dev-python/spikeinterface: PEP517

Signed-off-by: Horea Christian <chr@chymera.eu>

dev-python/spikeinterface/Manifest

@@ -1 +1,2 @@
 DIST spikeinterface-0.91.0.tar.gz 1226833 BLAKE2B a7c1404297216b552b400128cec48eaf6d78f71885a7810ce734af758ac079d6e58851f3e06d4f7cdb413a1f6757d7cbbd67c2578948334ef37db657d8bc3dc0 SHA512 bce2e6919238445d6209112f5ea0177476c5b4b025fbdf02d695bc5da56a9c6404d8d8d8e7dd9f7ec9c702b6752ab12b8b3efebe1e3c0141dd3a03cd16722912
+DIST spikeinterface-0.96.1.tar.gz 1596455 BLAKE2B 52b5d4f0b435433396e7d06b9a2ed83646280ebefb1f62f179f068a060f43898a822e41bf1500ec53087ad5410ee060806f415988606b0197d13d7a671a5603a SHA512 12de90a8d27e900489d36d0ca14edaac3d1abab1a29f0c41ff1d1648fbf11be09c6c01cb0bd1cc4e1d00a81303fab5ffcb4de596ae69be9508e0503edab768ef

dev-python/spikeinterface/metadata.xml

@@ -9,6 +9,10 @@
 		<email>sci@gentoo.org</email>
 		<name>Gentoo Science Project</name>
 	</maintainer>
+    <use>
+        <flag name="extractors">support for all extractors</flag>
+        <flag name="full">support for all optional processing features</flag>
+    </use>
 	<upstream>
 		<remote-id type="github">SpikeInterface/spikeinterface</remote-id>
 	</upstream>

dev-python/spikeinterface/spikeinterface-0.91.0.ebuild

@@ -3,8 +3,7 @@
 
 EAPI=8
 
-PYTHON_COMPAT=( python3_{9..10} )
+PYTHON_COMPAT=( python3_{10..10} )
-# 3.10 missing on numba and spyking-circus
 inherit distutils-r1
 
 DESCRIPTION="A Python-based module for creating flexible and robust spike sorting pipelines."

dev-python/spikeinterface/spikeinterface-0.96.1.ebuild

@@ -0,0 +1,93 @@
+# Copyright 2021-2023 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+PYTHON_COMPAT=( python3_{10..10} )
+DISTUTILS_USE_PEP517=setuptools
+inherit distutils-r1
+
+DESCRIPTION="A Python-based module for creating flexible and robust spike sorting pipelines."
+HOMEPAGE="https://github.com/SpikeInterface/spikeinterface"
+SRC_URI="https://github.com/SpikeInterface/spikeinterface/archive/refs/tags/${PV}.tar.gz -> ${P}.tar.gz"
+
+LICENSE="MIT"
+SLOT="0"
+KEYWORDS="~amd64"
+IUSE="extractors full test"
+
+RDEPEND="
+	dev-python/joblib[${PYTHON_USEDEP}]
+	dev-python/neo[${PYTHON_USEDEP}]
+	dev-python/numpy[${PYTHON_USEDEP}]
+	dev-python/probeinterface[${PYTHON_USEDEP}]
+	dev-python/threadpoolctl[${PYTHON_USEDEP}]
+	dev-python/tqdm[${PYTHON_USEDEP}]
+	extractors? (
+		dev-python/pynwb[${PYTHON_USEDEP}]
+		dev-python/lxml[${PYTHON_USEDEP}]
+		dev-python/scipy[${PYTHON_USEDEP}]
+	)
+	full? (
+		dev-python/distinctipy[${PYTHON_USEDEP}]
+		dev-python/h5py[${PYTHON_USEDEP}]
+		dev-python/matplotlib[${PYTHON_USEDEP}]
+		dev-python/networkx[${PYTHON_USEDEP}]
+		dev-python/pandas[${PYTHON_USEDEP}]
+		dev-python/scipy[${PYTHON_USEDEP}]
+		dev-python/xarray[${PYTHON_USEDEP}]
+		dev-python/zarr[${PYTHON_USEDEP}]
+		sci-libs/scikit-learn[${PYTHON_USEDEP}]
+	)
+"
+# Also wants:
+# # Extractors:
+# 	MEArec
+# 	pyedflib
+# 	sonpy
+# 	dev-python/hdf5storage (in ::science, masked)
+
+distutils_enable_tests pytest
+
+# Test failures reported upstream:
+# https://github.com/SpikeInterface/spikeinterface/issues/307
+python_test() {
+	# Network sandboxing, mostly (?)
+	local EPYTEST_DESELECT=(
+		spikeinterface/core/tests/test_datasets.py::test_download_dataset
+		spikeinterface/sortingcomponents/tests/test_motion_estimation.py::test_motion_functions
+		spikeinterface/sortingcomponents/tests/test_motion_estimation.py::test_estimate_motion_rigid
+		spikeinterface/sortingcomponents/tests/test_motion_estimation.py::test_estimate_motion_non_rigid
+		spikeinterface/comparison/tests/test_multisortingcomparison.py::test_compare_multiple_sorters
+		spikeinterface/curation/tests/test_sortingview_curation.py::test_sortingview_curation
+		spikeinterface/exporters/tests/test_export_to_phy.py::test_export_to_phy
+		spikeinterface/exporters/tests/test_export_to_phy.py::test_export_to_phy_by_sparsity
+		spikeinterface/exporters/tests/test_report.py::test_export_report
+		spikeinterface/extractors/tests/test_neoextractors.py
+		spikeinterface/sorters/tests/test_launcher.py::test_run_sorters_with_dict
+		spikeinterface/sorters/tests/test_launcher.py::test_sorter_installation
+		spikeinterface/sorters/tests/test_runsorter.py::test_run_sorter_local
+		spikeinterface/sorters/tests/test_runsorter.py::test_run_sorter_docker
+		spikeinterface/sorters/tests/test_runsorter.py::test_run_sorter_singularity
+		spikeinterface/sorters/tests/test_si_based_sorters.py::SpykingCircus2SorterCommonTestSuite
+		spikeinterface/sorters/tests/test_si_based_sorters.py::Tridesclous2SorterCommonTestSuite::test_with_class
+		spikeinterface/sorters/tests/test_si_based_sorters.py::Tridesclous2SorterCommonTestSuite::test_with_run
+		spikeinterface/sortingcomponents/tests/test_clustering.py::test_find_cluster_from_peaks
+		spikeinterface/sortingcomponents/tests/test_features_from_peaks.py::test_features_from_peaks
+		spikeinterface/sortingcomponents/tests/test_peak_detection.py::test_detect_peaks
+		spikeinterface/sortingcomponents/tests/test_peak_localization.py::test_localize_peaks
+		spikeinterface/sortingcomponents/tests/test_peak_pipeline.py::test_run_peak_pipeline
+		spikeinterface/sortingcomponents/tests/test_peak_selection.py::test_detect_peaks
+		spikeinterface/sortingcomponents/tests/test_template_matching.py::test_find_spikes_from_templates
+		spikeinterface/widgets/tests/test_widgets.py::TestWidgets
+	)
+	# Reported upstream:
+	# https://github.com/SpikeInterface/spikeinterface/issues/307#issuecomment-1410840998
+	EPYTEST_DESELECT+=(
+		spikeinterface/sorters/tests/test_launcher.py::test_collect_sorting_outputs
+	)
+	local EPYTEST_IGNORE=(
+		spikeinterface/widgets/_legacy_mpl_widgets/tests/*
+	)
+	epytest
+}