102 lines
4.2 KiB
Bash
102 lines
4.2 KiB
Bash
# Copyright 2021-2023 Gentoo Authors
|
|
# Distributed under the terms of the GNU General Public License v2
|
|
|
|
EAPI=8
|
|
|
|
PYTHON_COMPAT=( python3_{8..10} )
|
|
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
|
|
}
|