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-rw-r--r--sci-libs/gerris/Manifest3
-rw-r--r--sci-libs/gerris/files/gerris-20130531-hypre-no-mpi.patch22
-rw-r--r--sci-libs/gerris/files/gerris-20130531-lis-matrix-csr.patch11
-rw-r--r--sci-libs/gerris/files/gerris-20130531-use-blas-lapack-system.patch33
-rw-r--r--sci-libs/gerris/files/gerris-hypre-no-mpi.patch21
-rw-r--r--sci-libs/gerris/gerris-20120731.ebuild64
-rw-r--r--sci-libs/gerris/gerris-20130531.ebuild68
-rw-r--r--sci-libs/gerris/gerris-20131206.ebuild68
-rw-r--r--sci-libs/gerris/metadata.xml9
9 files changed, 299 insertions, 0 deletions
diff --git a/sci-libs/gerris/Manifest b/sci-libs/gerris/Manifest
new file mode 100644
index 000000000000..6e112fe71c3a
--- /dev/null
+++ b/sci-libs/gerris/Manifest
@@ -0,0 +1,3 @@
+DIST gerris-snapshot-120731.tar.gz 2640044 SHA256 2a032e3418672057d1d83a5280380241d8865d4cc1a53f7bc21e95acd3a5f8fb SHA512 7ec58b715c4e52462c8e0507d34ccf554c71b3bf3575eafd8fb59002c60dcd91a749cfc53b7a4eda1822571777736dab15b0e75594b1d97b4627f72a97defb46 WHIRLPOOL abce090c4f79ee9bf4982ca9bc673ca43c6e40488e308f37a549348eb900ca1d74a8d95b59898bd173167cb849bd5afeca1e38be300d66d711f2a9225108e410
+DIST gerris-snapshot-130531.tar.gz 2822863 SHA256 808a690b928d7a90067e2115121e529311f3631882db46cecdae1468334912d5 SHA512 7372cfae4442f9daf996091d4043c3649976f937eaf6b27a8b65f58b316d26c0cb9d106da6f041ce58b2149d193ab311ed0c65d8834d42bcfebe0b7ec073be9e WHIRLPOOL be02b7b189dd2b27e00ac0cb4af10997e669afef92f4a4377f8117dfda35fe9fd894b750b605dee805288ece2f8ba4072f1d7d6570411eaab51ec8336e5c4eb9
+DIST gerris-snapshot-131206.tar.gz 2841686 SHA256 d5346a362b104ccc858c4b79938727d56c4654b103c268e54cf3aa56d0b55b39 SHA512 b3855d51eea04c496d2e5f662c148560d9ab8d5dfa97e4f7d1c22c70405b9b801b46f30aa0d159b1bd6a8182f171a1649b5f510f0e13feeb55f29cafe57b45dd WHIRLPOOL 81027d9c4c9bf44b542e1161e3238711f321b5db581b0538d5c7addc4dd5229c90f787216d05a689e287ba511546b4e7cc2fb9664bcfb9098e421722a5d8e0fd
diff --git a/sci-libs/gerris/files/gerris-20130531-hypre-no-mpi.patch b/sci-libs/gerris/files/gerris-20130531-hypre-no-mpi.patch
new file mode 100644
index 000000000000..f05512efbddf
--- /dev/null
+++ b/sci-libs/gerris/files/gerris-20130531-hypre-no-mpi.patch
@@ -0,0 +1,22 @@
+patch to allow gerris to use hypre without mpi
+
+--- configure.ac 2013-05-30 23:57:18.000000000 -0700
++++ configure.ac.new 2013-07-22 13:52:36.083974663 -0700
+@@ -336,7 +336,7 @@
+
+ # Build hypre module if HYPRE is installed
+ hypre=no
+-if test "x$use_mpicc" = "xyes" ; then # HYPRE needs MPI
++# hypre does not need mpi
+ AC_CHECK_LIB(HYPRE, HYPRE_IJMatrixCreate, hypre="yes", hypre="no", [-lm])
+ if test x$hypre = xyes; then
+ AC_CHECK_HEADERS(HYPRE.h, hypre="yes", hypre="no")
+@@ -344,7 +344,7 @@
+ if test x$hypre = xno; then
+ AC_MSG_WARN([HYPRE not found. hypre Module won't be available.])
+ fi
+-fi
++
+ AM_CONDITIONAL(BUILD_HYPRE, test x$hypre = xyes)
+
+ # Build lis module if lis is installed
diff --git a/sci-libs/gerris/files/gerris-20130531-lis-matrix-csr.patch b/sci-libs/gerris/files/gerris-20130531-lis-matrix-csr.patch
new file mode 100644
index 000000000000..21d6810bbd2b
--- /dev/null
+++ b/sci-libs/gerris/files/gerris-20130531-lis-matrix-csr.patch
@@ -0,0 +1,11 @@
+--- modules/lis.c.orig 2013-07-22 15:34:05.346631560 -0700
++++ modules/lis.c 2013-07-22 15:33:28.621427315 -0700
+@@ -45,7 +45,7 @@
+ g_array_index (stencil->coeff, double, j),
+ A);
+ }
+- lis_matrix_set_type (A, LIS_MATRIX_CRS);
++ lis_matrix_set_type (A, LIS_MATRIX_CSR);
+ lis_matrix_assemble (A);
+
+ LIS_VECTOR b, x;
diff --git a/sci-libs/gerris/files/gerris-20130531-use-blas-lapack-system.patch b/sci-libs/gerris/files/gerris-20130531-use-blas-lapack-system.patch
new file mode 100644
index 000000000000..4c8985ce5e77
--- /dev/null
+++ b/sci-libs/gerris/files/gerris-20130531-use-blas-lapack-system.patch
@@ -0,0 +1,33 @@
+--- modules/Makefile.am.orig 2013-07-22 14:13:10.339130133 -0700
++++ modules/Makefile.am 2013-07-22 14:15:10.770813929 -0700
+@@ -105,7 +105,7 @@
+ libstokes2D_la_LIBADD = $(GFS2D_LIBS)
+
+ libwavewatch2D_la_SOURCES = wavewatch.c
+-libwavewatch2D_la_LIBADD = $(GFS2D_LIBS) -Lwavewatch -lwavewatch -L/usr/lib/gcc/i486-linux-gnu/4.2 -lgfortran
++libwavewatch2D_la_LIBADD = $(GFS2D_LIBS) -Lwavewatch -lwavewatch
+ libwavewatch2D_la_CFLAGS = $(AM_CFLAGS) -DFTT_2D=1 \
+ -DW3SRCE=`nm wavewatch/libwavewatch.a | grep w3srce | awk '{ if ($$2 == "T") print $$3; }'` \
+ -DGFSW3INIT=`nm wavewatch/libwavewatch.a | grep gfsw3_init | awk '{ if ($$2 == "T") print $$3; }'`
+@@ -164,17 +164,17 @@
+
+ liblis3D_la_SOURCES = lis.c
+ liblis3D_la_CFLAGS = $(AM_CFLAGS)
+-liblis3D_la_LIBADD = $(GFS3D_LIBS) -llis -lgfortran -lm
++liblis3D_la_LIBADD = $(GFS3D_LIBS) -llis -lm
+ liblis2D_la_SOURCES = lis.c
+ liblis2D_la_CFLAGS = $(AM_CFLAGS) -DFTT_2D=1
+-liblis2D_la_LIBADD = $(GFS2D_LIBS) -llis -lgfortran -lm
++liblis2D_la_LIBADD = $(GFS2D_LIBS) -llis -lm
+
+ libagmg3D_la_SOURCES = agmg.c dagmg.f90
+ libagmg3D_la_CFLAGS = $(AM_CFLAGS)
+-libagmg3D_la_LIBADD = $(GFS3D_LIBS) -llapack -lblas -lgfortran -lm
++libagmg3D_la_LIBADD = $(GFS3D_LIBS) $(LAPACK_LIBS) $(BLAS_LIBS) -lm
+ libagmg2D_la_SOURCES = agmg.c dagmg.f90
+ libagmg2D_la_CFLAGS = $(AM_CFLAGS) -DFTT_2D=1
+-libagmg2D_la_LIBADD = $(GFS2D_LIBS) -llapack -lblas -lgfortran -lm
++libagmg2D_la_LIBADD = $(GFS2D_LIBS) $(LAPACK_LIBS) $(BLAS_LIBS) -lm
+
+ libokada3D_la_SOURCES = okada.c
+ libokada3D_la_CFLAGS = $(AM_CFLAGS)
diff --git a/sci-libs/gerris/files/gerris-hypre-no-mpi.patch b/sci-libs/gerris/files/gerris-hypre-no-mpi.patch
new file mode 100644
index 000000000000..2e3aede8b7d6
--- /dev/null
+++ b/sci-libs/gerris/files/gerris-hypre-no-mpi.patch
@@ -0,0 +1,21 @@
+--- configure.in.orig 2012-08-08 17:19:49.374366942 +0100
++++ configure.in 2012-08-08 17:20:40.585155226 +0100
+@@ -334,7 +334,8 @@
+
+ # Build hypre module if HYPRE is installed
+ hypre=no
+-if test "x$use_mpicc" = "xyes" ; then # HYPRE needs MPI
++# hypre does not need mpi
++#if test "x$use_mpicc" = "xyes" ; then # HYPRE needs MPI
+ AC_CHECK_LIB(HYPRE, HYPRE_IJMatrixCreate, hypre="yes", hypre="no", [-lm])
+ if test x$hypre = xyes; then
+ AC_CHECK_HEADERS(HYPRE.h, hypre="yes", hypre="no")
+@@ -342,7 +343,7 @@
+ if test x$hypre = xno; then
+ AC_MSG_WARN([HYPRE not found. hypre Module won't be available.])
+ fi
+-fi
++#fi
+ AM_CONDITIONAL(BUILD_HYPRE, test x$hypre = xyes)
+
+ # Build lis module if lis is installed
diff --git a/sci-libs/gerris/gerris-20120731.ebuild b/sci-libs/gerris/gerris-20120731.ebuild
new file mode 100644
index 000000000000..973040d29ba5
--- /dev/null
+++ b/sci-libs/gerris/gerris-20120731.ebuild
@@ -0,0 +1,64 @@
+# Copyright 1999-2013 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=4
+
+inherit autotools eutils flag-o-matic toolchain-funcs
+
+MYP=${P/-20/-snapshot-}
+
+DESCRIPTION="Gerris Flow Solver"
+HOMEPAGE="http://gfs.sourceforge.net/"
+SRC_URI="http://gerris.dalembert.upmc.fr/gerris/tarballs/${MYP}.tar.gz"
+
+LICENSE="GPL-2"
+
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="examples mpi static-libs"
+
+# all these deps could be optional
+# but the configure.in would have to be modified
+# heavily for the automagic
+RDEPEND="
+ dev-libs/glib:2
+ dev-games/ode
+ sci-libs/netcdf
+ sci-libs/gsl
+ sci-libs/gts
+ sci-libs/hypre[mpi?]
+ sci-libs/lis[mpi?]
+ sci-libs/proj
+ >=sci-libs/fftw-3
+ virtual/lapack
+ mpi? ( virtual/mpi )"
+DEPEND="${RDEPEND}
+ virtual/pkgconfig"
+
+S="${WORKDIR}/${MYP}"
+
+# buggy tests, need extra packages and require gerris to be installed
+RESTRICT=test
+
+src_prepare() {
+ epatch "${FILESDIR}"/${PN}-hypre-no-mpi.patch
+ eautoreconf
+}
+
+src_configure() {
+ append-cppflags "-I${EPREFIX}/usr/include/hypre"
+ econf \
+ $(use_enable mpi) \
+ $(use_enable static-libs static) \
+ LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+}
+
+src_install() {
+ default
+ if use examples; then
+ insinto /usr/share/doc/${PF}/examples
+ rm -f doc/examples/*.pyc || die "Failed to remove python object"
+ doins -r doc/examples/*
+ fi
+}
diff --git a/sci-libs/gerris/gerris-20130531.ebuild b/sci-libs/gerris/gerris-20130531.ebuild
new file mode 100644
index 000000000000..5aec888c6f71
--- /dev/null
+++ b/sci-libs/gerris/gerris-20130531.ebuild
@@ -0,0 +1,68 @@
+# Copyright 1999-2013 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+AUTOTOOLS_AUTORECONF=1
+AUTOTOOLS_IN_SOURCE_BUILD=1
+
+inherit autotools-utils eutils flag-o-matic toolchain-funcs
+
+MYP=${P/-20/-snapshot-}
+
+DESCRIPTION="Gerris Flow Solver"
+HOMEPAGE="http://gfs.sourceforge.net/"
+SRC_URI="http://gerris.dalembert.upmc.fr/gerris/tarballs/${MYP}.tar.gz"
+
+LICENSE="GPL-2"
+
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="examples mpi static-libs"
+
+# all these deps could be optional
+# but the configure.in would have to be modified
+# heavily for the automagic
+RDEPEND="
+ dev-libs/glib:2
+ dev-games/ode
+ sci-libs/netcdf
+ sci-libs/gsl
+ sci-libs/gts
+ sci-libs/hypre[mpi?]
+ sci-libs/lis[mpi?]
+ sci-libs/proj
+ >=sci-libs/fftw-3
+ virtual/lapack
+ mpi? ( virtual/mpi )"
+DEPEND="${RDEPEND}
+ virtual/pkgconfig"
+
+S="${WORKDIR}/${MYP}"
+
+# buggy tests, need extra packages and require gerris to be installed
+RESTRICT=test
+
+PATCHES=(
+ "${FILESDIR}"/${P}-hypre-no-mpi.patch
+ "${FILESDIR}"/${P}-lis-matrix-csr.patch
+ "${FILESDIR}"/${P}-use-blas-lapack-system.patch
+)
+
+src_configure() {
+ append-cppflags "-I${EPREFIX}/usr/include/hypre"
+ local myeconfargs=(
+ $(use_enable mpi)
+ )
+ autotools-utils_src_configure \
+ LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+}
+
+src_install() {
+ autotools-utils_src_install
+ if use examples; then
+ insinto /usr/share/doc/${PF}/examples
+ doins -r doc/examples/*
+ fi
+}
diff --git a/sci-libs/gerris/gerris-20131206.ebuild b/sci-libs/gerris/gerris-20131206.ebuild
new file mode 100644
index 000000000000..9dbad6db4d23
--- /dev/null
+++ b/sci-libs/gerris/gerris-20131206.ebuild
@@ -0,0 +1,68 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+AUTOTOOLS_AUTORECONF=1
+AUTOTOOLS_IN_SOURCE_BUILD=1
+
+inherit autotools-utils eutils flag-o-matic toolchain-funcs
+
+MYP=${P/-20/-snapshot-}
+
+DESCRIPTION="Gerris Flow Solver"
+HOMEPAGE="http://gfs.sourceforge.net/"
+SRC_URI="http://gerris.dalembert.upmc.fr/gerris/tarballs/${MYP}.tar.gz"
+
+LICENSE="GPL-2"
+
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="examples mpi static-libs"
+
+# all these deps could be optional
+# but the configure.in would have to be modified
+# heavily for the automagic
+RDEPEND="
+ dev-libs/glib:2
+ dev-games/ode
+ sci-libs/netcdf
+ sci-libs/gsl
+ sci-libs/gts
+ sci-libs/hypre[mpi?]
+ sci-libs/lis[mpi?]
+ sci-libs/proj
+ >=sci-libs/fftw-3
+ virtual/lapack
+ mpi? ( virtual/mpi )"
+DEPEND="${RDEPEND}
+ virtual/pkgconfig"
+
+S="${WORKDIR}/${MYP}"
+
+# buggy tests, need extra packages and require gerris to be installed
+RESTRICT=test
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-20130531-hypre-no-mpi.patch
+ "${FILESDIR}"/${PN}-20130531-lis-matrix-csr.patch
+ "${FILESDIR}"/${PN}-20130531-use-blas-lapack-system.patch
+)
+
+src_configure() {
+ append-cppflags "-I${EPREFIX}/usr/include/hypre"
+ local myeconfargs=(
+ $(use_enable mpi)
+ )
+ autotools-utils_src_configure \
+ LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+}
+
+src_install() {
+ autotools-utils_src_install
+ if use examples; then
+ insinto /usr/share/doc/${PF}/examples
+ doins -r doc/examples/*
+ fi
+}
diff --git a/sci-libs/gerris/metadata.xml b/sci-libs/gerris/metadata.xml
new file mode 100644
index 000000000000..430d5d021bdf
--- /dev/null
+++ b/sci-libs/gerris/metadata.xml
@@ -0,0 +1,9 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+<herd>sci</herd>
+<longdescription lang="en">
+ Gerris Flow Solver is a software program for the solution of the partial
+ differential equations describing fluid flow.
+</longdescription>
+</pkgmetadata>