diff --git a/sci-biology/afni/ChangeLog b/sci-biology/afni/ChangeLog new file mode 100644 index 0000000..1b58f60 --- /dev/null +++ b/sci-biology/afni/ChangeLog @@ -0,0 +1,4 @@ +*afni-9999 (09 Jan 2021) + + 09 Jan 2021; +afni-9999.ebuild, +metadata.xml: + sci-biology/afni: new ebuild for CMake install diff --git a/sci-biology/afni/Manifest b/sci-biology/afni/Manifest new file mode 100644 index 0000000..a33f2ef --- /dev/null +++ b/sci-biology/afni/Manifest @@ -0,0 +1,3 @@ +DIST 5eae81ba1e87ef3553df3b6ba585f12dc81a0030.tar.gz 107702 SHA256 a89e657385cfc5c7631bf34d21282f3720bf243337c99d42db99332f408f4fcd SHA512 c87712c0f334e025d29d1372ddbd7299b8d5378f7ef7dc09941a10f2f9c75ad9350fe8ceb6e0f6197a5f1c27ab79e03fdfb28a97582e860c6e667b29e9b75459 WHIRLPOOL ad303ee73431054ac97f49a544280bbc847f62b0e8b9fb9d0702197fa80856fd560b03606988ef3a875e43f0a56d92b55f8fbcc333079273266900443d1b768f +DIST 65f801b9c2f1f15f4de4a19d45e6595c25765632.tar.gz 435886 SHA256 80cbfdfb24f8848de652a062be4f5c271d7858d643af4a939b6815306194144b SHA512 be03cdc6cf17fd9ff74c5ecc1f6b2132121bb4b7973a731da334af2a8428d1f0dbbf7b94b2511d1ff7e515b8cc4cf3316d62b189566fb6ffc88c6146eebd48ff WHIRLPOOL 4a3d8154ffa0500c27af2a4ccb60d0eb79ee661918023bd3dee223272e7aee1d360637f99e31414ffac105291fbc80d1f1a4b0c42b2d9fcf4a3c2c976d1ce37e +DIST 962155a01f5a1b87bd64e3e3d880b4dbc2347ac7.tar.gz 881944 SHA256 6aa544799dafaa07c976d137088828262957e0ff5bd2bc6b856ba771c8944299 SHA512 47c1888758020bcf881e7a4933eec1716118c671ac1a9bb4f4637a9634f7fd5c3b5bfa4da7fa001c2bc6abd0f2469583c1275c398836b5c77cb870507c8e7df2 WHIRLPOOL a076721deb6cf206e05df37d10acdef2522be51b1889557319e60ccf8d0b89ba2030ec7f9297bd218c651d2875c661eec1f672d944cca8f3c46989b761201210 diff --git a/sci-biology/afni/afni-9999.ebuild b/sci-biology/afni/afni-9999.ebuild new file mode 100644 index 0000000..16c69f6 --- /dev/null +++ b/sci-biology/afni/afni-9999.ebuild @@ -0,0 +1,104 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=7 + +#CMAKE_MAKEFILE_GENERATOR="emake" +PYTHON_COMPAT=( python3_{6..8} ) + +inherit cmake distutils-r1 git-r3 multilib + +GTS_HASH="962155a01f5a1b87bd64e3e3d880b4dbc2347ac7" +NIFTI_HASH="65f801b9c2f1f15f4de4a19d45e6595c25765632" +GIFTI_HASH="5eae81ba1e87ef3553df3b6ba585f12dc81a0030" + +DESCRIPTION="Advanced Normalitazion Tools for neuroimaging" +HOMEPAGE="http://stnava.github.io/ANTs/" +SRC_URI=" + https://github.com/leej3/gts/archive/${GTS_HASH}.tar.gz + https://github.com/NIFTI-Imaging/nifti_clib/archive/${NIFTI_HASH}.tar.gz + https://github.com/NIFTI-Imaging/gifti_clib/archive/${GIFTI_HASH}.tar.gz + " +EGIT_REPO_URI="https://github.com/afni/afni.git" + +SLOT="0" +LICENSE="GPL-3+" +KEYWORDS="~amd64 ~x86" +IUSE="test" +RESTRICT="!test? ( test )" + +RDEPEND=" + dev-libs/glib:2 + dev-libs/libf2c + dev-libs/expat + dev-util/ninja + media-libs/freeglut + media-libs/glu + media-libs/netpbm + media-libs/qhull + media-video/mpeg-tools + sci-libs/gsl + sys-devel/llvm:* + sys-libs/libomp + dev-libs/libpthread-stubs + virtual/jpeg-compat:62 + x11-libs/libGLw + x11-libs/libXft + x11-libs/libXi + x11-libs/libXmu + x11-libs/libXpm + x11-libs/libXt + x11-libs/motif[-static-libs] + " +DEPEND=" + ${RDEPEND} + app-shells/tcsh + " +# Prospectively: +#sci-libs/gts +#Update jpeg-compat to virtual/jpeg:0 +# look for xmhtlm + +src_prepare() { + tar xf "${DISTDIR}/${GTS_HASH}.tar.gz" || die + tar xf "${DISTDIR}/${NIFTI_HASH}.tar.gz" || die + tar xf "${DISTDIR}/${GIFTI_HASH}.tar.gz" || die + cmake_src_prepare + default + } + +src_configure() { + #LDFLAGS="-L${S}/${LIBDIR} ${LDFLAGS}" econf --enable-progpath="${EPREFIX}/usr/bin" + export CFLAGS="-pthread ${CFLAGS}" + #export LDFLAGS="-lpthread ${LDFLAGS}" + #-CC="$(tc-getCC)" + local mycmakeargs=( + -GNinja + -DCOMP_BINARIES=ON + -DUSE_SYSTEM_NIFTI=OFF + -DUSE_SYSTEM_GIFTI=OFF + -DUSE_SYSTEM_XMHTML=OFF + -DUSE_SYSTEM_GTS=OFF + -DFETCHCONTENT_SOURCE_DIR_GTS="${WORKDIR}/${P}/gts-${GTS_HASH}" + -DFETCHCONTENT_SOURCE_DIR_NIFTI_CLIB="${WORKDIR}/${P}/nifti_clib-${NIFTI_HASH}" + -DFETCHCONTENT_SOURCE_DIR_GIFTI_CLIB="${WORKDIR}/${P}/gifti_clib-${GIFTI_HASH}" + -DCOMP_GUI=ON + -DCOMP_PLUGINS=ON + -DUSE_OMP=ON + -DCOMP_PYTHON=OFF + ) + tc-export CC + cmake_src_configure +} +#/work/afni-9999/nifti_clib-65f801b9c2f1f15f4de4a19d45e6595c25765632 + +#src_install() { +# BUILD_DIR="${WORKDIR}/${P}_build/ANTS-build" +# cmake_src_install +# cd "${S}/Scripts" || die "scripts dir not found" +# dobin *.sh +# dodir /usr/$(get_libdir)/ants +# insinto "/usr/$(get_libdir)/ants" +# doins * +# doenvd "${FILESDIR}"/99ants +#} diff --git a/sci-biology/afni/metadata.xml b/sci-biology/afni/metadata.xml new file mode 100644 index 0000000..acf637d --- /dev/null +++ b/sci-biology/afni/metadata.xml @@ -0,0 +1,16 @@ + + + + + gentoo@chymera.eu + Horea Christian + + + sci@gentoo.org + Gentoo Science Project + + + Analysis of Functional NeuroImages (AFNI) is an open-source environment for processing and displaying + functional MRI data—a technique for mapping human brain activity. + +