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authorHorea Christian <chr@chymera.eu>2021-01-02 22:46:05 -0500
committerHorea Christian <chr@chymera.eu>2021-01-02 22:46:05 -0500
commit5c191a775d0dedfe49d26f2bc38342791f8750b7 (patch)
tree3a1523a664c8e3b9cce2c7a5c91b1b9dcc2678ac /sci-biology/afni
parentsci-biology/afni: applying patch at start of prepare phase (diff)
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sci-biology/afni: version bump 20.3.03
Package-Manager: Portage-3.0.12, Repoman-3.0.2 Signed-off-by: Horea Christian <chr@chymera.eu>
Diffstat (limited to 'sci-biology/afni')
-rw-r--r--sci-biology/afni/Manifest1
-rw-r--r--sci-biology/afni/afni-20.3.03.ebuild77
2 files changed, 78 insertions, 0 deletions
diff --git a/sci-biology/afni/Manifest b/sci-biology/afni/Manifest
index 30824931e..2f909b5c4 100644
--- a/sci-biology/afni/Manifest
+++ b/sci-biology/afni/Manifest
@@ -1,2 +1,3 @@
DIST afni-19.3.12.tar.gz 42337320 BLAKE2B f8f3347e38b7c4b3d720c3c49d5bc50f1057b1d3945e6a33b8415e84e7e539577e5eb351cfc61c53269b6a465619f900b9edcb25830ea056a53f54beb683b0ad SHA512 c4f9303312a89a6e87285646f58223df40b07329cf155bf251a48e8e63302988f103a97363d0666ddd8e9f62f762cf0c219bfc995265b4fe1f1ff5f782025371
DIST afni-20.1.16.tar.gz 43355499 BLAKE2B ad7750e64dd9f4c2ca7e5c67bd99faeb8595a41d8a16192e77202f3d307e912083affc11dcbb5da3530079b9e3cf3c2b6b470050f57d5d7af2bb35cc2322772f SHA512 e6fdb8baea6165865bae5bb186375bd65e862564c48470523a8fe026a12f00715fd21bd852bd77c4077ea444a97642c4c3d2ca8060640ba5ddd57bd7883901a6
+DIST afni-20.3.03.tar.gz 43263734 BLAKE2B 7fdaf3de874edff9b32950a2724ba8b4cbcdda538b09effb12658a042326d5c8badf48f1a4dfb4555eb069347099cf3cdb08c4fe1a12999e6eca3ca6f8dca639 SHA512 3c5007f59d6c46093d38f9419c72aa36fb5701314690811f757d9568561b386cf3cd602ddf910ae08fd071ea7ae1e51f5762081217f7a29b23e32f1490f5db65
diff --git a/sci-biology/afni/afni-20.3.03.ebuild b/sci-biology/afni/afni-20.3.03.ebuild
new file mode 100644
index 000000000..ed100cb3c
--- /dev/null
+++ b/sci-biology/afni/afni-20.3.03.ebuild
@@ -0,0 +1,77 @@
+# Copyright 1999-2021 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+inherit eutils multilib pax-utils toolchain-funcs
+
+DESCRIPTION="An open-source environment for processing and displaying functional MRI data"
+HOMEPAGE="http://afni.nimh.nih.gov/"
+SRC_URI="https://github.com/afni/afni/archive/AFNI_${PV}.tar.gz -> ${P}.tar.gz"
+
+LICENSE="GPL-3+"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE=""
+
+RDEPEND="dev-libs/expat
+ media-libs/glu
+ media-libs/netpbm
+ media-libs/qhull
+ media-video/mpeg-tools
+ sci-libs/gsl
+ sys-devel/llvm:*
+ virtual/jpeg:0
+ x11-libs/libGLw
+ x11-libs/libXft
+ x11-libs/libXi
+ x11-libs/libXpm
+ x11-libs/motif[-static-libs]"
+
+# x11-libs/motif[static-libs] breaks the build.
+# See upstream discussion
+# http://afni.nimh.nih.gov/afni/community/board/read.php?1,85348,85348#msg-85348
+
+DEPEND="${RDEPEND}
+ app-shells/tcsh"
+
+S="${WORKDIR}/${PN}-AFNI_${PV}/src"
+BUILD="linux_fedora_19_64"
+BIN_CONFLICTS=(qdelaunay whirlgif djpeg cjpeg qhull rbox count mpeg_encode)
+
+#PATCHES=(
+# "${FILESDIR}/${P}-python.patch"
+#)
+
+src_prepare() {
+ eapply "${FILESDIR}/${P}-python.patch" || die
+ find -type f -exec sed -i -e "s/-lXp //g" {} +
+ cp other_builds/Makefile.${BUILD} Makefile || die "Could not copy Makefile"
+ # Unbundle imcat
+ sed -e "s/ imcat / /g" \
+ -i Makefile.INCLUDE || die "Could not edit includes files."
+ sed -e "s~CC = /usr/bin/gcc -O2 -m64~CC = $(tc-getCC) \$(CFLAGS)~" \
+ -e "s~CCMIN = /usr/bin/gcc -m64~CCMIN = $(tc-getCC) \$(CFLAGS)~" \
+ -e "s~LD = /usr/bin/gcc~LD = $(tc-getCC)~" \
+ -e "s~AR = /usr/bin/ar~AR = $(tc-getAR)~" \
+ -e "s~RANLIB = /usr/bin/ranlib~RANLIB = $(tc-getRANLIB)~" \
+ -i Makefile || die "Could not edit Makefile"
+ # they provide somewhat problematic makefiles :(
+ sed -e "s~ifeq ($(CC),gcc)~ifeq (1,1)~"\
+ -i SUMA/SUMA_Makefile || die "Could not edit SUMA/SUMA_Makefile"
+ # upstream checks if $CC is EXACTLY gcc, else sets variables for Mac
+ find "${S}" -iname "*Makefile*" | xargs sed -e "s~/usr/~${EROOT}/usr/~g;" -i
+ default
+}
+
+src_compile() {
+ emake -j1 all plugins suma_exec
+}
+
+src_install() {
+ emake INSTALLDIR="${ED}/usr/bin" -j1 install install_plugins
+ emake INSTALLDIR="${ED}/usr/$(get_libdir)" install_lib
+ for CONFLICT in ${BIN_CONFLICTS[@]}; do
+ rm "${ED}/usr/bin/${CONFLICT}"
+ done
+}