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# Copyright 2021-2023 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=8
PYTHON_COMPAT=( python3_{10..11} )
DISTUTILS_USE_PEP517=setuptools
inherit distutils-r1
DESCRIPTION="offline/online spike sorting"
HOMEPAGE="https://github.com/tridesclous/tridesclous"
SRC_URI="https://github.com/tridesclous/tridesclous/archive/refs/tags/${PV}.tar.gz -> ${P}.gh.tar.gz"
LICENSE="MIT"
SLOT="0"
KEYWORDS="~amd64"
IUSE="gui test"
RDEPEND="
<dev-python/numpy-1.24.0[${PYTHON_USEDEP}]
dev-python/cython[${PYTHON_USEDEP}]
dev-python/hdbscan[${PYTHON_USEDEP}]
dev-python/loky[${PYTHON_USEDEP}]
dev-python/matplotlib[${PYTHON_USEDEP}]
dev-python/neo[${PYTHON_USEDEP}]
dev-python/numba
dev-python/openpyxl[${PYTHON_USEDEP}]
dev-python/pandas[${PYTHON_USEDEP}]
dev-python/scipy[${PYTHON_USEDEP}]
dev-python/seaborn[${PYTHON_USEDEP}]
dev-python/tqdm[${PYTHON_USEDEP}]
sci-libs/scikit-learn[${PYTHON_USEDEP}]
gui? (
dev-python/PyQt5[${PYTHON_USEDEP}]
)
"
distutils_enable_tests pytest
# Network sandboxing, this is sadly more than half the test suite :(
EPYTEST_DESELECT=(
tridesclous/tests/test_cleancluster.py::test_auto_split
tridesclous/tests/test_cleancluster.py::test_trash_not_aligned
tridesclous/tests/test_cleancluster.py::test_auto_merge
tridesclous/tests/test_cleancluster.py::test_trash_low_extremum
tridesclous/tests/test_cleancluster.py::test_trash_small_cluster
tridesclous/tests/test_cluster.py::test_sawchaincut
tridesclous/tests/test_cluster.py::test_pruningshears
tridesclous/tests/test_decomposition.py::test_all_decomposition
tridesclous/tests/test_export.py::test_export
tridesclous/tests/test_export.py::test_export_catalogue_spikes
tridesclous/tests/test_jobtools.py::test_run_parallel_signalprocessor
tridesclous/tests/test_matplotlibplot.py::test_plot_probe_geometry
tridesclous/tests/test_matplotlibplot.py::test_plot_signals
tridesclous/tests/test_matplotlibplot.py::test_plot_waveforms_with_geometry
tridesclous/tests/test_matplotlibplot.py::test_plot_waveforms
tridesclous/tests/test_matplotlibplot.py::test_plot_features_scatter_2d
tridesclous/tests/test_metrics.py::test_all_metrics
tridesclous/tests/test_metrics.py::test_cluster_ratio
tridesclous/tests/test_peeler.py::test_peeler_geometry
tridesclous/tests/test_peeler.py::test_peeler_geometry_cl
tridesclous/tests/test_peeler.py::test_peeler_empty_catalogue
tridesclous/tests/test_peeler.py::test_peeler_several_chunksize
tridesclous/tests/test_peeler.py::test_peeler_with_and_without_preprocessor
tridesclous/tests/test_peeler.py::test_export_spikes
tridesclous/tests/test_report.py::test_summary_catalogue_clusters
tridesclous/tests/test_report.py::test_summary_noise
tridesclous/tests/test_report.py::test_summary_after_peeler_clusters
tridesclous/tests/test_report.py::test_generate_report
tridesclous/tests/test_autoparams.py::test_get_auto_params
tridesclous/tests/test_catalogueconstructor.py::test_catalogue_constructor
tridesclous/tests/test_catalogueconstructor.py::test_make_catalogue
tridesclous/tests/test_catalogueconstructor.py::test_ratio_amplitude
tridesclous/tests/test_catalogueconstructor.py::test_create_savepoint_catalogue_constructor
tridesclous/tests/test_catalogueconstructor.py::test_feature_with_lda_selection
tridesclous/tests/test_cataloguetools.py::test_apply_all_catalogue_steps
tridesclous/tests/test_dataio.py::test_DataIO
tridesclous/tests/test_dataio.py::test_DataIO_probes
tridesclous/tests/test_datasets.py::test_download_dataset
tridesclous/tests/test_datasets.py::test_get_dataset
tridesclous/tests/test_datasource.py::test_RawDataSource
tridesclous/tests/test_datasource.py::test_NeoRawIOAggregator
tridesclous/tests/test_peakdetector.py::test_compare_offline_online_engines
tridesclous/tests/test_peakdetector.py::test_detect_geometrical_peaks
tridesclous/tests/test_peakdetector.py::test_peak_sign_symetry
tridesclous/tests/test_signalpreprocessor.py::test_compare_offline_online_engines
tridesclous/tests/test_signalpreprocessor.py::test_auto_pad_width
tridesclous/tests/test_tools.py::test_fix_prb_file_py2
)
python_test() {
local EPYTEST_IGNORE=(
tridesclous/online/tests/*
)
if use !gui ; then
local EPYTEST_IGNORE+=(
tridesclous/gui/*
)
fi
epytest
}
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