From bb1f37f0f572f926094d4860ea8010d7aa82ca1e Mon Sep 17 00:00:00 2001 From: Horea Christian Date: Tue, 12 Dec 2023 12:16:43 -0500 Subject: [PATCH] New afni CMake attempts --- sci-biology/afni/Manifest | 2 + .../afni/afni-23.3.13_p20231212.ebuild | 123 ++++++++++++++++++ sci-biology/afni/afni-9999.ebuild | 2 +- 3 files changed, 126 insertions(+), 1 deletion(-) create mode 100644 sci-biology/afni/afni-23.3.13_p20231212.ebuild diff --git a/sci-biology/afni/Manifest b/sci-biology/afni/Manifest index a517c6c..c73c601 100644 --- a/sci-biology/afni/Manifest +++ b/sci-biology/afni/Manifest @@ -1,3 +1,5 @@ DIST 5eae81ba1e87ef3553df3b6ba585f12dc81a0030.tar.gz 107702 BLAKE2B fba90e459c586abe46dd9a921420650e518d622464395e29e78d427bb1cd498156a0f8430bb5096c3648fe506e2dbc47ef66c7cf4a5faa599b296a29d07e74ef SHA512 c87712c0f334e025d29d1372ddbd7299b8d5378f7ef7dc09941a10f2f9c75ad9350fe8ceb6e0f6197a5f1c27ab79e03fdfb28a97582e860c6e667b29e9b75459 DIST 65f801b9c2f1f15f4de4a19d45e6595c25765632.tar.gz 435886 BLAKE2B 3fdad348d7fa3c86f3d9edac060aed365d88bf43b3252156e2a548901d3f14436a6ba4dccfeb83e1452d51124ac42d854f86f3e25ca675ebbeb54fa331a5921b SHA512 be03cdc6cf17fd9ff74c5ecc1f6b2132121bb4b7973a731da334af2a8428d1f0dbbf7b94b2511d1ff7e515b8cc4cf3316d62b189566fb6ffc88c6146eebd48ff DIST 962155a01f5a1b87bd64e3e3d880b4dbc2347ac7.tar.gz 881944 BLAKE2B 48faf04e90ba0256f7773d0d1c1f35223d5a89fddc90eb363b25034015f0d75cabd58029947a9690a1071a5004a59fefc786b91626d5ecc5b1ca60d95097f2a6 SHA512 47c1888758020bcf881e7a4933eec1716118c671ac1a9bb4f4637a9634f7fd5c3b5bfa4da7fa001c2bc6abd0f2469583c1275c398836b5c77cb870507c8e7df2 +DIST d3e873d8539d9b469daf7db04093da1d7e73d4f7.tar.gz 107745 BLAKE2B b8162fe08446d5c934762e8dce051e93c8c90fd574dca55757988ccc45be20bfdd07b7a401ef6c536afbe097e6bc05fd3b7f09c4404af4fad4e21fbada7109de SHA512 c458074c6976245cffc48c1e1e57811ec3c0cc5959345bdbc8d674eed6c8a8f93e9f9762bf3acce7142e004dc37930d14bed8cfb97c5b7e92b3f39598da924e2 +DIST da476fd27f46098f37f5c9c4c1baee01e559572c.tar.gz 451578 BLAKE2B 6bb92ae3ab48dba435b067f7ec0b6d417658ee1a46efe05070bf18fd6d46b8339eaffd09c2fea4971d2685f211496a700b36c255ffb164994636e535b64fe4f5 SHA512 df92345ed580e8bf0579f2ea3ed55a4c4c678a0fe3bfad1e62379e5bf16961272bb2d3e7fda89b96b503cda51c1bf2fb8eb74adba6aad9c73b6830d7d884d1f5 diff --git a/sci-biology/afni/afni-23.3.13_p20231212.ebuild b/sci-biology/afni/afni-23.3.13_p20231212.ebuild new file mode 100644 index 0000000..ecba84d --- /dev/null +++ b/sci-biology/afni/afni-23.3.13_p20231212.ebuild @@ -0,0 +1,123 @@ +# 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_{10..11} ) + +inherit cmake distutils-r1 git-r3 multilib ninja-utils + +GTS_HASH="962155a01f5a1b87bd64e3e3d880b4dbc2347ac7" +NIFTI_HASH="da476fd27f46098f37f5c9c4c1baee01e559572c" +GIFTI_HASH="d3e873d8539d9b469daf7db04093da1d7e73d4f7" +EGIT_COMMI="88c61486b22e3d4a68463f5f0d1030ed19b00bd2" + +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" +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 GIT_REPO_VERSION=3.0.1.1 + #export LDFLAGS="-lpthread ${LDFLAGS}" + #-CC="$(tc-getCC)" + local mycmakeargs=( + -GNinja + -DLIBDIR=/usr/$(get_libdir) + -DNIFTI_INSTALL_LIBRARY_DIR=/usr/$(get_libdir) + -DGIFTI_INSTALL_LIBRARY_DIR=/usr/$(get_libdir) + -DAFNI_INSTALL_LIBRARY_DIR=/usr/$(get_libdir) + -DCMAKE_INSTALL_LIBDIR=/usr/$(get_libdir) + -DCOMP_COREBINARIES=ON + -DUSE_SYSTEM_NIFTI=OFF + -DUSE_SYSTEM_GIFTI=OFF + -DUSE_SYSTEM_XMHTML=OFF + -DUSE_SYSTEM_GTS=OFF + -DFETCHCONTENT_SOURCE_DIR_GTS="${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 + -DPython_FIND_VIRTUALENV=STANDARD + -DPython_FIND_STRATEGY=LOCATION + ) + tc-export CC + cmake_src_configure +} + +src_compile() { + cd ../afni-9999_build + pwd + ls -la + eninja || die +} + +#/work/afni-9999/nifti_clib-65f801b9c2f1f15f4de4a19d45e6595c25765632 + +src_install() { + cd ../afni-9999_build + DESTDIR=${D} eninja install + #BUILD_DIR="${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/afni-9999.ebuild b/sci-biology/afni/afni-9999.ebuild index 2090b7e..29e4248 100644 --- a/sci-biology/afni/afni-9999.ebuild +++ b/sci-biology/afni/afni-9999.ebuild @@ -4,7 +4,7 @@ EAPI=7 #CMAKE_MAKEFILE_GENERATOR="emake" -PYTHON_COMPAT=( python3_{8..10} ) +PYTHON_COMPAT=( python3_{10..11} ) inherit cmake distutils-r1 git-r3 multilib ninja-utils