[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 297ea3f7dcd4ee5fa24f0888703c15738c6732ef Author: Horea Christian chymera eu> AuthorDate: Fri Feb 16 02:11:05 2024 + Commit: Horea Christian gmail com> CommitDate: Fri Feb 16 02:11:05 2024 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=297ea3f7 sci-biology/samri: updated sckikit-image package category Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.3.ebuild | 2 +- sci-biology/samri/samri-0.5.4.ebuild | 2 +- sci-biology/samri/samri-.ebuild | 2 +- 3 files changed, 3 insertions(+), 3 deletions(-) diff --git a/sci-biology/samri/samri-0.5.3.ebuild b/sci-biology/samri/samri-0.5.3.ebuild index d6ffd5f1f..f632f83a8 100644 --- a/sci-biology/samri/samri-0.5.3.ebuild +++ b/sci-biology/samri/samri-0.5.3.ebuild @@ -48,7 +48,7 @@ RDEPEND=" >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] =sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}]
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 43640a50ac9001267a0c8d2274213a6be0985ded Author: Horea Christian chymera eu> AuthorDate: Tue May 2 23:57:43 2023 + Commit: Horea Christian gmail com> CommitDate: Tue May 2 23:57:43 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=43640a50 sci-biology/samri: enable py3.11 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.3.ebuild | 2 +- sci-biology/samri/samri-0.5.4.ebuild | 2 +- sci-biology/samri/samri-.ebuild | 2 +- 3 files changed, 3 insertions(+), 3 deletions(-) diff --git a/sci-biology/samri/samri-0.5.3.ebuild b/sci-biology/samri/samri-0.5.3.ebuild index d45474603..d6ffd5f1f 100644 --- a/sci-biology/samri/samri-0.5.3.ebuild +++ b/sci-biology/samri/samri-0.5.3.ebuild @@ -3,7 +3,7 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 prefix diff --git a/sci-biology/samri/samri-0.5.4.ebuild b/sci-biology/samri/samri-0.5.4.ebuild index d45474603..d6ffd5f1f 100644 --- a/sci-biology/samri/samri-0.5.4.ebuild +++ b/sci-biology/samri/samri-0.5.4.ebuild @@ -3,7 +3,7 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 prefix diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index d45474603..d6ffd5f1f 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -3,7 +3,7 @@ EAPI=8 -PYTHON_COMPAT=( python3_{10..10} ) +PYTHON_COMPAT=( python3_{10..11} ) DISTUTILS_USE_PEP517=setuptools inherit distutils-r1 prefix
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 0388c0add0777d1811bf14fedb645b4d8de329db Author: Andrew Ammerlaan gentoo org> AuthorDate: Tue May 2 12:34:17 2023 + Commit: Andrew Ammerlaan gentoo org> CommitDate: Tue May 2 12:34:17 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=0388c0ad sci-biology/samri: fix whitespace warnings Signed-off-by: Andrew Ammerlaan gentoo.org> sci-biology/samri/samri-0.5.3.ebuild | 9 - sci-biology/samri/samri-0.5.4.ebuild | 9 - sci-biology/samri/samri-.ebuild | 9 - 3 files changed, 12 insertions(+), 15 deletions(-) diff --git a/sci-biology/samri/samri-0.5.3.ebuild b/sci-biology/samri/samri-0.5.3.ebuild index 56351ada3..d45474603 100644 --- a/sci-biology/samri/samri-0.5.3.ebuild +++ b/sci-biology/samri/samri-0.5.3.ebuild @@ -11,15 +11,14 @@ inherit distutils-r1 prefix DESCRIPTION="Small Animal Magnetic Resonance Imaging" HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; if [ "$PV" == "" ]; then -inherit git-r3 -EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; + inherit git-r3 + EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; else -SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" -KEYWORDS="~amd64" + SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" + KEYWORDS="~amd64" S="${WORKDIR}/SAMRI-${PV}" fi - LICENSE="GPL-3" SLOT="0" IUSE="+atlases labbookdb" diff --git a/sci-biology/samri/samri-0.5.4.ebuild b/sci-biology/samri/samri-0.5.4.ebuild index 56351ada3..d45474603 100644 --- a/sci-biology/samri/samri-0.5.4.ebuild +++ b/sci-biology/samri/samri-0.5.4.ebuild @@ -11,15 +11,14 @@ inherit distutils-r1 prefix DESCRIPTION="Small Animal Magnetic Resonance Imaging" HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; if [ "$PV" == "" ]; then -inherit git-r3 -EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; + inherit git-r3 + EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; else -SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" -KEYWORDS="~amd64" + SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" + KEYWORDS="~amd64" S="${WORKDIR}/SAMRI-${PV}" fi - LICENSE="GPL-3" SLOT="0" IUSE="+atlases labbookdb" diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index 56351ada3..d45474603 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -11,15 +11,14 @@ inherit distutils-r1 prefix DESCRIPTION="Small Animal Magnetic Resonance Imaging" HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; if [ "$PV" == "" ]; then -inherit git-r3 -EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; + inherit git-r3 + EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; else -SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" -KEYWORDS="~amd64" + SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" + KEYWORDS="~amd64" S="${WORKDIR}/SAMRI-${PV}" fi - LICENSE="GPL-3" SLOT="0" IUSE="+atlases labbookdb"
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 05c633669e6e478c73ecf3631a9e9abb25d37f84 Author: Andrew Ammerlaan gentoo org> AuthorDate: Tue May 2 12:32:54 2023 + Commit: Andrew Ammerlaan gentoo org> CommitDate: Tue May 2 12:32:54 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=05c63366 sci-biology/samri: drop 0.5.2 Signed-off-by: Andrew Ammerlaan gentoo.org> sci-biology/samri/samri-0.5.2.ebuild | 78 1 file changed, 78 deletions(-) diff --git a/sci-biology/samri/samri-0.5.2.ebuild b/sci-biology/samri/samri-0.5.2.ebuild deleted file mode 100644 index 56351ada3..0 --- a/sci-biology/samri/samri-0.5.2.ebuild +++ /dev/null @@ -1,78 +0,0 @@ -# Copyright 1999-2023 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_{10..10} ) -DISTUTILS_USE_PEP517=setuptools - -inherit distutils-r1 prefix - -DESCRIPTION="Small Animal Magnetic Resonance Imaging" -HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; -if [ "$PV" == "" ]; then -inherit git-r3 -EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; -else -SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" -KEYWORDS="~amd64" - S="${WORKDIR}/SAMRI-${PV}" -fi - - -LICENSE="GPL-3" -SLOT="0" -IUSE="+atlases labbookdb" -REQUIRED_USE="test? ( atlases )" - -DEPEND=" - test? ( - sci-biology/samri_bidsdata - sci-biology/samri_bindata - ) - " -RDEPEND=" - dev-python/argh[${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[${PYTHON_USEDEP}] - >=media-gfx/blender-2.83.4 - >=sci-biology/fsl-5.0.9 - sci-biology/bru2nii - atlases? ( sci-biology/mouse-brain-templates ) - labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) - sci-libs/nibabel[${PYTHON_USEDEP}] - >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] - >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] -
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 3816342c4d4ad5da753dedcdcc7a50aaa27ac9be Author: Horea Christian chymera eu> AuthorDate: Tue May 2 01:03:16 2023 + Commit: Horea Christian gmail com> CommitDate: Tue May 2 01:03:16 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=3816342c sci-biology/samri: add 0.5.4 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.4.ebuild | 78 1 file changed, 78 insertions(+) diff --git a/sci-biology/samri/samri-0.5.4.ebuild b/sci-biology/samri/samri-0.5.4.ebuild new file mode 100644 index 0..56351ada3 --- /dev/null +++ b/sci-biology/samri/samri-0.5.4.ebuild @@ -0,0 +1,78 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..10} ) +DISTUTILS_USE_PEP517=setuptools + +inherit distutils-r1 prefix + +DESCRIPTION="Small Animal Magnetic Resonance Imaging" +HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; +if [ "$PV" == "" ]; then +inherit git-r3 +EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; +else +SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" +KEYWORDS="~amd64" + S="${WORKDIR}/SAMRI-${PV}" +fi + + +LICENSE="GPL-3" +SLOT="0" +IUSE="+atlases labbookdb" +REQUIRED_USE="test? ( atlases )" + +DEPEND=" + test? ( + sci-biology/samri_bidsdata + sci-biology/samri_bindata + ) + " +RDEPEND=" + dev-python/argh[${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[${PYTHON_USEDEP}] + >=media-gfx/blender-2.83.4 + >=sci-biology/fsl-5.0.9 + sci-biology/bru2nii + atlases? ( sci-biology/mouse-brain-templates ) + labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) + sci-libs/nibabel[${PYTHON_USEDEP}] + >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] + >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] +
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: b9b7ea94c0bf72b97d1313abe231d48e3ceaf440 Author: Horea Christian chymera eu> AuthorDate: Tue Apr 11 02:04:51 2023 + Commit: Horea Christian gmail com> CommitDate: Tue Apr 11 02:04:51 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=b9b7ea94 sci-biology/samri: add 0.5.3 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.3.ebuild | 78 1 file changed, 78 insertions(+) diff --git a/sci-biology/samri/samri-0.5.3.ebuild b/sci-biology/samri/samri-0.5.3.ebuild new file mode 100644 index 0..56351ada3 --- /dev/null +++ b/sci-biology/samri/samri-0.5.3.ebuild @@ -0,0 +1,78 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..10} ) +DISTUTILS_USE_PEP517=setuptools + +inherit distutils-r1 prefix + +DESCRIPTION="Small Animal Magnetic Resonance Imaging" +HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; +if [ "$PV" == "" ]; then +inherit git-r3 +EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; +else +SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" +KEYWORDS="~amd64" + S="${WORKDIR}/SAMRI-${PV}" +fi + + +LICENSE="GPL-3" +SLOT="0" +IUSE="+atlases labbookdb" +REQUIRED_USE="test? ( atlases )" + +DEPEND=" + test? ( + sci-biology/samri_bidsdata + sci-biology/samri_bindata + ) + " +RDEPEND=" + dev-python/argh[${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[${PYTHON_USEDEP}] + >=media-gfx/blender-2.83.4 + >=sci-biology/fsl-5.0.9 + sci-biology/bru2nii + atlases? ( sci-biology/mouse-brain-templates ) + labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) + sci-libs/nibabel[${PYTHON_USEDEP}] + >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] + >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] +
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: a1178bdeed13a9f087da91759e2c9b8bac0f065f Author: Horea Christian chymera eu> AuthorDate: Thu Apr 6 06:43:04 2023 + Commit: Horea Christian gmail com> CommitDate: Thu Apr 6 06:43:04 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=a1178bde sci-biology/samri: drop 0.5, 0.5.1 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.1.ebuild | 71 sci-biology/samri/samri-0.5.ebuild | 71 2 files changed, 142 deletions(-) diff --git a/sci-biology/samri/samri-0.5.1.ebuild b/sci-biology/samri/samri-0.5.1.ebuild deleted file mode 100644 index a20c63f61..0 --- a/sci-biology/samri/samri-0.5.1.ebuild +++ /dev/null @@ -1,71 +0,0 @@ -# Copyright 1999-2022 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=8 - -PYTHON_COMPAT=( python3_10 ) - -inherit distutils-r1 prefix - -DESCRIPTION="Small Animal Magnetic Resonance Imaging" -HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; -SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" -S="${WORKDIR}/SAMRI-${PV}" - -LICENSE="GPL-3" -SLOT="0" -KEYWORDS="~amd64" -IUSE="+atlases labbookdb" -REQUIRED_USE="test? ( atlases )" - -DEPEND=" - test? ( - sci-biology/samri_bidsdata - sci-biology/samri_bindata - ) - " -RDEPEND=" - dev-python/argh[${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[${PYTHON_USEDEP}] - >=media-gfx/blender-2.83.4 - >=sci-biology/fsl-5.0.9 - sci-biology/bru2nii - atlases? ( sci-biology/mouse-brain-templates ) - labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) - sci-libs/nibabel[${PYTHON_USEDEP}] - >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] - >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] - https://github.com/IBT-FMI/SAMRI"; -SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" -S="${WORKDIR}/SAMRI-${PV}" - -LICENSE="GPL-3" -SLOT="0" -KEYWORDS="~amd64" -IUSE="+atlases labbookdb" -REQUIRED_USE="test? ( atlases )" - -DEPEND=" - test? ( - sci-biology/samri_bidsdata - sci-biology/samri_bindata - ) - " -RDEPEND=" - dev-python/argh[${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[${PYTHON_USEDEP}] - >=media-gfx/blender-2.83.4 - >=sci-biology/fsl-5.0.9 - sci-biology/bru2nii - atlases? ( sci-biology/mouse-brain-templates ) - labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) - sci-libs/nibabel[${PYTHON_USEDEP}] - >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] - >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] -
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 30fcfb55431880f3525473433b4828862ab150d4 Author: Horea Christian chymera eu> AuthorDate: Thu Apr 6 06:42:46 2023 + Commit: Horea Christian gmail com> CommitDate: Thu Apr 6 06:42:46 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=30fcfb55 sci-biology/samri: add 0.5.2 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.2.ebuild | 78 1 file changed, 78 insertions(+) diff --git a/sci-biology/samri/samri-0.5.2.ebuild b/sci-biology/samri/samri-0.5.2.ebuild new file mode 100644 index 0..56351ada3 --- /dev/null +++ b/sci-biology/samri/samri-0.5.2.ebuild @@ -0,0 +1,78 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..10} ) +DISTUTILS_USE_PEP517=setuptools + +inherit distutils-r1 prefix + +DESCRIPTION="Small Animal Magnetic Resonance Imaging" +HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; +if [ "$PV" == "" ]; then +inherit git-r3 +EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; +else +SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" +KEYWORDS="~amd64" + S="${WORKDIR}/SAMRI-${PV}" +fi + + +LICENSE="GPL-3" +SLOT="0" +IUSE="+atlases labbookdb" +REQUIRED_USE="test? ( atlases )" + +DEPEND=" + test? ( + sci-biology/samri_bidsdata + sci-biology/samri_bindata + ) + " +RDEPEND=" + dev-python/argh[${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[${PYTHON_USEDEP}] + >=media-gfx/blender-2.83.4 + >=sci-biology/fsl-5.0.9 + sci-biology/bru2nii + atlases? ( sci-biology/mouse-brain-templates ) + labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) + sci-libs/nibabel[${PYTHON_USEDEP}] + >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] + >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] +
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 2329ab7cb307b3f595e4e4d0117262c97157fec1 Author: Horea Christian chymera eu> AuthorDate: Thu Apr 6 06:42:28 2023 + Commit: Horea Christian gmail com> CommitDate: Thu Apr 6 06:42:28 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=2329ab7c sci-biology/samri: add Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-.ebuild | 78 + 1 file changed, 78 insertions(+) diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild new file mode 100644 index 0..56351ada3 --- /dev/null +++ b/sci-biology/samri/samri-.ebuild @@ -0,0 +1,78 @@ +# Copyright 1999-2023 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{10..10} ) +DISTUTILS_USE_PEP517=setuptools + +inherit distutils-r1 prefix + +DESCRIPTION="Small Animal Magnetic Resonance Imaging" +HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; +if [ "$PV" == "" ]; then +inherit git-r3 +EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI.git"; +else +SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" +KEYWORDS="~amd64" + S="${WORKDIR}/SAMRI-${PV}" +fi + + +LICENSE="GPL-3" +SLOT="0" +IUSE="+atlases labbookdb" +REQUIRED_USE="test? ( atlases )" + +DEPEND=" + test? ( + sci-biology/samri_bidsdata + sci-biology/samri_bindata + ) + " +RDEPEND=" + dev-python/argh[${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[${PYTHON_USEDEP}] + >=media-gfx/blender-2.83.4 + >=sci-biology/fsl-5.0.9 + sci-biology/bru2nii + atlases? ( sci-biology/mouse-brain-templates ) + labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) + sci-libs/nibabel[${PYTHON_USEDEP}] + >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] + >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] +
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: be5fc54187e2e93f78cafd5dfd9a553fe76d4642 Author: Horea Christian chymera eu> AuthorDate: Wed Apr 5 21:42:48 2023 + Commit: Horea Christian gmail com> CommitDate: Wed Apr 5 21:42:48 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=be5fc541 sci-biology/samri: add 0.5.1 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.1.ebuild | 71 1 file changed, 71 insertions(+) diff --git a/sci-biology/samri/samri-0.5.1.ebuild b/sci-biology/samri/samri-0.5.1.ebuild new file mode 100644 index 0..a20c63f61 --- /dev/null +++ b/sci-biology/samri/samri-0.5.1.ebuild @@ -0,0 +1,71 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_10 ) + +inherit distutils-r1 prefix + +DESCRIPTION="Small Animal Magnetic Resonance Imaging" +HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; +SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" +S="${WORKDIR}/SAMRI-${PV}" + +LICENSE="GPL-3" +SLOT="0" +KEYWORDS="~amd64" +IUSE="+atlases labbookdb" +REQUIRED_USE="test? ( atlases )" + +DEPEND=" + test? ( + sci-biology/samri_bidsdata + sci-biology/samri_bindata + ) + " +RDEPEND=" + dev-python/argh[${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[${PYTHON_USEDEP}] + >=media-gfx/blender-2.83.4 + >=sci-biology/fsl-5.0.9 + sci-biology/bru2nii + atlases? ( sci-biology/mouse-brain-templates ) + labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) + sci-libs/nibabel[${PYTHON_USEDEP}] + >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] + >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] +
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 33a462e5acbaeb69527cdc781183ce9d24e5e1ab Author: Horea Christian chymera eu> AuthorDate: Thu Jan 12 10:21:51 2023 + Commit: Horea Christian gmail com> CommitDate: Thu Jan 12 10:21:51 2023 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=33a462e5 sci-biology/samri: disable py3.8, py3.9 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.ebuild | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/sci-biology/samri/samri-0.5.ebuild b/sci-biology/samri/samri-0.5.ebuild index aed6061e7..a20c63f61 100644 --- a/sci-biology/samri/samri-0.5.ebuild +++ b/sci-biology/samri/samri-0.5.ebuild @@ -3,7 +3,7 @@ EAPI=8 -PYTHON_COMPAT=( python3_{8..10} ) +PYTHON_COMPAT=( python3_10 ) inherit distutils-r1 prefix
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 7b5851d5cade32843e59bda9df9ab38ba7ef9072 Author: Horea Christian chymera eu> AuthorDate: Tue Jul 12 13:37:56 2022 + Commit: Horea Christian gmail com> CommitDate: Tue Jul 12 13:37:56 2022 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=7b5851d5 sci-biology/samri: EAPI and PYTHON_COMPAT bump Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.ebuild | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/sci-biology/samri/samri-0.5.ebuild b/sci-biology/samri/samri-0.5.ebuild index 4cc90a0ef..aed6061e7 100644 --- a/sci-biology/samri/samri-0.5.ebuild +++ b/sci-biology/samri/samri-0.5.ebuild @@ -1,9 +1,9 @@ # Copyright 1999-2022 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=8 -PYTHON_COMPAT=( python3_{8..9} ) +PYTHON_COMPAT=( python3_{8..10} ) inherit distutils-r1 prefix
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: e59efb1f834bd94c49c3ef6afbfd91a932c23b89 Author: Horea Christian chymera eu> AuthorDate: Wed May 18 04:11:21 2022 + Commit: Horea Christian gmail com> CommitDate: Wed May 18 04:11:21 2022 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=e59efb1f sci-biology/samri: dependency restriction Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.ebuild | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/sci-biology/samri/samri-0.5.ebuild b/sci-biology/samri/samri-0.5.ebuild index 7966ad16b..4cc90a0ef 100644 --- a/sci-biology/samri/samri-0.5.ebuild +++ b/sci-biology/samri/samri-0.5.ebuild @@ -41,7 +41,7 @@ RDEPEND=" sci-libs/nibabel[${PYTHON_USEDEP}] >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] - sci-libs/pybids[${PYTHON_USEDEP}] +
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: b68392e796daa3d8b1fe835b823cb8619e8213a9 Author: Horea Christian chymera eu> AuthorDate: Mon Apr 25 18:08:13 2022 + Commit: Horea Christian gmail com> CommitDate: Mon Apr 25 18:08:13 2022 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=b68392e7 sci-biology/samri: renamed dependency Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.ebuild | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/sci-biology/samri/samri-0.5.ebuild b/sci-biology/samri/samri-0.5.ebuild index 1633aa23f..7966ad16b 100644 --- a/sci-biology/samri/samri-0.5.ebuild +++ b/sci-biology/samri/samri-0.5.ebuild @@ -36,7 +36,7 @@ RDEPEND=" >=media-gfx/blender-2.83.4 >=sci-biology/fsl-5.0.9 sci-biology/bru2nii - atlases? ( sci-biology/mouse-brain-atlases ) + atlases? ( sci-biology/mouse-brain-templates ) labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) sci-libs/nibabel[${PYTHON_USEDEP}] >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}]
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 1d39e474755e118738efb60eb467eefdfe25c026 Author: Andrew Ammerlaan gentoo org> AuthorDate: Wed Jan 26 17:48:24 2022 + Commit: Andrew Ammerlaan gentoo org> CommitDate: Wed Jan 26 17:48:24 2022 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=1d39e474 sci-biology/samri: bump python compat Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Andrew Ammerlaan gentoo.org> sci-biology/samri/samri-0.5.ebuild | 21 ++--- 1 file changed, 10 insertions(+), 11 deletions(-) diff --git a/sci-biology/samri/samri-0.5.ebuild b/sci-biology/samri/samri-0.5.ebuild index 84161f65f..1633aa23f 100644 --- a/sci-biology/samri/samri-0.5.ebuild +++ b/sci-biology/samri/samri-0.5.ebuild @@ -1,25 +1,25 @@ -# Copyright 1999-2021 Gentoo Authors +# Copyright 1999-2022 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=7 -PYTHON_COMPAT=( python3_{7..8} ) +PYTHON_COMPAT=( python3_{8..9} ) 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 -> ${P}.tar.gz" +S="${WORKDIR}/SAMRI-${PV}" LICENSE="GPL-3" SLOT="0" -IUSE="+atlases labbookdb test" KEYWORDS="~amd64" -RESTRICT="!test? ( test )" +IUSE="+atlases labbookdb" +REQUIRED_USE="test? ( atlases )" DEPEND=" test? ( - dev-python/pytest[${PYTHON_USEDEP}] sci-biology/samri_bidsdata sci-biology/samri_bindata ) @@ -48,14 +48,13 @@ RDEPEND=" sci-biology/nilearn[${PYTHON_USEDEP}] " -REQUIRED_USE="test? ( atlases )" - -S="${WORKDIR}/SAMRI-${PV}" +distutils_enable_tests pytest +distutils_enable_sphinx doc/source dev-python/sphinxcontrib-napoleon 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` + sed -i -e "s:/usr:@GENTOO_PORTAGE_EPREFIX@/usr:g" `grep -rlI \'/usr/ samri` || die + sed -i -e "s:/usr:@GENTOO_PORTAGE_EPREFIX@/usr:g" `grep -rlI /usr/ test_scripts.sh` || die eprefixify $(grep -rl GENTOO_PORTAGE_EPREFIX samri/* test_scripts.sh) } @@ -68,5 +67,5 @@ python_test() { sed -i -e \ "/def test_bru2bids():/i...@pytest.mark.skip('Removed in full test suite, as this is already tested in `test_scripts.sh`')" \ samri/pipelines/tests/test_repos.py || die - pytest -vv -k "not longtime" || die + epytest -k "not longtime" }
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: a5362c2b5a6817a805335c0b3b4d6b883536b668 Author: Andrew Ammerlaan gentoo org> AuthorDate: Wed Jan 26 10:36:33 2022 + Commit: Andrew Ammerlaan gentoo org> CommitDate: Wed Jan 26 10:36:33 2022 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=a5362c2b sci-biology/samri: drop old and live Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Andrew Ammerlaan gentoo.org> sci-biology/samri/samri-0.4.1.ebuild | 58 - sci-biology/samri/samri-.ebuild | 71 2 files changed, 129 deletions(-) diff --git a/sci-biology/samri/samri-0.4.1.ebuild b/sci-biology/samri/samri-0.4.1.ebuild deleted file mode 100644 index f94119541..0 --- a/sci-biology/samri/samri-0.4.1.ebuild +++ /dev/null @@ -1,58 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..8} ) - -inherit distutils-r1 prefix - -DESCRIPTION="Small Animal Magnetic Resonance Imaging" -HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; -SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${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 $(grep -rl GENTOO_PORTAGE_EPREFIX samri/* test_scripts.sh) -} diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild deleted file mode 100644 index 8dba8864c..0 --- a/sci-biology/samri/samri-.ebuild +++ /dev/null @@ -1,71 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python3_{7..8} ) - -inherit distutils-r1 prefix git-r3 - -DESCRIPTION="Small Animal Magnetic Resonance Imaging" -HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; -SRC_URI="" -EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI"; - -LICENSE="GPL-3" -SLOT="0" -IUSE="+atlases labbookdb test" -KEYWORDS="" -RESTRICT="!test? ( test )" - -DEPEND=" - test? ( - dev-python/pytest[${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 -
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 663642ba2433eb7748503f7f3eab2c0cd843a805 Author: Horea Christian chymera eu> AuthorDate: Sun Jan 3 05:22:31 2021 + Commit: Horea Christian gmail com> CommitDate: Sun Jan 3 05:22:31 2021 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=663642ba sci-biology/samri: PYTHON_COMPAT update Package-Manager: Portage-3.0.12, Repoman-3.0.2 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.4.1.ebuild | 4 ++-- sci-biology/samri/samri-0.5.ebuild | 4 ++-- sci-biology/samri/samri-.ebuild | 4 ++-- 3 files changed, 6 insertions(+), 6 deletions(-) diff --git a/sci-biology/samri/samri-0.4.1.ebuild b/sci-biology/samri/samri-0.4.1.ebuild index 34d91def6..79c5949de 100644 --- a/sci-biology/samri/samri-0.4.1.ebuild +++ b/sci-biology/samri/samri-0.4.1.ebuild @@ -1,9 +1,9 @@ -# Copyright 1999-2020 Gentoo Authors +# Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=7 -PYTHON_COMPAT=( python3_7 ) +PYTHON_COMPAT=( python3_{7..8} ) inherit distutils-r1 diff --git a/sci-biology/samri/samri-0.5.ebuild b/sci-biology/samri/samri-0.5.ebuild index d22909df2..8faa270ab 100644 --- a/sci-biology/samri/samri-0.5.ebuild +++ b/sci-biology/samri/samri-0.5.ebuild @@ -1,9 +1,9 @@ -# Copyright 1999-2020 Gentoo Authors +# Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=7 -PYTHON_COMPAT=( python3_7 ) +PYTHON_COMPAT=( python3_{7..8} ) inherit distutils-r1 diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index fb93fd9a0..507d6a53c 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -1,9 +1,9 @@ -# Copyright 1999-2020 Gentoo Authors +# Copyright 1999-2021 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=7 -PYTHON_COMPAT=( python3_7 ) +PYTHON_COMPAT=( python3_{7..8} ) inherit distutils-r1 git-r3
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: dec35345ad7f0b8e049a33c417a9cef461a9a8e5 Author: Horea Christian chymera eu> AuthorDate: Thu Dec 24 10:56:49 2020 + Commit: Horea Christian gmail com> CommitDate: Thu Dec 24 10:56:49 2020 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=dec35345 sci-biology/samri: conditional test restriction Package-Manager: Portage-3.0.12, Repoman-3.0.2 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.4.1.ebuild | 1 + sci-biology/samri/samri-0.5.ebuild | 1 + sci-biology/samri/samri-.ebuild | 1 + 3 files changed, 3 insertions(+) diff --git a/sci-biology/samri/samri-0.4.1.ebuild b/sci-biology/samri/samri-0.4.1.ebuild index d4b81f39e..34d91def6 100644 --- a/sci-biology/samri/samri-0.4.1.ebuild +++ b/sci-biology/samri/samri-0.4.1.ebuild @@ -15,6 +15,7 @@ LICENSE="GPL-3" SLOT="0" IUSE="labbookdb test" KEYWORDS="~amd64" +RESTRICT="!test? ( test )" DEPEND=" test? ( diff --git a/sci-biology/samri/samri-0.5.ebuild b/sci-biology/samri/samri-0.5.ebuild index 5cd5bb654..d22909df2 100644 --- a/sci-biology/samri/samri-0.5.ebuild +++ b/sci-biology/samri/samri-0.5.ebuild @@ -15,6 +15,7 @@ LICENSE="GPL-3" SLOT="0" IUSE="+atlases labbookdb test" KEYWORDS="~amd64" +RESTRICT="!test? ( test )" DEPEND=" test? ( diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index 3af34d615..fb93fd9a0 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -16,6 +16,7 @@ LICENSE="GPL-3" SLOT="0" IUSE="+atlases labbookdb test" KEYWORDS="" +RESTRICT="!test? ( test )" DEPEND=" test? (
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 8a9e478b567b41ec475344acf3f9e3f7d18e765a Author: Horea Christian chymera eu> AuthorDate: Sun Sep 27 09:27:43 2020 + Commit: Horea Christian gmail com> CommitDate: Sun Sep 27 09:27:43 2020 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=8a9e478b sci-biology/samri: version bump 0.5 Package-Manager: Portage-3.0.8, Repoman-3.0.1 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.5.ebuild | 71 ++ 1 file changed, 71 insertions(+) diff --git a/sci-biology/samri/samri-0.5.ebuild b/sci-biology/samri/samri-0.5.ebuild new file mode 100644 index 0..24912c9c9 --- /dev/null +++ b/sci-biology/samri/samri-0.5.ebuild @@ -0,0 +1,71 @@ +# Copyright 1999-2020 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=7 + +PYTHON_COMPAT=( python3_7 ) + +inherit distutils-r1 + +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 -> ${P}.tar.gz" + +LICENSE="GPL-3" +SLOT="0" +IUSE="+atlases labbookdb test" +KEYWORDS="~amd64" + +DEPEND=" + test? ( + dev-python/pytest[${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[${PYTHON_USEDEP}] + sci-libs/scikits_image[${PYTHON_USEDEP}] + sci-biology/ants + sci-biology/afni + sci-biology/nilearn[${PYTHON_USEDEP}] +" + +REQUIRED_USE="test? ( atlases )" + +S="${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 $(grep -rl GENTOO_PORTAGE_EPREFIX samri/* test_scripts.sh) +} + +python_test() { + distutils_install_for_testing + export MPLBACKEND="agg" + export PATH=${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 +}
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 8b9cc8923541eccb9ebaca2ca5b996982f217c9a Author: Horea Christian chymera eu> AuthorDate: Sun Sep 27 08:32:42 2020 + Commit: Horea Christian gmail com> CommitDate: Sun Sep 27 08:32:42 2020 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=8b9cc892 sci-biology/samri: PYTHON_COMPAT and live ebuild update Package-Manager: Portage-3.0.8, Repoman-3.0.1 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.4.1.ebuild | 4 ++-- sci-biology/samri/samri-.ebuild | 31 +-- 2 files changed, 15 insertions(+), 20 deletions(-) diff --git a/sci-biology/samri/samri-0.4.1.ebuild b/sci-biology/samri/samri-0.4.1.ebuild index 264e768dc..b3d3be34d 100644 --- a/sci-biology/samri/samri-0.4.1.ebuild +++ b/sci-biology/samri/samri-0.4.1.ebuild @@ -1,9 +1,9 @@ -# Copyright 1999-2019 Gentoo Authors +# Copyright 1999-2020 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=7 -PYTHON_COMPAT=( python3_6 ) +PYTHON_COMPAT=( python3_7 ) inherit distutils-r1 diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index d9913f2f9..fc663fcbc 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -1,11 +1,11 @@ -# Copyright 1999-2019 Gentoo Authors +# Copyright 1999-2020 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 EAPI=7 -PYTHON_COMPAT=( python{3_4,3_5,3_6} ) +PYTHON_COMPAT=( python3_7 ) -inherit distutils-r1 git-r3 prefix +inherit distutils-r1 git-r3 DESCRIPTION="Small Animal Magnetic Resonance Imaging" HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; @@ -17,8 +17,6 @@ SLOT="0" IUSE="+atlases labbookdb test" KEYWORDS="" -# Numpy dependency to circumvent scikits_learn dependency bug: -# https://bugs.gentoo.org/653052 DEPEND=" test? ( dev-python/pytest[${PYTHON_USEDEP}] @@ -32,28 +30,29 @@ RDEPEND=" >=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[${PYTHON_USEDEP}] - >=sci-libs/nipype-0.14.0_pre20170830[${PYTHON_USEDEP}] + >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] sci-libs/pybids[${PYTHON_USEDEP}] - dev-python/scipy[${PYTHON_USEDEP}] + sci-libs/scikits_image[${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/ *` - sed -i -e "s:/usr:@GENTOO_PORTAGE_EPREFIX@/usr:g" `grep -rlI \"/usr/ *` + 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 $(grep -rl GENTOO_PORTAGE_EPREFIX samri/* test_scripts.sh) } @@ -64,12 +63,8 @@ python_test() { export PATH=${TEST_DIR}/scripts:$PATH export PYTHONIOENCODING=utf-8 ./test_scripts.sh || die "Test scripts failed." - sed -i \ - -e '1s/^/import pytest \n/' \ - -e "/def test_bru2bids():/i...@pytest.mark.skip('Skipped by Portage, as this was already tested in test_scripts.sh')" \ - samri/pipelines/tests/test_reposit.py || die - cd "${BUILD_DIR}" || die - sed -i -e "s:'/tmp/:'$T/:g" `grep -rl "'/tmp/"` - pytest -vv || die - sed -i -e "s:'$T/:'/tmp/:g" `grep -rl "'$T/"` + sed -i -e \ + "/def test_bru2bids():/i...@pytest.mark.skip('Removed in full test suite, as this is already tested in `test_scripts.sh`')" \ + samri/pipelines/tests/test_repos.py || die + pytest -vv -k "not longtime" || die }
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: e68c1eb1aea94ee2860d3b9feb079932114904ea Author: Horea Christian chymera eu> AuthorDate: Sun Dec 8 14:54:04 2019 + Commit: Horea Christian gmail com> CommitDate: Sun Dec 8 14:54:04 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=e68c1eb1 sci-biology/samri: version bump 0.4.1 and old version deprecation Package-Manager: Portage-2.3.78, Repoman-2.3.17 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-0.1.ebuild | 58 -- .../samri/{samri-0.2.ebuild => samri-0.4.1.ebuild} | 39 ++- 2 files changed, 16 insertions(+), 81 deletions(-) diff --git a/sci-biology/samri/samri-0.1.ebuild b/sci-biology/samri/samri-0.1.ebuild deleted file mode 100644 index 94598cb7c..0 --- a/sci-biology/samri/samri-0.1.ebuild +++ /dev/null @@ -1,58 +0,0 @@ -# Copyright 1999-2018 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -PYTHON_COMPAT=( python{2_7,3_4,3_5} ) - -inherit distutils-r1 - -DESCRIPTION="Small Animal Magnetic Resonance Imaging" -HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; -SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" - -LICENSE="GPL-3" -SLOT="0" -IUSE="atlases labbookdb test" -KEYWORDS="~amd64 ~x86" - -# Numpy dependency to circumvent scikits_learn dependency bug: -# https://bugs.gentoo.org/653052 -DEPEND="test? ( sci-biology/samri_bindata )" -RDEPEND=" - dev-python/argh[${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[${PYTHON_USEDEP}] - dev-python/sqlalchemy[${PYTHON_USEDEP}] - dev-python/statsmodels[${PYTHON_USEDEP}] - >=sci-biology/fsl-5.0.9 - sci-biology/bru2nii - atlases? ( sci-biology/mouse-brain-atlases ) - labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) - sci-libs/nibabel[${PYTHON_USEDEP}] - >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] - >=sci-libs/nipype-0.14.0_pre20170830[${PYTHON_USEDEP}] - sci-libs/pybids[${PYTHON_USEDEP}] - sci-libs/scipy[${PYTHON_USEDEP}] - sci-biology/ants - sci-biology/afni - sci-biology/nilearn[${PYTHON_USEDEP}] - " - -S="${WORKDIR}/SAMRI-${PV}" - -python_test() { - distutils_install_for_testing - export MPLBACKEND="agg" - export PATH=${TEST_DIR}/scripts:$PATH - export PYTHONIOENCODING=utf-8 - pytest || die - for i in samri/examples/*.py; do - echo "Executing ${EPYTHON} ${i}" - ${EPYTHON} "$i" || die "Example Python script $i failed with ${EPYTHON}" - done - ./test_scripts.sh || die "Test scripts failed." -} diff --git a/sci-biology/samri/samri-0.2.ebuild b/sci-biology/samri/samri-0.4.1.ebuild similarity index 58% rename from sci-biology/samri/samri-0.2.ebuild rename to sci-biology/samri/samri-0.4.1.ebuild index 12c8d5e01..547b8e912 100644 --- a/sci-biology/samri/samri-0.2.ebuild +++ b/sci-biology/samri/samri-0.4.1.ebuild @@ -3,7 +3,7 @@ EAPI=7 -PYTHON_COMPAT=( python{2_7,3_4,3_5,3_6} ) +PYTHON_COMPAT=( python3_6 ) inherit distutils-r1 @@ -13,18 +13,16 @@ SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" LICENSE="GPL-3" SLOT="0" -IUSE="+atlases labbookdb test" -KEYWORDS="~amd64 ~x86" +IUSE="labbookdb test" +KEYWORDS="~amd64" -# Numpy dependency to circumvent scikits_learn dependency bug: -# https://bugs.gentoo.org/653052 DEPEND=" test? ( dev-python/pytest[${PYTHON_USEDEP}] sci-biology/samri_bidsdata sci-biology/samri_bindata - ) - " + ) +" RDEPEND=" dev-python/argh[${PYTHON_USEDEP}] dev-python/joblib[${PYTHON_USEDEP}] @@ -33,32 +31,27 @@ RDEPEND=" dev-python/pandas[${PYTHON_USEDEP}] dev-python/seaborn[${PYTHON_USEDEP}] dev-python/statsmodels[${PYTHON_USEDEP}] + media-gfx/blender >=sci-biology/fsl-5.0.9 sci-biology/bru2nii - atlases? ( sci-biology/mouse-brain-atlases ) + sci-biology/mouse-brain-atlases labbookdb? ( sci-libs/labbookdb[${PYTHON_USEDEP}] ) sci-libs/nibabel[${PYTHON_USEDEP}] >=sci-libs/nipy-0.4.1[${PYTHON_USEDEP}] - >=sci-libs/nipype-0.14.0_pre20170830[${PYTHON_USEDEP}] - sci-libs/pybids[${PYTHON_USEDEP}] + >=sci-libs/nipype-1.0.0[${PYTHON_USEDEP}] + <=sci-libs/pybids-0.6.5[${PYTHON_USEDEP}] + sci-libs/scikits_image[${PYTHON_USEDEP}] sci-libs/scipy[${PYTHON_USEDEP}] sci-biology/ants sci-biology/afni sci-biology/nilearn[${PYTHON_USEDEP}] - " - -REQUIRED_USE="test? ( atlases )" +" S="${WORKDIR}/SAMRI-${PV}" -python_test() { - distutils_install_for_testing - export MPLBACKEND="agg" - export
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 821a0d0ad237cc05b5e5e3ba5cc7e36c463f0ff0 Author: Horea Christian chymera eu> AuthorDate: Sun Apr 28 01:55:41 2019 + Commit: Horea Christian gmail com> CommitDate: Sun Apr 28 01:59:53 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=821a0d0a sci-biology/samri: updated tests Package-Manager: Portage-2.3.65, Repoman-2.3.12 Signed-off-by: Horea Christian chymera.eu> sci-biology/samri/samri-.ebuild | 2 ++ 1 file changed, 2 insertions(+) diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index 758eed180..a73f94a95 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -69,5 +69,7 @@ python_test() { -e "/def test_bru2bids():/i...@pytest.mark.skip('Skipped by Portage, as this was already tested in test_scripts.sh')" \ samri/pipelines/tests/test_reposit.py || die cd "${BUILD_DIR}" || die + sed -i -e "s:'/tmp/:'$T/:g" `grep -rl "'/tmp/"` pytest -vv || die + sed -i -e "s:'$T/:'/tmp/:g" `grep -rl "'$T/"` }
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: affa20f37f1ea573d97109a36e9b67485b24910b Author: Horea Christian yandex com> AuthorDate: Thu Jan 17 21:23:54 2019 + Commit: Horea Christian gmail com> CommitDate: Thu Jan 17 21:23:54 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=affa20f3 sci-biology/samri: dropped python2 support Package-Manager: Portage-2.3.56, Repoman-2.3.12 Signed-off-by: Horea Christian yandex.com> sci-biology/samri/samri-.ebuild | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index 8a6bc65ae..758eed180 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -3,7 +3,7 @@ EAPI=7 -PYTHON_COMPAT=( python{2_7,3_4,3_5,3_6} ) +PYTHON_COMPAT=( python{3_4,3_5,3_6} ) inherit distutils-r1 git-r3 prefix
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 1ac50c41899fc23bf770661caca378dcd6457a64 Author: Horea Christian yandex com> AuthorDate: Thu Jan 17 21:21:13 2019 + Commit: Horea Christian gmail com> CommitDate: Thu Jan 17 21:23:01 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=1ac50c41 sci-biology/samri: added prefix support Package-Manager: Portage-2.3.56, Repoman-2.3.12 Signed-off-by: Horea Christian yandex.com> sci-biology/samri/samri-.ebuild | 18 ++ 1 file changed, 14 insertions(+), 4 deletions(-) diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index 4f2c64bc7..8a6bc65ae 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -5,7 +5,7 @@ EAPI=7 PYTHON_COMPAT=( python{2_7,3_4,3_5,3_6} ) -inherit distutils-r1 git-r3 +inherit distutils-r1 git-r3 prefix DESCRIPTION="Small Animal Magnetic Resonance Imaging" HOMEPAGE="https://github.com/IBT-FMI/SAMRI"; @@ -50,14 +50,24 @@ RDEPEND=" REQUIRED_USE="test? ( atlases )" +src_prepare() { + distutils-r1_src_prepare + sed -i -e "s:/usr:@GENTOO_PORTAGE_EPREFIX@/usr:g" `grep -rlI \'/usr/ *` + sed -i -e "s:/usr:@GENTOO_PORTAGE_EPREFIX@/usr:g" `grep -rlI \"/usr/ *` + 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:$PATH export PYTHONIOENCODING=utf-8 ./test_scripts.sh || die "Test scripts failed." - sed -i -e \ - "/def test_bru2bids():/i...@pytest.mark.skip('Removed in full test suite, as this is already tested in `test_scripts.sh`')" \ - samri/pipelines/tests/test_repos.py || die + sed -i \ + -e '1s/^/import pytest \n/' \ + -e "/def test_bru2bids():/i...@pytest.mark.skip('Skipped by Portage, as this was already tested in test_scripts.sh')" \ + samri/pipelines/tests/test_reposit.py || die + cd "${BUILD_DIR}" || die pytest -vv || die }
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 9b73be5982c6c1dffb122a1cd10f5997d4d50731 Author: Horea Christian yandex com> AuthorDate: Mon Jan 14 17:36:42 2019 + Commit: Horea Christian gmail com> CommitDate: Mon Jan 14 17:38:55 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=9b73be59 sci-biology/samri: testing required atlases Package-Manager: Portage-2.3.55, Repoman-2.3.12 Signed-off-by: Horea Christian yandex.com> sci-biology/samri/samri-0.2.ebuild | 4 +++- sci-biology/samri/samri-.ebuild | 4 +++- 2 files changed, 6 insertions(+), 2 deletions(-) diff --git a/sci-biology/samri/samri-0.2.ebuild b/sci-biology/samri/samri-0.2.ebuild index af8210de2..12c8d5e01 100644 --- a/sci-biology/samri/samri-0.2.ebuild +++ b/sci-biology/samri/samri-0.2.ebuild @@ -13,7 +13,7 @@ SRC_URI="https://github.com/IBT-FMI/SAMRI/archive/${PV}.tar.gz -> ${P}.tar.gz" LICENSE="GPL-3" SLOT="0" -IUSE="atlases labbookdb test" +IUSE="+atlases labbookdb test" KEYWORDS="~amd64 ~x86" # Numpy dependency to circumvent scikits_learn dependency bug: @@ -47,6 +47,8 @@ RDEPEND=" sci-biology/nilearn[${PYTHON_USEDEP}] " +REQUIRED_USE="test? ( atlases )" + S="${WORKDIR}/SAMRI-${PV}" python_test() { diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index ad9b6a35c..4f2c64bc7 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -14,7 +14,7 @@ EGIT_REPO_URI="https://github.com/IBT-FMI/SAMRI"; LICENSE="GPL-3" SLOT="0" -IUSE="atlases labbookdb test" +IUSE="+atlases labbookdb test" KEYWORDS="" # Numpy dependency to circumvent scikits_learn dependency bug: @@ -48,6 +48,8 @@ RDEPEND=" sci-biology/nilearn[${PYTHON_USEDEP}] " +REQUIRED_USE="test? ( atlases )" + python_test() { distutils_install_for_testing export MPLBACKEND="agg"
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: d74e2a1c91b6f02109d0bb2778bf3a9e05ce61f0 Author: Horea Christian yandex com> AuthorDate: Sat Jan 12 10:35:39 2019 + Commit: Horea Christian gmail com> CommitDate: Sat Jan 12 12:43:03 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=d74e2a1c sci-biology/samri: PYTHON_COMPAT bump and testing dependency update Package-Manager: Portage-2.3.55, Repoman-2.3.12 Signed-off-by: Horea Christian yandex.com> sci-biology/samri/samri-0.2.ebuild | 10 -- sci-biology/samri/samri-.ebuild | 8 +++- 2 files changed, 15 insertions(+), 3 deletions(-) diff --git a/sci-biology/samri/samri-0.2.ebuild b/sci-biology/samri/samri-0.2.ebuild index 3b8f06a60..af8210de2 100644 --- a/sci-biology/samri/samri-0.2.ebuild +++ b/sci-biology/samri/samri-0.2.ebuild @@ -3,7 +3,7 @@ EAPI=7 -PYTHON_COMPAT=( python{2_7,3_4,3_5} ) +PYTHON_COMPAT=( python{2_7,3_4,3_5,3_6} ) inherit distutils-r1 @@ -18,7 +18,13 @@ KEYWORDS="~amd64 ~x86" # Numpy dependency to circumvent scikits_learn dependency bug: # https://bugs.gentoo.org/653052 -DEPEND="test? ( sci-biology/samri_bindata )" +DEPEND=" + test? ( + dev-python/pytest[${PYTHON_USEDEP}] + sci-biology/samri_bidsdata + sci-biology/samri_bindata + ) + " RDEPEND=" dev-python/argh[${PYTHON_USEDEP}] dev-python/joblib[${PYTHON_USEDEP}] diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index 1cc0f87a3..ad9b6a35c 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -19,7 +19,13 @@ KEYWORDS="" # Numpy dependency to circumvent scikits_learn dependency bug: # https://bugs.gentoo.org/653052 -DEPEND="test? ( sci-biology/samri_bindata )" +DEPEND=" + test? ( + dev-python/pytest[${PYTHON_USEDEP}] + sci-biology/samri_bidsdata + sci-biology/samri_bindata + ) + " RDEPEND=" dev-python/argh[${PYTHON_USEDEP}] dev-python/joblib[${PYTHON_USEDEP}]
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 3f38251efe059ee10779bcc12ab4be8eed628902 Author: Horea Christian yandex com> AuthorDate: Sun Jan 6 15:47:56 2019 + Commit: Horea Christian gmail com> CommitDate: Sun Jan 6 15:52:20 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=3f38251e sci-biology/samri: dependency update Package-Manager: Portage-2.3.52, Repoman-2.3.12 Signed-off-by: Horea Christian yandex.com> sci-biology/samri/samri-.ebuild | 1 - 1 file changed, 1 deletion(-) diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index df5845e98..1cc0f87a3 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -27,7 +27,6 @@ RDEPEND=" >=dev-python/numpy-1.13.3[${PYTHON_USEDEP}] dev-python/pandas[${PYTHON_USEDEP}] dev-python/seaborn[${PYTHON_USEDEP}] - dev-python/sqlalchemy[${PYTHON_USEDEP}] dev-python/statsmodels[${PYTHON_USEDEP}] >=sci-biology/fsl-5.0.9 sci-biology/bru2nii
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 35b70ea666aeb1b55743d6c6d57e5cb7118cab58 Author: Horea Christian yandex com> AuthorDate: Sun Jan 6 15:07:30 2019 + Commit: Horea Christian gmail com> CommitDate: Sun Jan 6 15:08:55 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=35b70ea6 sci-biology/samri: version bump Package-Manager: Portage-2.3.52, Repoman-2.3.12 Signed-off-by: Horea Christian yandex.com> sci-biology/samri/samri-0.2.ebuild | 56 ++ 1 file changed, 56 insertions(+) diff --git a/sci-biology/samri/samri-0.2.ebuild b/sci-biology/samri/samri-0.2.ebuild new file mode 100644 index 0..3b8f06a60 --- /dev/null +++ b/sci-biology/samri/samri-0.2.ebuild @@ -0,0 +1,56 @@ +# Copyright 1999-2019 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=7 + +PYTHON_COMPAT=( python{2_7,3_4,3_5} ) + +inherit distutils-r1 + +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 -> ${P}.tar.gz" + +LICENSE="GPL-3" +SLOT="0" +IUSE="atlases labbookdb test" +KEYWORDS="~amd64 ~x86" + +# Numpy dependency to circumvent scikits_learn dependency bug: +# https://bugs.gentoo.org/653052 +DEPEND="test? ( sci-biology/samri_bindata )" +RDEPEND=" + dev-python/argh[${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}] + >=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[${PYTHON_USEDEP}] + >=sci-libs/nipype-0.14.0_pre20170830[${PYTHON_USEDEP}] + sci-libs/pybids[${PYTHON_USEDEP}] + sci-libs/scipy[${PYTHON_USEDEP}] + sci-biology/ants + sci-biology/afni + sci-biology/nilearn[${PYTHON_USEDEP}] + " + +S="${WORKDIR}/SAMRI-${PV}" + +python_test() { + distutils_install_for_testing + export MPLBACKEND="agg" + export PATH=${TEST_DIR}/scripts:$PATH + export PYTHONIOENCODING=utf-8 + ./test_scripts.sh || die "Test scripts failed." + sed -i -e \ + "/def test_bru2bids():/i...@pytest.mark.skip('Removed in full test suite, as this is already tested in `test_scripts.sh`')" \ + samri/pipelines/tests/test_repos.py || die + pytest -vv || die +}
[gentoo-commits] proj/sci:master commit in: sci-biology/samri/
commit: 3deb3266cc23db1815042c373997195ee6f9c93b Author: Horea Christian yandex com> AuthorDate: Sun Jan 6 14:51:18 2019 + Commit: Horea Christian gmail com> CommitDate: Sun Jan 6 14:51:54 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=3deb3266 sci-biology/samri: updated ebuild including test suite, EAPI, and PYTHON_COMPAT bump Package-Manager: Portage-2.3.52, Repoman-2.3.12 Signed-off-by: Horea Christian yandex.com> sci-biology/samri/samri-.ebuild | 15 +++ 1 file changed, 7 insertions(+), 8 deletions(-) diff --git a/sci-biology/samri/samri-.ebuild b/sci-biology/samri/samri-.ebuild index 24078c41e..df5845e98 100644 --- a/sci-biology/samri/samri-.ebuild +++ b/sci-biology/samri/samri-.ebuild @@ -1,9 +1,9 @@ -# Copyright 1999-2018 Gentoo Foundation +# Copyright 1999-2019 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=6 +EAPI=7 -PYTHON_COMPAT=( python{2_7,3_4,3_5} ) +PYTHON_COMPAT=( python{2_7,3_4,3_5,3_6} ) inherit distutils-r1 git-r3 @@ -48,10 +48,9 @@ python_test() { export MPLBACKEND="agg" export PATH=${TEST_DIR}/scripts:$PATH export PYTHONIOENCODING=utf-8 - pytest || die - for i in examples/*.py; do - echo "Executing ${EPYTHON} ${i}" - ${EPYTHON} "$i" || die "Example Python script $i failed with ${EPYTHON}" - done ./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 || die }