From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from lists.gentoo.org (pigeon.gentoo.org [208.92.234.80]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (2048 bits)) (No client certificate requested) by finch.gentoo.org (Postfix) with ESMTPS id 503F1158087 for ; Wed, 26 Jan 2022 17:48:42 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id 7E9612BC009; Wed, 26 Jan 2022 17:48:40 +0000 (UTC) Received: from smtp.gentoo.org (woodpecker.gentoo.org [140.211.166.183]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits)) (No client certificate requested) by pigeon.gentoo.org (Postfix) with ESMTPS id 4624F2BC009 for ; Wed, 26 Jan 2022 17:48:40 +0000 (UTC) Received: from oystercatcher.gentoo.org (unknown [IPv6:2a01:4f8:202:4333:225:90ff:fed9:fc84]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits)) (No client certificate requested) by smtp.gentoo.org (Postfix) with ESMTPS id 522D1343186 for ; Wed, 26 Jan 2022 17:48:39 +0000 (UTC) Received: from localhost.localdomain (localhost [IPv6:::1]) by oystercatcher.gentoo.org (Postfix) with ESMTP id 11DDF2AE for ; Wed, 26 Jan 2022 17:48:38 +0000 (UTC) From: "Andrew Ammerlaan" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "Andrew Ammerlaan" Message-ID: <1643193393.a5362c2b5a6817a805335c0b3b4d6b883536b668.andrewammerlaan@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/samri/ X-VCS-Repository: proj/sci X-VCS-Files: sci-biology/samri/samri-0.4.1.ebuild sci-biology/samri/samri-9999.ebuild X-VCS-Directories: sci-biology/samri/ X-VCS-Committer: andrewammerlaan X-VCS-Committer-Name: Andrew Ammerlaan X-VCS-Revision: a5362c2b5a6817a805335c0b3b4d6b883536b668 X-VCS-Branch: master Date: Wed, 26 Jan 2022 17:48:38 +0000 (UTC) Precedence: bulk List-Post: List-Help: List-Unsubscribe: List-Subscribe: List-Id: Gentoo Linux mail X-BeenThere: gentoo-commits@lists.gentoo.org X-Auto-Response-Suppress: DR, RN, NRN, OOF, AutoReply X-Archives-Salt: 31511343-730a-43d0-87a0-3ec8d1319bde X-Archives-Hash: e3604877f4915c8b18896475c4a243bf commit: a5362c2b5a6817a805335c0b3b4d6b883536b668 Author: Andrew Ammerlaan gentoo org> AuthorDate: Wed Jan 26 10:36:33 2022 +0000 Commit: Andrew Ammerlaan gentoo org> CommitDate: Wed Jan 26 10:36:33 2022 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=a5362c2b sci-biology/samri: drop old and live Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Andrew Ammerlaan gentoo.org> sci-biology/samri/samri-0.4.1.ebuild | 58 ----------------------------- sci-biology/samri/samri-9999.ebuild | 71 ------------------------------------ 2 files changed, 129 deletions(-) diff --git a/sci-biology/samri/samri-0.4.1.ebuild b/sci-biology/samri/samri-0.4.1.ebuild deleted file mode 100644 index f94119541..000000000 --- a/sci-biology/samri/samri-0.4.1.ebuild +++ /dev/null @@ -1,58 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..8} ) - -inherit distutils-r1 prefix - -DESCRIPTION="Small Animal Magnetic Resonance Imaging" -HOMEPAGE="https://github.com/IBT-FMI/SAMRI" -SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="GPL-3" -SLOT="0" -IUSE="labbookdb test" -KEYWORDS="~amd64" -RESTRICT="!test? ( test )" - -DEPEND=" - test? ( - dev-python/pytest[${PYTHON_USEDEP}] - sci-biology/samri_bidsdata - sci-biology/samri_bindata - ) -" -RDEPEND=" - dev-python/argh[${PYTHON_USEDEP}] - dev-python/joblib[${PYTHON_USEDEP}] - >=dev-python/matplotlib-2.0.2[${PYTHON_USEDEP}] - >=dev-python/numpy-1.13.3[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/seaborn[${PYTHON_USEDEP}] - dev-python/statsmodels[${PYTHON_USEDEP}] - media-gfx/blender - >=sci-biology/fsl-5.0.9 - sci-biology/bru2nii - sci-biology/mouse-brain-atlases - labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) - sci-libs/nibabel[${PYTHON_USEDEP}] - >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] - >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] - <=sci-libs/pybids-0.6.5[${PYTHON_USEDEP}] - sci-libs/scikit-image[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - sci-biology/ants - sci-biology/afni - sci-biology/nilearn[${PYTHON_USEDEP}] -" - -S="${WORKDIR}/SAMRI-${PV}" - -src_prepare() { - distutils-r1_src_prepare - sed -i -e "s:/usr:@GENTOO_PORTAGE_EPREFIX@/usr:g" `grep -rlI \'/usr/ samri` - sed -i -e "s:/usr:@GENTOO_PORTAGE_EPREFIX@/usr:g" `grep -rlI /usr/ test_scripts.sh` - eprefixify $(grep -rl GENTOO_PORTAGE_EPREFIX samri/* test_scripts.sh) -} diff --git a/sci-biology/samri/samri-9999.ebuild b/sci-biology/samri/samri-9999.ebuild deleted file mode 100644 index 8dba8864c..000000000 --- a/sci-biology/samri/samri-9999.ebuild +++ /dev/null @@ -1,71 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..8} ) - -inherit distutils-r1 prefix git-r3 - -DESCRIPTION="Small Animal Magnetic Resonance Imaging" -HOMEPAGE="https://github.com/IBT-FMI/SAMRI" -SRC_URI="" -EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI" - -LICENSE="GPL-3" -SLOT="0" -IUSE="+atlases labbookdb test" -KEYWORDS="" -RESTRICT="!test? ( test )" - -DEPEND=" - test? ( - dev-python/pytest[${PYTHON_USEDEP}] - sci-biology/samri_bidsdata - sci-biology/samri_bindata - ) - " -RDEPEND=" - dev-python/argh[${PYTHON_USEDEP}] - dev-python/joblib[${PYTHON_USEDEP}] - >=dev-python/matplotlib-2.0.2[${PYTHON_USEDEP}] - >=dev-python/numpy-1.13.3[${PYTHON_USEDEP}] - dev-python/pandas[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] - dev-python/seaborn[${PYTHON_USEDEP}] - dev-python/statsmodels[${PYTHON_USEDEP}] - >=media-gfx/blender-2.83.4 - >=sci-biology/fsl-5.0.9 - sci-biology/bru2nii - atlases? ( sci-biology/mouse-brain-atlases ) - labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) - sci-libs/nibabel[${PYTHON_USEDEP}] - >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] - >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] - sci-libs/pybids[${PYTHON_USEDEP}] - sci-libs/scikit-image[${PYTHON_USEDEP}] - sci-biology/ants - sci-biology/afni - sci-biology/nilearn[${PYTHON_USEDEP}] -" - -REQUIRED_USE="test? ( atlases )" - -src_prepare() { - distutils-r1_src_prepare - sed -i -e "s:/usr:@GENTOO_PORTAGE_EPREFIX@/usr:g" `grep -rlI \'/usr/ samri` - sed -i -e "s:/usr:@GENTOO_PORTAGE_EPREFIX@/usr:g" `grep -rlI /usr/ test_scripts.sh` - eprefixify $(grep -rl GENTOO_PORTAGE_EPREFIX samri/* test_scripts.sh) -} - -python_test() { - distutils_install_for_testing - export MPLBACKEND="agg" - export PATH=${TEST_DIR}/scripts:$PATH - export PYTHONIOENCODING=utf-8 - ./test_scripts.sh || die "Test scripts failed." - sed -i -e \ - "/def test_bru2bids():/i@pytest.mark.skip('Removed in full test suite, as this is already tested in `test_scripts.sh`')" \ - samri/pipelines/tests/test_repos.py || die - pytest -vv -k "not longtime" || die -}