[gentoo-commits] proj/sci:master commit in: profiles/, sci-biology/afni/

[Horea Christian]

commit:     9c3493015edd58f073ee3d0493753721a04a7d6b
Author:     Horea Christian <horea.christ <AT> yandex <DOT> com>
AuthorDate: Sat Mar  2 18:05:25 2019 +0000
Commit:     Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sat Mar  2 18:07:33 2019 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=9c349301

sci-biology/afni: version bump

Package-Manager: Portage-2.3.62, Repoman-2.3.12
Signed-off-by: Horea Christian <horea.christ <AT> yandex.com>

 profiles/package.mask                |  1 +
 sci-biology/afni/afni-19.0.21.ebuild | 68 ++++++++++++++++++++++++++++++++++++
 2 files changed, 69 insertions(+)

diff --git a/profiles/package.mask b/profiles/package.mask
index 25cd51884..9f3e2465b 100644
--- a/profiles/package.mask
+++ b/profiles/package.mask
@@ -39,6 +39,7 @@ sci-biology/samri
 # or more generally unbundling. Masked until unbundling
 # efforts ( https://github.com/afni/afni/pull/60 ) come to
 # fruition.
+=sci-biology/afni-19.0.21
 =sci-biology/afni-18.1.04
 
 # Sebastien Fabbro <bicatali@g.o> (23 Aug 2011)

diff --git a/sci-biology/afni/afni-19.0.21.ebuild b/sci-biology/afni/afni-19.0.21.ebuild
new file mode 100644
index 000000000..104015772
--- /dev/null
+++ b/sci-biology/afni/afni-19.0.21.ebuild
@@ -0,0 +1,68 @@
+# Copyright 1999-2019 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 -> ${P}.tar.gz"
+
+LICENSE="GPL-3+"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE=""
+
+RDEPEND="dev-libs/expat
+	media-libs/netpbm
+	media-libs/qhull
+	media-video/mpeg-tools
+	sci-libs/gsl
+	sys-devel/llvm:*
+	virtual/jpeg:0
+	x11-libs/libGLw
+	x11-libs/libXft
+	x11-libs/libXi
+	x11-libs/libXpm
+	x11-libs/motif[-static-libs]"
+
+# x11-libs/motif[static-libs] breaks the build.
+# See upstream discussion
+# http://afni.nimh.nih.gov/afni/community/board/read.php?1,85348,85348#msg-85348
+
+DEPEND="${RDEPEND}
+	app-shells/tcsh"
+
+S="${WORKDIR}/${PN}-AFNI_${PV}/src"
+BUILD="linux_fedora_19_64"
+BIN_CONFLICTS=(qdelaunay whirlgif djpeg cjpeg qhull rbox count mpeg_encode)
+
+src_prepare() {
+	find -type f -exec sed -i -e "s/-lXp //g" {} +
+	cp other_builds/Makefile.${BUILD} Makefile || die "Could not copy Makefile"
+	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/~${EROOT}/usr/~g;" -i
+	eapply_user
+}
+
+src_compile() {
+	emake -j1 all plugins suma_exec
+}
+
+src_install() {
+	emake INSTALLDIR="${ED}/usr/bin" -j1 install install_plugins
+	emake INSTALLDIR="${ED}/usr/$(get_libdir)" -j1 install_lib
+	for CONFLICT in ${BIN_CONFLICTS[@]}; do
+		rm "${ED}/usr/bin/${CONFLICT}"
+	done
+}