commit: 95e72af97822eef8d7f6273b1f2751b9f4fbb670 Author: Horea Christian <chr <AT> chymera <DOT> eu> AuthorDate: Tue May 2 22:46:33 2023 +0000 Commit: Horea Christian <horea.christ <AT> gmail <DOT> com> CommitDate: Tue May 2 22:47:38 2023 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=95e72af9
sci-biology/neuroconv: brought back This reverts commit 3f8ff1293b126e52932e381d68d6451f65f11229. Signed-off-by: Horea Christian <chr <AT> chymera.eu> sci-biology/neuroconv/metadata.xml | 21 +++++++++++ sci-biology/neuroconv/neuroconv-0.2.4.ebuild | 56 ++++++++++++++++++++++++++++ 2 files changed, 77 insertions(+) diff --git a/sci-biology/neuroconv/metadata.xml b/sci-biology/neuroconv/metadata.xml new file mode 100644 index 000000000..efd00647e --- /dev/null +++ b/sci-biology/neuroconv/metadata.xml @@ -0,0 +1,21 @@ +<?xml version='1.0' encoding='UTF-8'?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd";> +<pkgmetadata> + <maintainer type="person"> + <email>gen...@chymera.eu</email> + <name>Horea Christian</name> + </maintainer> + <maintainer type="project"> + <email>s...@gentoo.org</email> + <name>Gentoo Science Project</name> + </maintainer> + <use> + <flag name="ecephys">Extracellular electrophysiology interfaces</flag> + <flag name="icephys">Intracellular electrophysiology interfaces</flag> + <flag name="ophys">Optical physiology interfaces</flag> + </use> + <upstream> + <remote-id type="github">catalystneuro/roiextractors</remote-id> + <remote-id type="pypi">roiextractors</remote-id> + </upstream> +</pkgmetadata> diff --git a/sci-biology/neuroconv/neuroconv-0.2.4.ebuild b/sci-biology/neuroconv/neuroconv-0.2.4.ebuild new file mode 100644 index 000000000..39046a1a5 --- /dev/null +++ b/sci-biology/neuroconv/neuroconv-0.2.4.ebuild @@ -0,0 +1,56 @@ +# 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="Create NWB files from proprietary formats." +HOMEPAGE="https://github.com/catalystneuro/neuroconv"; +SRC_URI="https://github.com/catalystneuro/neuroconv/archive/refs/tags/v${PV}.tar.gz -> ${P}.gh.tar.gz" + +LICENSE="BSD" +SLOT="0" +KEYWORDS="~amd64" +IUSE="+ecephys +icephys +ophys" + +RDEPEND=" + dev-python/h5py[${PYTHON_USEDEP}] + dev-python/hdmf[${PYTHON_USEDEP}] + dev-python/jsonschema[${PYTHON_USEDEP}] + dev-python/numpy[${PYTHON_USEDEP}] + dev-python/pandas[${PYTHON_USEDEP}] + dev-python/psutil[${PYTHON_USEDEP}] + dev-python/pynwb[${PYTHON_USEDEP}] + dev-python/pyyaml[${PYTHON_USEDEP}] + dev-python/scipy[${PYTHON_USEDEP}] + dev-python/tqdm[${PYTHON_USEDEP}] + dev-vcs/dandi-cli[${PYTHON_USEDEP}] + ecephys? ( + dev-python/spikeinterface[${PYTHON_USEDEP}] + ) + icephys? ( + dev-python/neo[${PYTHON_USEDEP}] + ) + ophys? ( + sci-biology/roiextractors[${PYTHON_USEDEP}] + ) +" +BDEPEND=" + test? ( + dev-python/parameterized[${PYTHON_USEDEP}] + ) +" + +distutils_enable_tests pytest + +python_test() { + # Additional tests require complex data getting infrastructure, ophys tests still have issues: + # https://github.com/catalystneuro/neuroconv/issues/305 + local my_tests=( "tests/test_minimal" ) + use ecephys && my_tests+=( "tests/test_ecephys" ) + #use ophys && my_tests+=( "tests/test_ophys" ) + epytest ${my_tests[*]// /|} +}
