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progress on #409 CIRCE
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@PetrKralCZ
PetrKralCZ committed Sep 23, 2024
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42 changes: 42 additions & 0 deletions 409_CIRCE/CIRCE-20240722-foss-2023a.eb
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Expand Up @@ -39,6 +39,8 @@ exts_list = [
{'circe_py-0.2.2.tar.gz': '0b828b8819bf1f0a6884016deb73e8551ac1d505c9091fbff2643dd48ebcc20e'},
{'CIRCE-20240722_requirements.patch': '8d957f12732118cc36d2700ba2f18ebb260d288c1db372951d435e5aabe3a606'},
],
# build the C components and link `flexiblas` instead of `lapack`
'preinstallopts': "sed -i 's/lapack/flexiblas/g' build.py && echo here1 && poetry build && echo here2 && ",
}),
]

Expand Down Expand Up @@ -68,3 +70,43 @@ moduleclass = 'bio'
# ^^^^^^^^^^^
# AttributeError: module 'circe.pyquic' has no attribute 'quic'

# TODO still no `quic.py` in `lib/python3.11/site-packages/circe/pyquic/`
# Creating virtualenv circe-py-yjxQWa7c-py3.11 in /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/xdg-cache-home/pypoetry/virtualenvs
#
# ESC[1GESC[2KPreparing build environment with build-system requirements poetry>=0.12, setuptools, numpy<2.0Building circe-py (0.2.2)
# A setup.py file already exists. Using it.
# /tmp/vsc45304/eb-l3l1f3o9/tmplde8q1zg/.venv/lib/python3.11/site-packages/setuptools/_distutils/extension.py:139: UserWarning: Unknown Extension options: 'packages'
# warnings.warn(msg)
# running build
# running build_py
# creating /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/ccan_module.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/quic_graph_lasso.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/metacells.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/rank_correlation.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/inverse_covariance.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/metrics.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/circe.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/draw.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/__init__.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/ccan_module.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/quic_graph_lasso.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/metacells.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/rank_correlation.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/inverse_covariance.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/metrics.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/circe.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/draw.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# copying circe/__init__.py -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe
# creating /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe/pyquic
# copying circe/pyquic/pyquic.cpp -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe/pyquic
# copying circe/pyquic/QUIC.h -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe/pyquic
# copying circe/pyquic/QUIC.C -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe/pyquic
# copying circe/pyquic/pyquic.pyx -> /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe/pyquic
# running build_ext
# skipping 'circe/pyquic/pyquic.cpp' Cython extension (up-to-date)
# building 'circe.pyquic' extension
# creating /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/temp.linux-x86_64-cpython-311/circe/pyquic
# gcc -DNDEBUG -g -fwrapv -O3 -Wall -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC -O2 -ftree-vectorize -march=native -fno-math-errno -fPIC -O2 -ftree-vectorize -march=native -fno-math-errno -I/apps/gent/RHEL8/cascadelake-ib/software/FFTW/3.3.10-GCC-12.3.0/include -I/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/include -I/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/include/flexiblas -fPIC -I/apps/gent/RHEL8/cascadelake-ib/software/SciPy-bundle/2023.07-gfbf-2023a/lib/python3.11/site-packages/numpy/core/include -I/usr/local/include -I/tmp/vsc45304/eb-l3l1f3o9/tmplde8q1zg/.venv/include -I/apps/gent/RHEL8/cascadelake-ib/software/Python/3.11.3-GCCcore-12.3.0/include/python3.11 -c circe/pyquic/QUIC.C -o /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/temp.linux-x86_64-cpython-311/circe/pyquic/QUIC.o -msse2 -O2 -fPIC -w
# g++ -O2 -ftree-vectorize -march=native -fno-math-errno -I/apps/gent/RHEL8/cascadelake-ib/software/FFTW/3.3.10-GCC-12.3.0/include -I/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/include -I/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/include/flexiblas -fPIC -I/apps/gent/RHEL8/cascadelake-ib/software/SciPy-bundle/2023.07-gfbf-2023a/lib/python3.11/site-packages/numpy/core/include -I/usr/local/include -I/tmp/vsc45304/eb-l3l1f3o9/tmplde8q1zg/.venv/include -I/apps/gent/RHEL8/cascadelake-ib/software/Python/3.11.3-GCCcore-12.3.0/include/python3.11 -c circe/pyquic/pyquic.cpp -o /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/temp.linux-x86_64-cpython-311/circe/pyquic/pyquic.o -msse2 -O2 -fPIC -w
# g++ -O2 -ftree-vectorize -march=native -fno-math-errno -I/apps/gent/RHEL8/cascadelake-ib/software/FFTW/3.3.10-GCC-12.3.0/include -I/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/include -I/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/include/flexiblas -shared -L/apps/gent/RHEL8/cascadelake-ib/software/FFTW/3.3.10-GCC-12.3.0/lib64 -L/apps/gent/RHEL8/cascadelake-ib/software/FFTW/3.3.10-GCC-12.3.0/lib -L/scratch/gent/vo/001/gvo00117/easybuild/RHEL8/cascadelake-ampere-ib/software/ScaLAPACK/2.2.0-gompi-2023a-fb/lib64 -L/scratch/gent/vo/001/gvo00117/easybuild/RHEL8/cascadelake-ampere-ib/software/ScaLAPACK/2.2.0-gompi-2023a-fb/lib -L/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/lib64 -L/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/lib -L/apps/gent/RHEL8/cascadelake-ib/software/GCCcore/12.3.0/lib64 -L/apps/gent/RHEL8/cascadelake-ib/software/GCCcore/12.3.0/lib -O2 -ftree-vectorize -march=native -fno-math-errno -I/apps/gent/RHEL8/cascadelake-ib/software/FFTW/3.3.10-GCC-12.3.0/include -I/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/include -I/apps/gent/RHEL8/cascadelake-ib/software/FlexiBLAS/3.3.1-GCC-12.3.0/include/flexiblas /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/temp.linux-x86_64-cpython-311/circe/pyquic/QUIC.o /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/temp.linux-x86_64-cpython-311/circe/pyquic/pyquic.o -L/apps/gent/RHEL8/cascadelake-ib/software/Python/3.11.3-GCCcore-12.3.0/lib -o /tmp/vsc45304/easybuild/build/CIRCE/0.2.2/foss-2023a/circe_py/circe_py-0.2.2/build/lib.linux-x86_64-cpython-311/circe/pyquic.cpython-311-x86_64-linux-gnu.so -lflexiblas

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