gentoo-related/TheChymera-overlay
gentoo-related/TheChymera-overlay
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Merge branch 'master' of github.com:TheChymera/overlay

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This commit is contained in:
Horea Christian 2019-11-27 01:53:59 +01:00
commit 675333cca8
10 changed files with 4 additions and 158 deletions
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4
sci-biology/ants/ChangeLog
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25 Nov 2019; <chymera@gentoo.org> -ants-2.3.1_p20191013.ebuild:
sci-biology/ants: migrated version bump to Gentoo Scinece https://gitweb.gent
oo.org/proj/sci.git/commit/?id=402183f38c721910fe038ed4ce04e0a98a37c584
17 Oct 2019; <chymera@gentoo.org> ants-9999.ebuild:
sci-biology/ants: patch merged by ANTs upstream

72
sci-biology/ants/ants-2.3.1_p20191013.ebuild
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# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=7
CMAKE_MAKEFILE_GENERATOR="emake"
inherit cmake-utils git-r3 multilib
DESCRIPTION="Advanced Normalitazion Tools for neuroimaging"
HOMEPAGE="http://stnava.github.io/ANTs/"
SRC_URI="
test? (
http://chymera.eu/distfiles/ants_testdata-${PV}.tar.xz
)
"
EGIT_REPO_URI="https://github.com/stnava/ANTs.git"
EGIT_COMMIT="f78b2d4a382d3090230641b5ade5da28962dad04"
SLOT="0"
LICENSE="BSD"
KEYWORDS="~amd64 ~x86"
IUSE="test vtk"
DEPEND="
vtk? (
~sci-libs/itk-5.0.1[vtkglue]
sci-libs/vtk
)
!vtk? ( ~sci-libs/itk-5.0.1 )
"
RDEPEND="${DEPEND}"
PATCHES=(
"${FILESDIR}/${P}-logic.patch"
"${FILESDIR}/${P}-paths.patch"
)
src_unpack() {
git-r3_src_unpack
if use test; then
mkdir -p "${S}/.ExternalData/MD5" || die "Could not create test data directory."
tar xvf "${DISTDIR}/ants_testdata-${PV}.tar.xz" -C "${S}/.ExternalData/MD5/" > /dev/null || die "Could not unpack test data."
fi
}
src_configure() {
local mycmakeargs=(
-DUSE_SYSTEM_ITK=ON
-DITK_DIR="/usr/include/ITK-5.0/"
-DBUILD_TESTING="$(usex test ON OFF)"
-DUSE_VTK=$(usex vtk ON OFF)
-DUSE_SYSTEM_VTK=$(usex vtk ON OFF)
)
use vtk && mycmakeargs+=(
-DVTK_DIR="/usr/include/vtk-8.1/"
)
use test && mycmakeargs+=(
-DExternalData_OBJECT_STORES="${S}/.ExternalData/MD5"
)
cmake-utils_src_configure
}
src_install() {
BUILD_DIR="${WORKDIR}/${P}_build/ANTS-build"
cmake-utils_src_install
cd "${WORKDIR}/${P}/Scripts" || die "scripts dir not found"
dobin *.sh
dodir /usr/$(get_libdir)/ants
install -t "${D}"/usr/$(get_libdir)/ants * || die
doenvd "${FILESDIR}"/99ants
}

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sci-biology/samri_bidsdata/ChangeLog
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*samri_bidsdata-0.3 (25 Oct 2019)
25 Oct 2019; <chymera@gentoo.org> +metadata.xml, +samri_bidsdata-0.3.ebuild:
sci-biology/samri_bidsdata: version bump 0.3

1
sci-biology/samri_bidsdata/Manifest
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DIST samri_bidsdata-0.3.tar.xz 11498387144 SHA256 6d8d01f100793bb930d531630c8c1badcef66e90878421bf75a2910195271836 SHA512 bed72df1e5288c0597168f3100b4e839cee869173217df0f3cbdc47ea5b5167d4fcd7f1e8efa681a723bd47d017e6a502a2acf4ce2b225487fff7b8911aa0ff1 WHIRLPOOL b6b53c78ececd4bb2ca3f0cbfd1ed35f4bd592f25b140651c5ced5df407466e47e294344972a48eae09ce529970b34dc04d118bf284bb7f97c66d6acdfce0fa1

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sci-biology/samri_bidsdata/metadata.xml
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<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
<maintainer type="person">
<email>horea.christ@gmail.com</email>
<name>Horea Christian</name>
</maintainer>
<maintainer type="project">
<email>sci@gentoo.org</email>
<name>Gentoo Science Project</name>
</maintainer>
<longdescription lang="en">
Larger BIDS example data package for sci-biology/samri.
</longdescription>
</pkgmetadata>

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sci-biology/samri_bidsdata/samri_bidsdata-0.3.ebuild
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# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=7
DESCRIPTION="BIDS-formatted example mouse brain data for SAMRI"
HOMEPAGE="https://github.com/IBT-FMI/SAMRI"
SRC_URI="
http://chymera.eu/distfiles/${P}.tar.xz
"
LICENSE="GPL-3"
SLOT="0"
KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
IUSE=""
RDEPEND=""
DEPEND=""
src_install() {
insinto "/usr/share/${PN}"
doins -r *
}

4
sci-biology/samri_bindata/ChangeLog
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*samri_bindata-0.3 (17 Oct 2019)
17 Oct 2019; <chymera@gentoo.org> +metadata.xml, +samri_bindata-0.3.ebuild:
sci-biology/samri_bindata: version bump ahead of Gentoo Science

1
sci-biology/samri_bindata/Manifest
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DIST samri_bindata-0.3.tar.xz 1878468940 SHA256 1ebbaad697d3fdf59978ea2bab55c66759642886c3c4b4ad4c7dfc76cdad4157 SHA512 069c0d84ea651156c38062eea409109aaf00c0b2ef52e2e77e205935ecda5d84b047f8b7f36eaf26526f9d720df514ffe3fa494a0742447db9212916c1347ce2 WHIRLPOOL 65ca37ea6ef67e2e1eb5242267b15643bfa3c43c9ec667633cdaa90e9cbf7a054d233d593ffeafc0ad719ccdebced4703ca47213083047f058d1e90ad1fe1eac

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sci-biology/samri_bindata/metadata.xml
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<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
<maintainer type="person">
<email>horea.christ@gmail.com</email>
<name>Horea Christian</name>
</maintainer>
<maintainer type="project">
<email>sci@gentoo.org</email>
<name>Gentoo Science Project</name>
</maintainer>
<longdescription lang="en">
Larger binary testing data package for sci-biology/samri.
</longdescription>
</pkgmetadata>

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sci-biology/samri_bindata/samri_bindata-0.3.ebuild
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# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=7
DESCRIPTION="ParaVision Mouse, Rat, and Lemur Testing Data for SAMRI"
HOMEPAGE="https://github.com/IBT-FMI/SAMRI"
SRC_URI="
http://chymera.eu/distfiles/${P}.tar.xz
"
LICENSE="GPL-3"
SLOT="0"
KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
IUSE=""
RDEPEND=""
DEPEND=""
src_install() {
insinto "/usr/share/${PN}"
doins -r *
}