merging.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s01indexing.py to s01indexing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s06jointcalling.py to s06jointcalling.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s10velocitying.py to s10velocitying.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/z02matrixing.py to z02matrixing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s03indexing.py to s03indexing.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/mcalling/s08annotating.py to s08annotating.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_scite.py to _scite.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_siclonefit.py to _siclonefit.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_booster.py to _booster.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_huntress.py to _huntress.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/commands/_partf.py to _partf.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/fitch/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/fitch/_fitch.py to _fitch.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/consensus/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/consensus/_consensus_day.py to _consensus_day.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/consensus/_consensus.py to _consensus.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/cna/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/cna/_cna.py to _cna.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_dendro.py to _dendro.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_cellphy.py to _cellphy.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_scistree.py to _scistree.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_grmt.py to _grmt.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_sphyr.py to _sphyr.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/huntress/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/huntress/_huntress.py to _huntress.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_bnb.py to _bnb.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_onconem.py to _onconem.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_gpps.py to _gpps.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_phiscs.py to _phiscs.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_scite.py to _scite.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_scelestial.py to _scelestial.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster/_dependencies.py to _dependencies.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster/_reconstruct_big_tree.py to _reconstruct_big_tree.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster/_subsamples.py to _subsamples.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/booster/_booster.py to _booster.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_siclonefit.py to _siclonefit.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_sasc.py to _sasc.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_cardelino.py to _cardelino.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_sbm.py to _sbm.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/solver/_sciphi.py to _sciphi.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/partition_function/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/partition_function/_partition_function.py to _partition_function.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/partition_function/_clt_sampler.py to _clt_sampler.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/partition_function/_pf.py to _pf.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/score/__init__.py to __init__.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/score/_ours.py to _ours.cpython-39.pyc
byte-compiling /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/tl/score/_others.py to _others.cpython-39.pyc
writing byte-compilation script '/tmp/tmpx__ex2n5.py'
/usr/bin/python3 /tmp/tmpx__ex2n5.py
removing /tmp/tmpx__ex2n5.py
running install_egg_info
running egg_info
writing trisicell.egg-info/PKG-INFO
writing dependency_links to trisicell.egg-info/dependency_links.txt
writing entry points to trisicell.egg-info/entry_points.txt
writing requirements to trisicell.egg-info/requires.txt
writing top-level names to trisicell.egg-info/top_level.txt
reading manifest file 'trisicell.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
no previously-included directories found matching '.scripts'
no previously-included directories found matching '.github'
adding license file 'LICENSE'
writing manifest file 'trisicell.egg-info/SOURCES.txt'
Copying trisicell.egg-info to /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell-0.2.1-py3.9.egg-info
running install_scripts
Installing trisicell script to /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/bin
+ install -d -m755 /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64//usr/share/doc/python-trisicell
+ '[' -d doc ']'
+ '[' -d docs ']'
+ cp -arf docs /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64//usr/share/doc/python-trisicell
+ '[' -d example ']'
+ '[' -d examples ']'
+ cp -arf examples /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64//usr/share/doc/python-trisicell
+ pushd /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64
~/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64 ~/build/BUILD/trisicell-0.2.1
+ '[' -d usr/lib ']'
+ '[' -d usr/lib64 ']'
+ find usr/lib64 -type f -printf '/%h/%f\n'
+ '[' -d usr/bin ']'
+ find usr/bin -type f -printf '/%h/%f\n'
+ '[' -d usr/sbin ']'
+ touch doclist.lst
+ '[' -d usr/share/man ']'
+ popd
~/build/BUILD/trisicell-0.2.1
+ mv /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/filelist.lst .
+ mv /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/doclist.lst .
+ /usr/bin/find-debuginfo -j4 --strict-build-id -i --build-id-seed 0.2.1-1 --unique-debug-suffix -0.2.1-1.x86_64 --unique-debug-src-base python-trisicell-0.2.1-1.x86_64 -S debugsourcefiles.list /builddir/build/BUILD/trisicell-0.2.1
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_scistree.cpython-39-x86_64-linux-gnu.so
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_mltd.cpython-39-x86_64-linux-gnu.so
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_scite.cpython-39-x86_64-linux-gnu.so
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_scprob.cpython-39-x86_64-linux-gnu.so
extracting debug info from /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_mltd.cpython-39-x86_64-linux-gnu.so
extracting debug info from /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_scite.cpython-39-x86_64-linux-gnu.so
extracting debug info from /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_scistree.cpython-39-x86_64-linux-gnu.so
extracting debug info from /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9/site-packages/trisicell/external/_scprob.cpython-39-x86_64-linux-gnu.so
3234 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1 1
Bytecompiling .py files below /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib64/python3.9 using /usr/bin/python3.9
Bytecompiling .py files below /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib/debug/usr/lib64/python3.9 using /usr/bin/python3.9
+ /usr/lib/rpm/brp-python-hardlink
Processing files: python3-trisicell-0.2.1-1.noarch
error: Directory not found: /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib/python3.9/site-packages/*
RPM build errors:
    Directory not found: /builddir/build/BUILDROOT/python-trisicell-0.2.1-1.x86_64/usr/lib/python3.9/site-packages/*
Child return code was: 1
EXCEPTION: [Error('Command failed: \n # bash --login -c /usr/bin/rpmbuild -bb  --target x86_64 --nodeps /builddir/build/SPECS/python-trisicell.spec\n', 1)]
Traceback (most recent call last):
  File "/usr/lib/python3.11/site-packages/mockbuild/trace_decorator.py", line 93, in trace
    result = func(*args, **kw)
             ^^^^^^^^^^^^^^^^^
  File "/usr/lib/python3.11/site-packages/mockbuild/util.py", line 598, in do_with_status
    raise exception.Error("Command failed: \n # %s\n%s" % (command, output), child.returncode)
mockbuild.exception.Error: Command failed: 
 # bash --login -c /usr/bin/rpmbuild -bb  --target x86_64 --nodeps /builddir/build/SPECS/python-trisicell.spec