Attachment 1979272 Details for Bug 2226296 – build.log

build.log

build.log (text/plain), 32.00 KB, created by Fedora Release Engineering on 2023-07-25 19:41:40 UTC

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Creator: Fedora Release Engineering

Created: 2023-07-25 19:41:40 UTC

Size: 32.00 KB

patch

obsolete

>t
>  adding 'pyphi/__about__.py'
>  adding 'pyphi/__init__.py'
>  adding 'pyphi/actual.py'
>  adding 'pyphi/cache.py'
>  adding 'pyphi/conf.py'
>  adding 'pyphi/connectivity.py'
>  adding 'pyphi/constants.py'
>  adding 'pyphi/convert.py'
>  adding 'pyphi/db.py'
>  adding 'pyphi/direction.py'
>  adding 'pyphi/distance.py'
>  adding 'pyphi/distribution.py'
>  adding 'pyphi/examples.py'
>  adding 'pyphi/exceptions.py'
>  adding 'pyphi/jsonify.py'
>  adding 'pyphi/labels.py'
>  adding 'pyphi/log.py'
>  adding 'pyphi/macro.py'
>  adding 'pyphi/memory.py'
>  adding 'pyphi/network.py'
>  adding 'pyphi/node.py'
>  adding 'pyphi/partition.py'
>  adding 'pyphi/registry.py'
>  adding 'pyphi/subsystem.py'
>  adding 'pyphi/timescale.py'
>  adding 'pyphi/tpm.py'
>  adding 'pyphi/utils.py'
>  adding 'pyphi/validate.py'
>  adding 'pyphi/compute/__init__.py'
>  adding 'pyphi/compute/distance.py'
>  adding 'pyphi/compute/network.py'
>  adding 'pyphi/compute/parallel.py'
>  adding 'pyphi/compute/subsystem.py'
>  adding 'pyphi/data/hamming_matrices/0.npy'
>  adding 'pyphi/data/hamming_matrices/1.npy'
>  adding 'pyphi/data/hamming_matrices/2.npy'
>  adding 'pyphi/data/hamming_matrices/3.npy'
>  adding 'pyphi/data/hamming_matrices/4.npy'
>  adding 'pyphi/data/hamming_matrices/5.npy'
>  adding 'pyphi/data/hamming_matrices/6.npy'
>  adding 'pyphi/data/hamming_matrices/7.npy'
>  adding 'pyphi/data/hamming_matrices/8.npy'
>  adding 'pyphi/data/hamming_matrices/9.npy'
>  adding 'pyphi/data/partition_lists/0.npy'
>  adding 'pyphi/data/partition_lists/1.npy'
>  adding 'pyphi/data/partition_lists/2.npy'
>  adding 'pyphi/data/partition_lists/3.npy'
>  adding 'pyphi/data/partition_lists/4.npy'
>  adding 'pyphi/data/partition_lists/5.npy'
>  adding 'pyphi/data/partition_lists/6.npy'
>  adding 'pyphi/data/partition_lists/7.npy'
>  adding 'pyphi/data/partition_lists/8.npy'
>  adding 'pyphi/data/partition_lists/9.npy'
>  adding 'pyphi/models/__init__.py'
>  adding 'pyphi/models/actual_causation.py'
>  adding 'pyphi/models/cmp.py'
>  adding 'pyphi/models/cuts.py'
>  adding 'pyphi/models/fmt.py'
>  adding 'pyphi/models/mechanism.py'
>  adding 'pyphi/models/subsystem.py'
>  adding 'pyphi-1.2.1.dist-info/LICENSE.md'
>  adding 'pyphi-1.2.1.dist-info/METADATA'
>  adding 'pyphi-1.2.1.dist-info/WHEEL'
>  adding 'pyphi-1.2.1.dist-info/top_level.txt'
>  adding 'pyphi-1.2.1.dist-info/RECORD'
>  removing build/bdist.linux-aarch64/wheel
>  Building wheel for pyphi (pyproject.toml): finished with status 'done'
>  Created wheel for pyphi: filename=pyphi-1.2.1-py3-none-any.whl size=618930 sha256=b070b9759677b5a0a12ee3f9f2a98290f73dc7fe1c2c639fcb20d9bd97a02160
>  Stored in directory: /builddir/.cache/pip/wheels/f5/72/76/c4fbf2f364c14220bcfcde385d5b0b7f48cd24b3be9a1b7b00
>Successfully built pyphi
>+ /usr/bin/make -O -j8 V=1 VERBOSE=1 -C docs latex SPHINXOPTS=-j8
>make: Entering directory '/builddir/build/BUILD/pyphi-1.2.1/docs'
>sphinx-build -b latex -d _build/doctrees  -j8 . _build/latex
>Running Sphinx v6.2.1
>Welcome to PyPhi!
>If you use PyPhi in your research, please cite the paper:
>  Mayner WGP, Marshall W, Albantakis L, Findlay G, Marchman R, Tononi G.
>  (2018). PyPhi: A toolbox for integrated information theory.
>  PLOS Computational Biology 14(7): e1006343.
>  https://doi.org/10.1371/journal.pcbi.1006343
>Documentation is available online (or with the built-in `help()` function):
>  https://pyphi.readthedocs.io
>To report issues, please use the issue tracker on the GitHub repository:
>  https://github.com/wmayner/pyphi
>For general discussion, you are welcome to join the pyphi-users group:
>  https://groups.google.com/forum/#!forum/pyphi-users
>To suppress this message, either:
>  - Set `WELCOME_OFF: true` in your `pyphi_config.yml` file, or
>  - Set the environment variable PYPHI_WELCOME_OFF to any value in your shell:
>        export PYPHI_WELCOME_OFF='yes'
>making output directory... done
>building [mo]: targets for 0 po files that are out of date
>writing output... 
>building [latex]: all documents
>updating environment: [new config] 45 added, 0 changed, 0 removed
>reading sources... [ 11%] api/actual .. api/compute.network
>reading sources... [ 22%] api/compute.parallel .. api/constants
>reading sources... [ 33%] api/convert .. api/examples
>reading sources... [ 44%] api/exceptions .. api/models.actual_causation
>reading sources... [ 55%] api/models.cuts .. api/node
>reading sources... [ 66%] api/partition .. api/utils
>reading sources... [ 77%] api/validate .. examples/2014paper
>reading sources... [ 88%] examples/actual_causation .. examples/magic_cut
>reading sources... [100%] examples/residue .. macos_installation
>looking for now-outdated files... none found
>pickling environment... done
>checking consistency... done
>processing PyPhi.tex... index installation examples/index examples/2014paper examples/conditional_independence examples/xor examples/emergence examples/actual_causation examples/residue examples/magic_cut macos_installation conventions configuration caching api/actual api/cache api/compute api/compute.distance api/compute.network api/compute.parallel api/compute.subsystem api/conf api/connectivity api/constants api/convert api/direction api/distance api/distribution api/examples api/exceptions api/jsonify api/macro api/models api/models.actual_causation api/models.cuts api/models.mechanism api/models.subsystem api/network api/node api/partition api/subsystem api/timescale api/tpm api/utils api/validate 
>resolving references...
>done
>writing... done
>copying images... [100%] _static/connectivity-matrix-example-network.png
>copying TeX support files... copying TeX support files...
>done
>build succeeded, 7 warnings.
>The LaTeX files are in _build/latex.
>Run 'make' in that directory to run these through (pdf)latex
>(use `make latexpdf' here to do that automatically).
>Build finished; the LaTeX files are in _build/latex.
>Run `make' in that directory to run these through (pdf)latex (use `make latexpdf' here to do that automatically).
>make: Leaving directory '/builddir/build/BUILD/pyphi-1.2.1/docs'
>/builddir/build/BUILD/pyphi-1.2.1/pyphi/models/cuts.py:docstring of pyphi.models.cuts.Cut.from_nodes:1: WARNING: duplicate object description of pyphi.models.cuts.Cut.from_nodes, other instance in api/models.cuts, use :noindex: for one of them
>/builddir/build/BUILD/pyphi-1.2.1/pyphi/models/cuts.py:docstring of pyphi.models.cuts.Cut.to_nodes:1: WARNING: duplicate object description of pyphi.models.cuts.Cut.to_nodes, other instance in api/models.cuts, use :noindex: for one of them
>/builddir/build/BUILD/pyphi-1.2.1/pyphi/actual.py:docstring of pyphi.actual.Transition:67: WARNING: duplicate object description of pyphi.actual.Transition.cause_system, other instance in api/actual, use :noindex: for one of them
>/builddir/build/BUILD/pyphi-1.2.1/pyphi/macro.py:docstring of pyphi.macro.MacroNetwork.emergence:1: WARNING: duplicate object description of pyphi.macro.MacroNetwork.emergence, other instance in api/macro, use :noindex: for one of them
>/builddir/build/BUILD/pyphi-1.2.1/pyphi/actual.py:docstring of pyphi.actual.true_events:1: WARNING: more than one target found for cross-reference 'AcSystemIrreducibilityAnalysis': pyphi.models.AcSystemIrreducibilityAnalysis, pyphi.models.actual_causation.AcSystemIrreducibilityAnalysis
>/builddir/build/BUILD/pyphi-1.2.1/pyphi/actual.py:docstring of pyphi.actual.extrinsic_events:1: WARNING: more than one target found for cross-reference 'AcSystemIrreducibilityAnalysis': pyphi.models.AcSystemIrreducibilityAnalysis, pyphi.models.actual_causation.AcSystemIrreducibilityAnalysis
>/builddir/build/BUILD/pyphi-1.2.1/pyphi/subsystem.py:docstring of pyphi.subsystem.Subsystem:1: WARNING: more than one target found for cross-reference 'Cut': pyphi.models.cuts.Cut, pyphi.models.Cut
>+ /usr/bin/make -O -j8 V=1 VERBOSE=1 -C docs/_build/latex LATEXMKOPTS=-quiet
>make: Entering directory '/builddir/build/BUILD/pyphi-1.2.1/docs/_build/latex'
>latexmk -pdf -dvi- -ps- -quiet 'PyPhi.tex'
>Rc files read:
>  /etc/latexmkrc
>  latexmkrc
>Latexmk: Run number 1 of rule 'pdflatex'
>This is XeTeX, Version 3.141592653-2.6-0.999995 (TeX Live 2023) (preloaded format=xelatex)
> restricted \write18 enabled.
>entering extended mode
>Latexmk: Getting log file 'PyPhi.log'
>Latexmk: Run number 1 of rule 'makeindex PyPhi.idx'
>Latexmk: Run number 2 of rule 'pdflatex'
>This is XeTeX, Version 3.141592653-2.6-0.999995 (TeX Live 2023) (preloaded format=xelatex)
> restricted \write18 enabled.
>entering extended mode
>Latexmk: Getting log file 'PyPhi.log'
>Latexmk: Run number 3 of rule 'pdflatex'
>This is XeTeX, Version 3.141592653-2.6-0.999995 (TeX Live 2023) (preloaded format=xelatex)
> restricted \write18 enabled.
>entering extended mode
>Latexmk: Getting log file 'PyPhi.log'
>Latexmk: Summary of warnings from last run of *latex:
>  =====Latex reported missing or unavailable character(s).
>=====See log file for details.
>make: Leaving directory '/builddir/build/BUILD/pyphi-1.2.1/docs/_build/latex'
>Latexmk: ====List of undefined refs and citations:
>  Missing character: There is no â¤ (U+27A4) in font [FreeMono.otf]/OT:script=latn;language=dflt;!
>  Missing character: There is no â¤ (U+27A4) in font [FreeMono.otf]/OT:script=latn;language=dflt;!
>+ RPM_EC=0
>++ jobs -p
>+ exit 0
>Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.OMruPu
>+ umask 022
>+ cd /builddir/build/BUILD
>+ '[' /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64 '!=' / ']'
>+ rm -rf /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64
>++ dirname /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64
>+ mkdir -p /builddir/build/BUILDROOT
>+ mkdir /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64
>+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
>+ export CFLAGS
>+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
>+ export CXXFLAGS
>+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
>+ export FFLAGS
>+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
>+ export FCFLAGS
>+ VALAFLAGS=-g
>+ export VALAFLAGS
>+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
>+ export RUSTFLAGS
>+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
>+ export LDFLAGS
>+ LT_SYS_LIBRARY_PATH=/usr/lib64:
>+ export LT_SYS_LIBRARY_PATH
>+ CC=gcc
>+ export CC
>+ CXX=g++
>+ export CXX
>+ cd pyphi-1.2.1
>++ ls /builddir/build/BUILD/pyphi-1.2.1/pyproject-wheeldir/pyphi-1.2.1-py3-none-any.whl
>++ sed -E 's/([^-]+)-([^-]+)-.+\.whl/\1==\2/'
>++ xargs basename --multiple
>+ specifier=pyphi==1.2.1
>+ TMPDIR=/builddir/build/BUILD/pyphi-1.2.1/.pyproject-builddir
>+ /usr/bin/python3 -m pip install --root /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64 --prefix /usr --no-deps --disable-pip-version-check --progress-bar off --verbose --ignore-installed --no-warn-script-location --no-index --no-cache-dir --find-links /builddir/build/BUILD/pyphi-1.2.1/pyproject-wheeldir pyphi==1.2.1
>Using pip 23.1.2 from /usr/lib/python3.12/site-packages/pip (python 3.12)
>Looking in links: /builddir/build/BUILD/pyphi-1.2.1/pyproject-wheeldir
>Processing ./pyproject-wheeldir/pyphi-1.2.1-py3-none-any.whl
>Installing collected packages: pyphi
>Successfully installed pyphi-1.2.1
>+ '[' -d /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/bin ']'
>+ rm -f /builddir/build/BUILD/python-pyphi-1.2.1-19.fc39.aarch64-pyproject-ghost-distinfo
>+ site_dirs=()
>+ '[' -d /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12/site-packages ']'
>+ site_dirs+=("/usr/lib/python3.12/site-packages")
>+ '[' /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib64/python3.12/site-packages '!=' /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12/site-packages ']'
>+ '[' -d /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib64/python3.12/site-packages ']'
>+ for site_dir in ${site_dirs[@]}
>+ for distinfo in /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64$site_dir/*.dist-info
>+ echo '%ghost /usr/lib/python3.12/site-packages/pyphi-1.2.1.dist-info'
>+ sed -i s/pip/rpm/ /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12/site-packages/pyphi-1.2.1.dist-info/INSTALLER
>+ PYTHONPATH=/usr/lib/rpm/redhat
>+ /usr/bin/python3 -B /usr/lib/rpm/redhat/pyproject_preprocess_record.py --buildroot /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64 --record /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12/site-packages/pyphi-1.2.1.dist-info/RECORD --output /builddir/build/BUILD/python-pyphi-1.2.1-19.fc39.aarch64-pyproject-record
>+ rm -fv /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12/site-packages/pyphi-1.2.1.dist-info/RECORD
>removed '/builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12/site-packages/pyphi-1.2.1.dist-info/RECORD'
>+ rm -fv /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12/site-packages/pyphi-1.2.1.dist-info/REQUESTED
>removed '/builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12/site-packages/pyphi-1.2.1.dist-info/REQUESTED'
>++ wc -l /builddir/build/BUILD/python-pyphi-1.2.1-19.fc39.aarch64-pyproject-ghost-distinfo
>++ cut -f1 '-d '
>+ lines=1
>+ '[' 1 -ne 1 ']'
>+ RPM_PERCENTAGES_COUNT=2
>+ /usr/bin/python3 /usr/lib/rpm/redhat/pyproject_save_files.py --output-files /builddir/build/BUILD/python-pyphi-1.2.1-19.fc39.aarch64-pyproject-files --output-modules /builddir/build/BUILD/python-pyphi-1.2.1-19.fc39.aarch64-pyproject-modules --buildroot /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64 --sitelib /usr/lib/python3.12/site-packages --sitearch /usr/lib64/python3.12/site-packages --python-version 3.12 --pyproject-record /builddir/build/BUILD/python-pyphi-1.2.1-19.fc39.aarch64-pyproject-record --prefix /usr pyphi
>+ /usr/lib/rpm/check-buildroot
>+ /usr/lib/rpm/redhat/brp-ldconfig
>+ /usr/lib/rpm/brp-compress
>+ /usr/lib/rpm/brp-strip /usr/bin/strip
>+ /usr/lib/rpm/brp-strip-comment-note /usr/bin/strip /usr/bin/objdump
>+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
>+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
>+ /usr/lib/rpm/check-rpaths
>+ /usr/lib/rpm/redhat/brp-mangle-shebangs
>+ /usr/lib/rpm/brp-remove-la-files
>+ env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j8
>Bytecompiling .py files below /builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12 using python3.12
>+ /usr/lib/rpm/redhat/brp-python-hardlink
>Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.3hzPwG
>+ umask 022
>+ cd /builddir/build/BUILD
>+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
>+ export CFLAGS
>+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
>+ export CXXFLAGS
>+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
>+ export FFLAGS
>+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer -I/usr/lib64/gfortran/modules '
>+ export FCFLAGS
>+ VALAFLAGS=-g
>+ export VALAFLAGS
>+ RUSTFLAGS='-Copt-level=3 -Cdebuginfo=2 -Ccodegen-units=1 -Cforce-frame-pointers=yes -Clink-arg=-Wl,-z,relro -Clink-arg=-Wl,-z,now -Clink-arg=-specs=/usr/lib/rpm/redhat/redhat-package-notes --cap-lints=warn'
>+ export RUSTFLAGS
>+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
>+ export LDFLAGS
>+ LT_SYS_LIBRARY_PATH=/usr/lib64:
>+ export LT_SYS_LIBRARY_PATH
>+ CC=gcc
>+ export CC
>+ CXX=g++
>+ export CXX
>+ cd pyphi-1.2.1
>+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fno-omit-frame-pointer -mno-omit-leaf-frame-pointer '
>+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes '
>+ PATH=/builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin
>+ PYTHONPATH=/builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib64/python3.12/site-packages:/builddir/build/BUILDROOT/python-pyphi-1.2.1-19.fc39.aarch64/usr/lib/python3.12/site-packages
>+ PYTHONDONTWRITEBYTECODE=1
>+ PYTEST_ADDOPTS=' --ignore=/builddir/build/BUILD/pyphi-1.2.1/.pyproject-builddir'
>+ PYTEST_XDIST_AUTO_NUM_WORKERS=8
>+ /usr/bin/pytest
>============================= test session starts ==============================
>platform linux -- Python 3.12.0b4, pytest-7.3.2, pluggy-1.0.0 -- /usr/bin/python3
>cachedir: .pytest_cache
>rootdir: /builddir/build/BUILD/pyphi-1.2.1
>configfile: pytest.ini
>plugins: lazy-fixture-0.6.3
>collecting ... collected 578 items
>docs/conventions.rst::conventions.rst PASSED                             [  0%]
>docs/examples/2014paper.rst::2014paper.rst FAILED                        [  0%]
>=================================== FAILURES ===================================
>___________________________ [doctest] 2014paper.rst ____________________________
>549 
>550 Figure 12
>551 ~~~~~~~~~
>552 
>553 **Assessing the integrated conceptual information Î¦ of a constellation C.**
>554 
>555 To calculate :math:`\Phi^{\textrm{MIP}}` for a candidate set, we use the
>556 function |compute.sia()|:
>557 
>558     >>> sia = pyphi.compute.sia(subsystem)
>UNEXPECTED EXCEPTION: ValueError("Unable to configure handler 'queue'")
>Traceback (most recent call last):
>  File "/usr/lib64/python3.12/doctest.py", line 1357, in __run
>    exec(compile(example.source, filename, "single",
>  File "<doctest 2014paper.rst[78]>", line 1, in <module>
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/compute/subsystem.py", line 323, in sia
>    return _sia(_sia_cache_key(subsystem), subsystem)
>           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/memory.py", line 35, in wrapper
>    return f(*args, **kwargs)
>           ^^^^^^^^^^^^^^^^^^
>  File "/usr/lib/python3.12/site-packages/decorator.py", line 232, in fun
>    return caller(func, *(extras + args), **kw)
>           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/utils.py", line 213, in time_annotated
>    result = func(*args, **kwargs)
>             ^^^^^^^^^^^^^^^^^^^^^
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/compute/subsystem.py", line 262, in _sia
>    unpartitioned_ces = _ces(subsystem)
>                        ^^^^^^^^^^^^^^^
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/compute/subsystem.py", line 208, in _ces
>    return ces(subsystem, parallel=config.PARALLEL_CUT_EVALUATION)
>           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>  File "/usr/lib/python3.12/site-packages/decorator.py", line 232, in fun
>    return caller(func, *(extras + args), **kw)
>           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/utils.py", line 213, in time_annotated
>    result = func(*args, **kwargs)
>             ^^^^^^^^^^^^^^^^^^^^^
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/compute/subsystem.py", line 96, in ces
>    return CauseEffectStructure(engine.run(parallel or
>                                ^^^^^^^^^^^^^^^^^^^^^^
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/compute/parallel.py", line 331, in run
>    return self.run_parallel()
>           ^^^^^^^^^^^^^^^^^^^
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/compute/parallel.py", line 266, in run_parallel
>    r.reraise()
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/compute/parallel.py", line 64, in reraise
>    raise self.exception.with_traceback(self.tb.as_traceback())
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/compute/parallel.py", line 174, in worker
>    configure_worker_logging(log_queue)
>    ^^^^^^^^^^^^^^^^^
>  File "/builddir/build/BUILD/pyphi-1.2.1/pyphi/compute/parallel.py", line 361, in configure_worker_logging
>    logging.config.dictConfig(
>      ^^^^^^^^^^^^^^^^^
>  File "/usr/lib64/python3.12/logging/config.py", line 912, in dictConfig
>    dictConfigClass(config).configure()
>      ^^^^^^^^^^^^^^^^^
>  File "/usr/lib64/python3.12/logging/config.py", line 588, in configure
>    raise ValueError('Unable to configure handler '
>    ^^^^^^^^^^^^^^^^^
>ValueError: Unable to configure handler 'queue'
>/builddir/build/BUILD/pyphi-1.2.1/docs/examples/2014paper.rst:558: UnexpectedException
>------------------------------ Captured log setup ------------------------------
>INFO     pyphi.test:conftest.py:142 Flushing caches...
>------------------------------ Captured log call -------------------------------
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (0,)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (0,)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (0,)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (0,)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (1,)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (1,)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (2,)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (2,)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (0, 1)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (0, 1)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (0, 2)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (0, 2)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (1, 2)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (1, 2)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (0, 1, 2)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (0, 1, 2)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (0,)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (0,)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (1,)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (1,)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (2,)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (2,)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (0, 1)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (0, 1)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (0, 2)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (0, 2)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (1, 2)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (1, 2)
>DEBUG    pyphi.subsystem:subsystem.py:765 Computing concept (0, 1, 2)...
>DEBUG    pyphi.subsystem:subsystem.py:778 Found concept (0, 1, 2)
>INFO     pyphi.compute.subsystem:subsystem.py:226 Calculating big-phi data for Subsystem(A, B, C)...
>DEBUG    pyphi.compute.subsystem:subsystem.py:261 Finding unpartitioned CauseEffectStructure...
>DEBUG    pyphi.compute.parallel:parallel.py:349 Log thread started
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting (0,) on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting (1,) on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting (2,) on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting (0, 1) on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting (0, 2) on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting (1, 2) on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting (0, 1, 2) on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting None on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting None on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting None on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting None on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting None on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting None on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting None on queue
>DEBUG    pyphi.compute.parallel:parallel.py:236 Putting None on queue
>DEBUG    pyphi.compute.parallel:parallel.py:280 Removing progress bar
>=============================== warnings summary ===============================
>../../../../usr/lib64/python3.12/site-packages/bson/__init__.py:193
>  /usr/lib64/python3.12/site-packages/bson/__init__.py:193: DeprecationWarning: datetime.utcfromtimestamp() is deprecated and scheduled for removal in a future version. Use timezone-aware objects to represent datetimes in UTC: datetime.fromtimestamp(timestamp, datetime.UTC).
>    EPOCH_NAIVE = datetime.datetime.utcfromtimestamp(0)
>../../../../usr/lib/python3.12/site-packages/pkg_resources/__init__.py:121
>  /usr/lib/python3.12/site-packages/pkg_resources/__init__.py:121: DeprecationWarning: pkg_resources is deprecated as an API
>    warnings.warn("pkg_resources is deprecated as an API", DeprecationWarning)
>../../../../usr/lib/python3.12/site-packages/pkg_resources/__init__.py:2870
>../../../../usr/lib/python3.12/site-packages/pkg_resources/__init__.py:2870
>../../../../usr/lib/python3.12/site-packages/pkg_resources/__init__.py:2870
>../../../../usr/lib/python3.12/site-packages/pkg_resources/__init__.py:2870
>../../../../usr/lib/python3.12/site-packages/pkg_resources/__init__.py:2870
>../../../../usr/lib/python3.12/site-packages/pkg_resources/__init__.py:2870
>  /usr/lib/python3.12/site-packages/pkg_resources/__init__.py:2870: DeprecationWarning: Deprecated call to `pkg_resources.declare_namespace('sphinxcontrib')`.
>  Implementing implicit namespace packages (as specified in PEP 420) is preferred to `pkg_resources.declare_namespace`. See https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages
>    declare_namespace(pkg)
>docs/examples/2014paper.rst::2014paper.rst
>docs/examples/2014paper.rst::2014paper.rst
>docs/examples/2014paper.rst::2014paper.rst
>docs/examples/2014paper.rst::2014paper.rst
>docs/examples/2014paper.rst::2014paper.rst
>docs/examples/2014paper.rst::2014paper.rst
>docs/examples/2014paper.rst::2014paper.rst
>docs/examples/2014paper.rst::2014paper.rst
>  /usr/lib64/python3.12/multiprocessing/popen_fork.py:66: DeprecationWarning: This process (pid=751) is multi-threaded, use of fork() may lead to deadlocks in the child.
>    self.pid = os.fork()
>-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
>============================= slowest 5 durations ==============================
>0.10s call     docs/examples/2014paper.rst::2014paper.rst
>0.00s call     docs/conventions.rst::conventions.rst
>0.00s setup    docs/conventions.rst::conventions.rst
>0.00s setup    docs/examples/2014paper.rst::2014paper.rst
>0.00s teardown docs/examples/2014paper.rst::2014paper.rst
>=========================== short test summary info ============================
>FAILED docs/examples/2014paper.rst::2014paper.rst
>!!!!!!!!!!!!!!!!!!!!!!!!!! stopping after 1 failures !!!!!!!!!!!!!!!!!!!!!!!!!!!
>=================== 1 failed, 1 passed, 16 warnings in 1.53s ===================
>error: Bad exit status from /var/tmp/rpm-tmp.3hzPwG (%check)
>RPM build errors:
>    Bad exit status from /var/tmp/rpm-tmp.3hzPwG (%check)
>Child return code was: 1
>EXCEPTION: [Error('Command failed: \n # /usr/bin/systemd-nspawn -q -M 4469ccc53c6e415badd47e055b414da8 -D /var/lib/mock/f39-build-44340529-5276606/root -a -u mockbuild --capability=cap_ipc_lock --bind=/tmp/mock-resolv.bvmz2dpu:/etc/resolv.conf --bind=/dev/btrfs-control --bind=/dev/mapper/control --bind=/dev/loop-control --bind=/dev/loop0 --bind=/dev/loop1 --bind=/dev/loop2 --bind=/dev/loop3 --bind=/dev/loop4 --bind=/dev/loop5 --bind=/dev/loop6 --bind=/dev/loop7 --bind=/dev/loop8 --bind=/dev/loop9 --bind=/dev/loop10 --bind=/dev/loop11 --console=pipe --setenv=TERM=vt100 --setenv=SHELL=/bin/bash --setenv=HOME=/builddir --setenv=HOSTNAME=mock --setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin --setenv=PROMPT_COMMAND=printf "\\033]0;<mock-chroot>\\007" --setenv=PS1=<mock-chroot> \\s-\\v\\$  --setenv=LANG=C.UTF-8 --resolv-conf=off bash --login -c /usr/bin/rpmbuild -ba --noprep --noclean --target aarch64 --nodeps /builddir/build/SPECS/python-pyphi.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 597, in do_with_status
>    raise exception.Error("Command failed: \n # %s\n%s" % (command, output), child.returncode)
>mockbuild.exception.Error: Command failed: 
> # /usr/bin/systemd-nspawn -q -M 4469ccc53c6e415badd47e055b414da8 -D /var/lib/mock/f39-build-44340529-5276606/root -a -u mockbuild --capability=cap_ipc_lock --bind=/tmp/mock-resolv.bvmz2dpu:/etc/resolv.conf --bind=/dev/btrfs-control --bind=/dev/mapper/control --bind=/dev/loop-control --bind=/dev/loop0 --bind=/dev/loop1 --bind=/dev/loop2 --bind=/dev/loop3 --bind=/dev/loop4 --bind=/dev/loop5 --bind=/dev/loop6 --bind=/dev/loop7 --bind=/dev/loop8 --bind=/dev/loop9 --bind=/dev/loop10 --bind=/dev/loop11 --console=pipe --setenv=TERM=vt100 --setenv=SHELL=/bin/bash --setenv=HOME=/builddir --setenv=HOSTNAME=mock --setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin --setenv=PROMPT_COMMAND=printf "\033]0;<mock-chroot>\007" --setenv=PS1=<mock-chroot> \s-\v\$  --setenv=LANG=C.UTF-8 --resolv-conf=off bash --login -c /usr/bin/rpmbuild -ba --noprep --noclean --target aarch64 --nodeps /builddir/build/SPECS/python-pyphi.spec
>

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Attachments on bug 2226296: 1979272 | 1979273 | 1979274