Added ants packages

sci-biology/ants/Manifest

@@ -1 +1 @@
-DIST 84cf0e06646142e0aa4c3d3324a62701 46161 SHA256 6c40c155a97d383438bc8a66eeb96df51517502bab0b1e8670711c141e71f689 SHA512 20942c444831f9dd71d41809acf0eac6fb351bda9a6e2d6826a645121b09d781a7feacdcd5edf4b7e9708f9e5de380bdfdfcb9f7c4b25fa1a03d506d817c3e1d WHIRLPOOL 5c772213fe6ad3c7a032a61024188a1eaeed93137967e2996cd3ceaf39538e9a522b5e8cdf8826816ba2727191bed510b7616056ab32e95d13bcdef0ef12ced9
+DIST ants_testdata-2.3.1_p20191013.tar.xz 25056144 SHA256 583db72588a110dba2c798325dbdad79165b7973f3974b5f90decdbaddd01ee4 SHA512 5a636f11952355be3c85d4a36faa84409bace15a7fcd675b20bc8eee83f1969773f6fe5cde31cb7c46bd1baeca21dc8324b1007e6126717f1653bdeb906c8e50 WHIRLPOOL 1d8f58f1f3b61f1f7d16716180d8e9d48e51a686c6df3531bc7a1317ce133c895b23c6e3f5f24b53060adea037d86cf869d9236c71d9a23361ea2408724a9298

sci-biology/ants/ants-2.3.1_p20190704.ebuild

@@ -1,49 +0,0 @@
-# Copyright 1999-2019 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-inherit cmake-utils git-r3 multilib
-
-MY_HASH="84cf0e06646142e0aa4c3d3324a62701"
-
-DESCRIPTION="Advanced Normalitazion Tools for neuroimaging"
-HOMEPAGE="http://stnava.github.io/ANTs/"
-SRC_URI="http://slicer.kitware.com/midas3/api/rest?method=midas.bitstream.download&checksum=${MY_HASH} -> ${MY_HASH}"
-EGIT_REPO_URI="https://github.com/stnava/ANTs.git"
-EGIT_COMMIT="1d2e5bf497cd71667d6f7d79ff858387c08bb93e"
-
-SLOT="0"
-LICENSE="BSD"
-KEYWORDS="~amd64 ~x86"
-IUSE="test"
-
-DEPEND=">=dev-util/cmake-3.10.3"
-RDEPEND="
-	sci-libs/vtk
-	>=sci-libs/itk-5.0_rc1
-	"
-
-#src_prepare() {
-#}
-
-src_configure() {
-	local mycmakeargs=(
-		-DITK_DIR="/usr/include/ITK-5.0/"
-		-DUSE_SYSTEM_ITK=ON
-		-DUSE_SYSTEM_VTK=ON
-		-DBUILD_TESTING="$(usex test ON OFF)"
-	)
-	cmake-utils_src_configure
-	cp "../../distdir/84cf0e06646142e0aa4c3d3324a62701" "../${P}_build/ANTS-build"
-}
-
-src_install() {
-	cd "${WORKDIR}/${P}_build/ANTS-build" || die "build dir not found"
-	default
-	cd "${WORKDIR}/${P}/Scripts" || die "scripts dir not found"
-	dobin *.sh
-	dodir /usr/$(get_libdir)/ants
-	install -t "${D}"usr/$(get_libdir)/ants *
-	doenvd "${FILESDIR}"/99ants
-}

sci-biology/ants/ants-2.3.1_p20191013.ebuild

@@ -0,0 +1,71 @@
+# 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-${PV}.tar.xz
+	)
+"
+EGIT_REPO_URI="https://github.com/stnava/ANTs.git"
+EGIT_COMMIT="f78b2d4a382d3090230641b5ade5da28962dad04"
+
+SLOT="0"
+LICENSE="BSD"
+KEYWORDS="~amd64 ~x86"
+IUSE="test vtk"
+
+RDEPEND=""
+DEPEND="
+	>=dev-util/cmake-3.10.3
+	vtk? (
+		~sci-libs/itk-5.0.1[vtkglue]
+		sci-libs/vtk
+	)
+	!vtk? (	~sci-libs/itk-5.0.1 )
+"
+
+PATCHES=(
+	"${FILESDIR}/${P}-logic.patch"
+	"${FILESDIR}/${P}-paths.patch"
+)
+
+src_prepare () {
+	use test && mkdir -p "${S}/.ExternalData/MD5"
+	use test && tar xvf "${DISTDIR}/ants_testdata-${PV}.tar.xz" -C "${S}/.ExternalData/MD5/"
+	cmake-utils_src_prepare
+}
+
+src_configure() {
+	local mycmakeargs=(
+		-DUSE_SYSTEM_ITK=ON
+		-DITK_DIR="/usr/include/ITK-5.0/"
+		-DBUILD_TESTING="$(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
+}

sci-biology/ants/ants-9999.ebuild

@@ -3,51 +3,68 @@
 
 EAPI=7
 
-inherit cmake-utils git-r3 multilib
+CMAKE_MAKEFILE_GENERATOR="emake"
 
-MY_HASH="84cf0e06646142e0aa4c3d3324a62701"
+inherit cmake-utils git-r3 multilib
 
 DESCRIPTION="Advanced Normalitazion Tools for neuroimaging"
 HOMEPAGE="http://stnava.github.io/ANTs/"
-SRC_URI="http://slicer.kitware.com/midas3/api/rest?method=midas.bitstream.download&checksum=${MY_HASH} -> ${MY_HASH}"
+SRC_URI="
+	test? (
+		http://chymera.eu/distfiles/ants_testdata-2.3.1_p20191013.tar.xz
+	)
+"
 EGIT_REPO_URI="https://github.com/stnava/ANTs.git"
-#EGIT_COMMIT="1d2e5bf497cd71667d6f7d79ff858387c08bb93e"
 
 SLOT="0"
 LICENSE="BSD"
 KEYWORDS=""
-IUSE="test"
+IUSE="test vtk"
 
-DEPEND=">=dev-util/cmake-3.10.3"
+RDEPEND=""
-RDEPEND="
+DEPEND="
-	sci-libs/vtk
+	>=dev-util/cmake-3.10.3
-	>=sci-libs/itk-5.0_rc1
+	vtk? (
-	"
+		~sci-libs/itk-5.0.1[vtkglue]
+		sci-libs/vtk
+	)
+	!vtk? (	~sci-libs/itk-5.0.1 )
+"
 
-#S="${WORKDIR}/ANTs-${PV}"
+PATCHES=(
+	"${FILESDIR}/${P}-logic.patch"
+	"${FILESDIR}/${P}-paths.patch"
+)
 
-src_prepare() {
+src_prepare () {
-	pwd
+	use test && mkdir -p "${S}/.ExternalData/MD5"
-	ln -s
+	use test && tar xvf "${DISTDIR}/ants_testdata-2.3.1_p20191013.tar.xz" -C "${S}/.ExternalData/MD5/"
-	die
+	cmake-utils_src_prepare
 }
 
 src_configure() {
 	local mycmakeargs=(
-		-DITK_DIR="/usr/include/ITK-5.0/"
 		-DUSE_SYSTEM_ITK=ON
-		-DUSE_SYSTEM_VTK=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() {
-	cd "${WORKDIR}/${P}_build/ANTS-build" || die "build dir not found"
+	BUILD_DIR="${WORKDIR}/${P}_build/ANTS-build"
-	default
+	cmake-utils_src_install
 	cd "${WORKDIR}/${P}/Scripts" || die "scripts dir not found"
 	dobin *.sh
 	dodir /usr/$(get_libdir)/ants
-	install -t "${D}"usr/$(get_libdir)/ants *
+	install -t "${D}"/usr/$(get_libdir)/ants * || die
 	doenvd "${FILESDIR}"/99ants
 }

sci-biology/ants/metadata.xml

@@ -18,4 +18,7 @@
 		image analysis. ANTs depends on the Insight ToolKit (ITK), a widely used
 		medical image processing library to which ANTs developers contribute.
 	</longdescription>
+	<use>
+		<flag name="vtk">Optional support for a number of surface enabled tools (via sci-libs/vtk).</flag>
+	</use>
 </pkgmetadata>