[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
commit: 56534d2726843525afa4f90024a8ba51c5c66383 Author: Matthias Maier gentoo org> AuthorDate: Mon Aug 5 06:46:08 2019 + Commit: Matthias Maier gentoo org> CommitDate: Mon Aug 5 06:46:08 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=56534d27 sci-mathematics/petsc: merge into ::gentoo and remove from overlay. Signed-off-by: Matthias Maier gentoo.org> .../petsc/files/petsc-3.7.0-disable-rpath.patch| 18 -- .../files/petsc-3.9.0-fix_sandbox_violation.patch | 17 -- sci-mathematics/petsc/metadata.xml | 23 --- sci-mathematics/petsc/petsc-3.10.0.ebuild | 192 - sci-mathematics/petsc/petsc-3.10.4.ebuild | 192 - sci-mathematics/petsc/petsc-3.11.1.ebuild | 191 sci-mathematics/petsc/petsc-3.11.3.ebuild | 191 7 files changed, 824 deletions(-) diff --git a/sci-mathematics/petsc/files/petsc-3.7.0-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.7.0-disable-rpath.patch deleted file mode 100644 index 8d0d99330..0 --- a/sci-mathematics/petsc/files/petsc-3.7.0-disable-rpath.patch +++ /dev/null @@ -1,18 +0,0 @@ -diff --git a/config/BuildSystem/config/setCompilers.py b/config/BuildSystem/config/setCompilers.py -index 219a35b..ad2ed8c 100644 a/config/BuildSystem/config/setCompilers.py -+++ b/config/BuildSystem/config/setCompilers.py -@@ -1385,12 +1385,7 @@ class Configure(config.base.Configure): - for language in languages: - flag = '-L' - self.pushLanguage(language) -- # test '-R' before '-rpath' as sun compilers [c,fortran] don't give proper errors with wrong options. -- if not Configure.isDarwin(self.log): --testFlags = ['-Wl,-rpath,', '-R','-rpath ' , '-Wl,-R,'] -- else: --testFlags = ['-Wl,-rpath,'] -- # test '-R' before '-Wl,-rpath' for SUN compilers [as cc on linux accepts -Wl,-rpath, but f90 & CC do not. -+ testFlags = [] - if self.isSun(self.framework.getCompiler(), self.log): - testFlags.insert(0,'-R') - for testFlag in testFlags: diff --git a/sci-mathematics/petsc/files/petsc-3.9.0-fix_sandbox_violation.patch b/sci-mathematics/petsc/files/petsc-3.9.0-fix_sandbox_violation.patch deleted file mode 100644 index 97f8dfed4..0 --- a/sci-mathematics/petsc/files/petsc-3.9.0-fix_sandbox_violation.patch +++ /dev/null @@ -1,17 +0,0 @@ -diff --git a/config/PETSc/options/installDir.py b/config/PETSc/options/installDir.py -index 92f190d..047c85b 100644 a/config/PETSc/options/installDir.py -+++ b/config/PETSc/options/installDir.py -@@ -41,12 +41,6 @@ class Configure(config.base.Configure): - self.dir = os.path.abspath(os.path.expanduser(self.framework.argDB['prefix'])) - self.petscDir = self.dir - self.petscArch = '' -- try: --os.makedirs(os.path.join(self.dir,'PETScTestDirectory')) --os.rmdir(os.path.join(self.dir,'PETScTestDirectory')) -- except: --self.installSudoMessage = 'You do not have write permissions to the --prefix directory '+self.dir+'\nYou will be prompted for the sudo password for any external package installs' --self.installSudo = 'sudo ' - else: - self.dir = os.path.abspath(os.path.join(self.petscdir.dir, self.arch.arch)) - self.petscDir = self.petscdir.dir diff --git a/sci-mathematics/petsc/metadata.xml b/sci-mathematics/petsc/metadata.xml deleted file mode 100644 index 8c9c01d83..0 --- a/sci-mathematics/petsc/metadata.xml +++ /dev/null @@ -1,23 +0,0 @@ - -http://www.gentoo.org/dtd/metadata.dtd";> - - - tam...@gentoo.org - Matthias Maier - - - sci-mathemat...@gentoo.org - Gentoo Mathematics Project - - - Use Afterstep image library (media-libs/libafterimage) - Use boost (dev-libs/boost) - Use HYPRE (sci-mathematics/hypre) and for preconditioning - Make scalars complex - Add support for metis (sci-libs/parmetis) - Use suitesparse (sci-libs/suitesparse) including cholmod (sci-libs/cholmod) for sparse factorization - Use superlu (sci-libs/superlu) for preconditioning - Add support for mumps (sci-libs/mumps) - Add support for scotch (sci-libs/scotch) - - diff --git a/sci-mathematics/petsc/petsc-3.10.0.ebuild b/sci-mathematics/petsc/petsc-3.10.0.ebuild deleted file mode 100644 index 80dfd5255..0 --- a/sci-mathematics/petsc/petsc-3.10.0.ebuild +++ /dev/null @@ -1,192 +0,0 @@ -# Copyright 1999-2018 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=6 - -PYTHON_COMPAT=( python2_7 ) - -inherit flag-o-matic fortran-2 python-any-r1 toolchain-funcs - -DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation" -HOMEPAGE="http://www.m
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: b3ce34b463fb20b65ade548d959fae9ac81ed606 Author: Matthias Maier gentoo org> AuthorDate: Fri Jul 12 12:12:08 2019 + Commit: Matthias Maier gentoo org> CommitDate: Fri Jul 12 12:12:08 2019 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=b3ce34b4 sci-mathematics/petsc: switch back to EAPI 6 for the time being Package-Manager: Portage-2.3.68, Repoman-2.3.16 Signed-off-by: Matthias Maier gentoo.org> sci-mathematics/petsc/petsc-3.11.3.ebuild | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/sci-mathematics/petsc/petsc-3.11.3.ebuild b/sci-mathematics/petsc/petsc-3.11.3.ebuild index 59a9cff21..99676386d 100644 --- a/sci-mathematics/petsc/petsc-3.11.3.ebuild +++ b/sci-mathematics/petsc/petsc-3.11.3.ebuild @@ -1,7 +1,7 @@ # Copyright 1999-2019 Gentoo Authors # Distributed under the terms of the GNU General Public License v2 -EAPI=7 +EAPI=6 PYTHON_COMPAT=( python2_7 )
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
commit: fd85a467bb08d7e711568fd09cc890755878ba62
Author: Matthias Maier gentoo org>
AuthorDate: Fri Jul 12 10:56:29 2019 +
Commit: Matthias Maier gentoo org>
CommitDate: Fri Jul 12 10:56:29 2019 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=fd85a467
sci-mathematics/petsc: drop old
Package-Manager: Portage-2.3.68, Repoman-2.3.16
Signed-off-by: Matthias Maier gentoo.org>
.../files/petsc-3.8.3-fix_sandbox_violation.patch | 17 --
sci-mathematics/petsc/petsc-3.8.4.ebuild | 205 -
sci-mathematics/petsc/petsc-3.9.4.ebuild | 196
3 files changed, 418 deletions(-)
diff --git
a/sci-mathematics/petsc/files/petsc-3.8.3-fix_sandbox_violation.patch
b/sci-mathematics/petsc/files/petsc-3.8.3-fix_sandbox_violation.patch
deleted file mode 100644
index 4f51aee81..0
--- a/sci-mathematics/petsc/files/petsc-3.8.3-fix_sandbox_violation.patch
+++ /dev/null
@@ -1,17 +0,0 @@
-diff --git a/config/PETSc/options/installDir.py
b/config/PETSc/options/installDir.py
-index 975dc8a..c216941 100644
a/config/PETSc/options/installDir.py
-+++ b/config/PETSc/options/installDir.py
-@@ -39,12 +39,6 @@ class Configure(config.base.Configure):
- if self.framework.argDB['prefix']:
- self.dir =
os.path.abspath(os.path.expanduser(self.framework.argDB['prefix']))
- self.addMakeMacro('PREFIXDIR',self.dir)
-- try:
--os.makedirs(os.path.join(self.dir,'PETScTestDirectory'))
--os.rmdir(os.path.join(self.dir,'PETScTestDirectory'))
-- except:
--self.installSudoMessage = 'You do not have write permissions to the
--prefix directory '+self.dir+'\nYou will be prompted for the sudo password for
any external package installs'
--self.installSudo = 'sudo '
- else:
- self.dir = os.path.abspath(os.path.join(self.petscdir.dir,
self.arch.arch))
- self.confDir = os.path.abspath(os.path.join(self.petscdir.dir,
self.arch.arch))
diff --git a/sci-mathematics/petsc/petsc-3.8.4.ebuild
b/sci-mathematics/petsc/petsc-3.8.4.ebuild
deleted file mode 100644
index c47619aaf..0
--- a/sci-mathematics/petsc/petsc-3.8.4.ebuild
+++ /dev/null
@@ -1,205 +0,0 @@
-# Copyright 1999-2018 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${PN}-$(replace_version_separator _ -)"
-
-DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
-HOMEPAGE="http://www.mcs.anl.gov/petsc/";
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
-
-LICENSE="BSD-2"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE="afterimage boost complex-scalars cxx debug doc fftw
- fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
-
-# hypre and superlu curretly exclude each other due to missing linking to hypre
-# if both are enabled
-REQUIRED_USE="
- afterimage? ( X )
- complex-scalars? ( !hypre !superlu )
- hdf5? ( mpi )
- hypre? ( cxx mpi !superlu )
- mumps? ( mpi scotch )
- scotch? ( mpi )
- superlu? ( !hypre )
-"
-
-RDEPEND="
- virtual/blas
- virtual/lapack
- afterimage? ( media-libs/libafterimage )
- boost? ( dev-libs/boost )
- fftw? ( sci-libs/fftw:3.0[mpi?] )
- hdf5? ( sci-libs/hdf5[mpi?] )
- hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
- metis? ( >=sci-libs/parmetis-4 )
- mpi? ( virtual/mpi[cxx?,fortran?] )
- mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
- scotch? ( sci-libs/scotch[mpi?] )
- sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
- superlu? ( >=sci-libs/superlu-5 )
- X? ( x11-libs/libX11 )
-"
-
-DEPEND="${RDEPEND}
- ${PYTHON_DEPS}
- virtual/pkgconfig
- dev-util/cmake
-"
-
-#
-# PETSc does not want its Makefiles to be invoked with anything higher than
-# -j1. The underlying build system does automatically invoke a parallel
-# build. This might not be what you want, but *hey* not your choice.
-#
-# V=1 enables verbose output with full compiler and linker invocation
-#
-MAKEOPTS="${MAKEOPTS} -j1 V=1"
-
-S="${WORKDIR}/${MY_P}"
-
-PATCHES=(
- "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
- "${FILESDIR}"/${PN}-3.8.3-fix_sandbox_violation.patch
-)
-
-src_prepare() {
- default
-
- sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
-}
-
-# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
-petsc_enable() {
- use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
-}
-# add external library:
-# petsc_with use_flag libname libdir
-# petsc_with use_flag libname include linking_libs
-petsc_with() {
- local myuse p=${2:-${1}}
- if use ${1}; then
- myuse="--with-${p}=1"
- if [[ $# -ge 4 ]]; then
- myuse="${
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 817744adda580e8ccdbc83ec6b29e00426f83591
Author: Matthias Maier gentoo org>
AuthorDate: Fri Jul 12 10:58:53 2019 +
Commit: Matthias Maier gentoo org>
CommitDate: Fri Jul 12 10:58:53 2019 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=817744ad
sci-mathematics/petsc: version bump to 3.11.3
Package-Manager: Portage-2.3.68, Repoman-2.3.16
Signed-off-by: Matthias Maier gentoo.org>
sci-mathematics/petsc/petsc-3.11.3.ebuild | 191 ++
1 file changed, 191 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.11.3.ebuild
b/sci-mathematics/petsc/petsc-3.11.3.ebuild
new file mode 100644
index 0..59a9cff21
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.11.3.ebuild
@@ -0,0 +1,191 @@
+# Copyright 1999-2019 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit flag-o-matic fortran-2 python-any-r1 toolchain-funcs
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${P}.tar.gz";
+
+LICENSE="BSD-2"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ complex-scalars? ( !hypre !superlu )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi !superlu )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ superlu? ( !hypre )
+"
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ metis? ( >=sci-libs/parmetis-4 )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( >=sci-libs/superlu-5 )
+ X? ( x11-libs/libX11 )
+"
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
+)
+
+src_prepare() {
+ default
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+}
+# add external library:
+# petsc_with use_flag libname libdir
+# petsc_with use_flag libname include linking_libs
+petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+}
+
+# select between configure options depending on use flag
+petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+ # if mpi is built with knem support it needs /dev/knem too
+ addpredict /dev/knem
+
+ # configureMPITypes with openmpi-2* insists on accessing the scaling
+ # governor rw.
+ addpredict /sys/devices/system/cpu/
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+ strip-flags
+ filter-flags -O*
+ fi
+
+ # C Support on CXX builds is enabled if possible i.e. when not using
+ # complex scalars (no complex type for both available at the same time)
+
+ econf \
+ scrollOutput=1 \
+ FFLAGS="${FFLAGS} -fPIC" \
+ CFLAGS="${CFLAGS} -fPIC" \
+ CXXFLAGS="${CXXFLAGS} -fPIC" \
+ LDFLAGS="${LDFLAGS}" \
+ --prefix="${EPREFIX
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 0b1e1d868ca34c28fcfbcb5e30d2ed0e63c94039
Author: Bernd Waibel gmail com>
AuthorDate: Fri Nov 9 16:36:54 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Fri Jul 12 10:55:21 2019 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=0b1e1d86
sci-mathematics/petsc: fix blas configuration error
* add blas to call to pkg-config for blas/lapack
* make EAPI 7 compatible, remove versionator.eclass
* change --with-cmake= variable to avoid warning
Thanks to @ycoudier for hint on pkg-config
Suggested-by: @ycoudier
Closes: https://bugs.gentoo.org/669040
Closes: https://github.com/gentoo/sci/issues/892
Package-Manager: Portage-2.3.51, Repoman-2.3.12
Signed-off-by: Bernd Waibel gmail.com>
Signed-off-by: Matthias Maier gentoo.org>
sci-mathematics/petsc/petsc-3.10.0.ebuild | 14 +-
1 file changed, 5 insertions(+), 9 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.10.0.ebuild
b/sci-mathematics/petsc/petsc-3.10.0.ebuild
index b67536ef6..80dfd5255 100644
--- a/sci-mathematics/petsc/petsc-3.10.0.ebuild
+++ b/sci-mathematics/petsc/petsc-3.10.0.ebuild
@@ -1,17 +1,15 @@
-# Copyright 1999-2018 Gentoo Foundation
+# Copyright 1999-2018 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=6
PYTHON_COMPAT=( python2_7 )
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${PN}-$(replace_version_separator _ -)"
+inherit flag-o-matic fortran-2 python-any-r1 toolchain-funcs
DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
HOMEPAGE="http://www.mcs.anl.gov/petsc/";
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${P}.tar.gz";
LICENSE="BSD-2"
SLOT="0"
@@ -54,8 +52,6 @@ DEPEND="${RDEPEND}
dev-util/cmake
"
-S="${WORKDIR}/${MY_P}"
-
PATCHES=(
"${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
"${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
@@ -143,7 +139,7 @@ src_configure() {
--with-petsc-arch=${PETSC_ARCH} \
--with-precision=double \
--with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
+ --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas
lapack)" \
$(petsc_enable debug debugging) \
$(petsc_enable mpi) \
$(petsc_select mpi cc mpicc $(tc-getCC)) \
@@ -154,7 +150,7 @@ src_configure() {
$(petsc_select complex-scalars scalar-type complex real) \
--with-windows-graphics=0 \
--with-matlab=0 \
- --with-cmake=cmake \
+ --with-cmake:BOOL=1 \
$(petsc_enable threads pthread) \
$(petsc_with afterimage afterimage \
/usr/include/libAfterImage -lAfterImage) \
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: fcbf3687c7f71449e326be09015c1e7f6fb6d655
Author: Matthias Maier gentoo org>
AuthorDate: Fri Jul 12 10:53:40 2019 +
Commit: Matthias Maier gentoo org>
CommitDate: Fri Jul 12 10:55:24 2019 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=fcbf3687
sci-mathematics/petsc: also apply patches to 3.10.4 and 3.11.1
Package-Manager: Portage-2.3.68, Repoman-2.3.16
Signed-off-by: Matthias Maier gentoo.org>
sci-mathematics/petsc/petsc-3.10.4.ebuild | 14 +-
sci-mathematics/petsc/petsc-3.11.1.ebuild | 14 +-
2 files changed, 10 insertions(+), 18 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.10.4.ebuild
b/sci-mathematics/petsc/petsc-3.10.4.ebuild
index bc9a4b110..418196a8d 100644
--- a/sci-mathematics/petsc/petsc-3.10.4.ebuild
+++ b/sci-mathematics/petsc/petsc-3.10.4.ebuild
@@ -5,13 +5,11 @@ EAPI=6
PYTHON_COMPAT=( python2_7 )
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${PN}-$(replace_version_separator _ -)"
+inherit flag-o-matic fortran-2 python-any-r1 toolchain-funcs
DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
HOMEPAGE="http://www.mcs.anl.gov/petsc/";
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${P}.tar.gz";
LICENSE="BSD-2"
SLOT="0"
@@ -54,8 +52,6 @@ DEPEND="${RDEPEND}
dev-util/cmake
"
-S="${WORKDIR}/${MY_P}"
-
PATCHES=(
"${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
"${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
@@ -83,7 +79,7 @@ petsc_with() {
shift 3
myuse="${myuse} --with-${p}-lib=$@"
else
- myuse="${myuse}"
+ myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
fi
else
myuse="--with-${p}=0"
@@ -143,7 +139,7 @@ src_configure() {
--with-petsc-arch=${PETSC_ARCH} \
--with-precision=double \
--with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
+ --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas
lapack)" \
$(petsc_enable debug debugging) \
$(petsc_enable mpi) \
$(petsc_select mpi cc mpicc $(tc-getCC)) \
@@ -154,7 +150,7 @@ src_configure() {
$(petsc_select complex-scalars scalar-type complex real) \
--with-windows-graphics=0 \
--with-matlab=0 \
- --with-cmake=true \
+ --with-cmake:BOOL=1 \
$(petsc_enable threads pthread) \
$(petsc_with afterimage afterimage \
/usr/include/libAfterImage -lAfterImage) \
diff --git a/sci-mathematics/petsc/petsc-3.11.1.ebuild
b/sci-mathematics/petsc/petsc-3.11.1.ebuild
index e6517c680..99676386d 100644
--- a/sci-mathematics/petsc/petsc-3.11.1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.11.1.ebuild
@@ -5,13 +5,11 @@ EAPI=6
PYTHON_COMPAT=( python2_7 )
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${PN}-$(replace_version_separator _ -)"
+inherit flag-o-matic fortran-2 python-any-r1 toolchain-funcs
DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
HOMEPAGE="http://www.mcs.anl.gov/petsc/";
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${P}.tar.gz";
LICENSE="BSD-2"
SLOT="0"
@@ -54,8 +52,6 @@ DEPEND="${RDEPEND}
dev-util/cmake
"
-S="${WORKDIR}/${MY_P}"
-
PATCHES=(
"${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
"${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
@@ -83,7 +79,7 @@ petsc_with() {
shift 3
myuse="${myuse} --with-${p}-lib=$@"
else
- myuse="${myuse}"
+ myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
fi
else
myuse="--with-${p}=0"
@@ -143,7 +139,7 @@ src_configure() {
--with-petsc-arch=${PETSC_ARCH} \
--with-precision=double \
--with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
+ --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas
lapack)" \
$(petsc_enable debug debugging) \
$(petsc_enable mpi) \
$(petsc_select mpi cc mpicc $(tc-getCC)) \
@@ -154,7 +150,7 @@ src_configure() {
$(petsc_select complex-scalars scalar-type complex real) \
--with-windows-graphics=0 \
--with-matlab=0 \
- --with-cmake=true \
+ --with-cmake:BOOL=1 \
$(petsc_enable threads p
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 2fffe2a798dc609fed219854bfd8a74a7470f250
Author: Matthias Maier gentoo org>
AuthorDate: Mon May 13 14:49:54 2019 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon May 13 15:02:21 2019 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=2fffe2a7
sci-mathematics/petsc: version bump to 3.11.1
Package-Manager: Portage-2.3.66, Repoman-2.3.12
Signed-off-by: Matthias Maier gentoo.org>
sci-mathematics/petsc/petsc-3.11.1.ebuild | 195 ++
1 file changed, 195 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.11.1.ebuild
b/sci-mathematics/petsc/petsc-3.11.1.ebuild
new file mode 100644
index 0..e6517c680
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.11.1.ebuild
@@ -0,0 +1,195 @@
+# Copyright 1999-2019 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="BSD-2"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ complex-scalars? ( !hypre !superlu )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi !superlu )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ superlu? ( !hypre )
+"
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ metis? ( >=sci-libs/parmetis-4 )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( >=sci-libs/superlu-5 )
+ X? ( x11-libs/libX11 )
+"
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+
+S="${WORKDIR}/${MY_P}"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
+)
+
+src_prepare() {
+ default
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+}
+# add external library:
+# petsc_with use_flag libname libdir
+# petsc_with use_flag libname include linking_libs
+petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+}
+
+# select between configure options depending on use flag
+petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+ # if mpi is built with knem support it needs /dev/knem too
+ addpredict /dev/knem
+
+ # configureMPITypes with openmpi-2* insists on accessing the scaling
+ # governor rw.
+ addpredict /sys/devices/system/cpu/
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+ strip-flags
+ filter-flags -O*
+ fi
+
+ # C Support on CXX builds is enabled if possible i.e. when not using
+ # complex scalars (no complex type for both available at the same time)
+
+ econf \
+ scrollOutput=1 \
+ FFLAGS="${FFLAGS} -fPIC" \
+ CFLAGS="${CFLAGS} -fPIC" \
+ CXXFLAGS="${CXXFLAGS} -fPIC" \
+
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: f05910d7ef4b0be4822d8ceb59ba9606edaf14b4
Author: Matthias Maier gentoo org>
AuthorDate: Sat Mar 9 05:41:08 2019 +
Commit: Matthias Maier gentoo org>
CommitDate: Sat Mar 9 06:07:10 2019 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=f05910d7
sci-mathematics/petsc: version bump to 3.10.4
Package-Manager: Portage-2.3.62, Repoman-2.3.12
Signed-off-by: Matthias Maier gentoo.org>
sci-mathematics/petsc/petsc-3.10.4.ebuild | 196 ++
1 file changed, 196 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.10.4.ebuild
b/sci-mathematics/petsc/petsc-3.10.4.ebuild
new file mode 100644
index 0..bc9a4b110
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.10.4.ebuild
@@ -0,0 +1,196 @@
+# Copyright 1999-2019 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="BSD-2"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ complex-scalars? ( !hypre !superlu )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi !superlu )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ superlu? ( !hypre )
+"
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ metis? ( >=sci-libs/parmetis-4 )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( >=sci-libs/superlu-5 )
+ X? ( x11-libs/libX11 )
+"
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+
+S="${WORKDIR}/${MY_P}"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
+)
+
+src_prepare() {
+ default
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+}
+# add external library:
+# petsc_with use_flag libname libdir
+# petsc_with use_flag libname include linking_libs
+petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+}
+
+# select between configure options depending on use flag
+petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+ # if mpi is built with knem support it needs /dev/knem too
+ addpredict /dev/knem
+
+ # configureMPITypes with openmpi-2* insists on accessing the scaling
+ # governor rw.
+ addpredict /sys/devices/system/cpu/
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+ strip-flags
+ filter-flags -O*
+ fi
+
+ # C Support on CXX builds is enabled if possible i.e. when not using
+ # complex scalars (no complex type for both available at the same time)
+
+ econf \
+ scrollOutput=1 \
+ FFLAGS="${FFLAGS} -fPIC" \
+ CFLAGS="${CFLAGS} -fPIC" \
+ CXXFLAGS="${CXXFLAGS} -fPIC" \
+
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 4e74b4feb6ee3dfcc3b6950869b21ef2c0cb1572
Author: Matthias Maier gentoo org>
AuthorDate: Mon Sep 17 15:26:19 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon Sep 17 15:26:19 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=4e74b4fe
sci-mathematics/petsc: version bump to 3.10.0
Package-Manager: Portage-2.3.49, Repoman-2.3.10
sci-mathematics/petsc/petsc-3.10.0.ebuild | 196 ++
1 file changed, 196 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.10.0.ebuild
b/sci-mathematics/petsc/petsc-3.10.0.ebuild
new file mode 100644
index 0..1755e242a
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.10.0.ebuild
@@ -0,0 +1,196 @@
+# Copyright 1999-2018 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="BSD-2"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ complex-scalars? ( !hypre !superlu )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi !superlu )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ superlu? ( !hypre )
+"
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ metis? ( >=sci-libs/parmetis-4 )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( >=sci-libs/superlu-5 )
+ X? ( x11-libs/libX11 )
+"
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+
+S="${WORKDIR}/${MY_P}"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
+)
+
+src_prepare() {
+ default
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+}
+# add external library:
+# petsc_with use_flag libname libdir
+# petsc_with use_flag libname include linking_libs
+petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+}
+
+# select between configure options depending on use flag
+petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+ # if mpi is built with knem support it needs /dev/knem too
+ addpredict /dev/knem
+
+ # configureMPITypes with openmpi-2* insists on accessing the scaling
+ # governor rw.
+ addpredict /sys/devices/system/cpu/
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+ strip-flags
+ filter-flags -O*
+ fi
+
+ # C Support on CXX builds is enabled if possible i.e. when not using
+ # complex scalars (no complex type for both available at the same time)
+
+ econf \
+ scrollOutput=1 \
+ FFLAGS="${FFLAGS} -fPIC" \
+ CFLAGS="${CFLAGS} -fPIC" \
+ CXXFLAGS="${CXXFLAGS} -fPIC" \
+ L
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: e9aa00ee0ca860b1047a9d25b83e4d2cc06269f9
Author: Matthias Maier gentoo org>
AuthorDate: Mon Sep 17 15:14:18 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon Sep 17 15:14:18 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=e9aa00ee
sci-mathematics/petsc: drop old 3.9*
Package-Manager: Portage-2.3.49, Repoman-2.3.10
sci-mathematics/petsc/petsc-3.9.2.ebuild | 196 ---
sci-mathematics/petsc/petsc-3.9.3.ebuild | 196 ---
2 files changed, 392 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.9.2.ebuild
b/sci-mathematics/petsc/petsc-3.9.2.ebuild
deleted file mode 100644
index 1755e242a..0
--- a/sci-mathematics/petsc/petsc-3.9.2.ebuild
+++ /dev/null
@@ -1,196 +0,0 @@
-# Copyright 1999-2018 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${PN}-$(replace_version_separator _ -)"
-
-DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
-HOMEPAGE="http://www.mcs.anl.gov/petsc/";
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
-
-LICENSE="BSD-2"
-SLOT="0"
-KEYWORDS="~x86 ~amd64"
-IUSE="afterimage boost complex-scalars cxx debug doc fftw
- fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
-
-# hypre and superlu curretly exclude each other due to missing linking to hypre
-# if both are enabled
-REQUIRED_USE="
- afterimage? ( X )
- complex-scalars? ( !hypre !superlu )
- hdf5? ( mpi )
- hypre? ( cxx mpi !superlu )
- mumps? ( mpi scotch )
- scotch? ( mpi )
- superlu? ( !hypre )
-"
-
-RDEPEND="
- virtual/blas
- virtual/lapack
- afterimage? ( media-libs/libafterimage )
- boost? ( dev-libs/boost )
- fftw? ( sci-libs/fftw:3.0[mpi?] )
- hdf5? ( sci-libs/hdf5[mpi?] )
- hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
- metis? ( >=sci-libs/parmetis-4 )
- mpi? ( virtual/mpi[cxx?,fortran?] )
- mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
- scotch? ( sci-libs/scotch[mpi?] )
- sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
- superlu? ( >=sci-libs/superlu-5 )
- X? ( x11-libs/libX11 )
-"
-
-DEPEND="${RDEPEND}
- ${PYTHON_DEPS}
- virtual/pkgconfig
- dev-util/cmake
-"
-
-S="${WORKDIR}/${MY_P}"
-
-PATCHES=(
- "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
- "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
-)
-
-src_prepare() {
- default
-
- sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
-}
-
-# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
-petsc_enable() {
- use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
-}
-# add external library:
-# petsc_with use_flag libname libdir
-# petsc_with use_flag libname include linking_libs
-petsc_with() {
- local myuse p=${2:-${1}}
- if use ${1}; then
- myuse="--with-${p}=1"
- if [[ $# -ge 4 ]]; then
- myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
- shift 3
- myuse="${myuse} --with-${p}-lib=$@"
- else
- myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
- fi
- else
- myuse="--with-${p}=0"
- fi
- echo ${myuse}
-}
-
-# select between configure options depending on use flag
-petsc_select() {
- use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
-}
-
-src_configure() {
- # bug 548498
- # PETSc runs mpi processes during configure that result in a sandbox
- # violation by trying to open /proc/mtrr rw. This is not easy to
- # mitigate because it happens in libpciaccess.so called by libhwloc.so,
- # which is used by libmpi.so.
- addpredict /proc/mtrr
- # if mpi is built with knem support it needs /dev/knem too
- addpredict /dev/knem
-
- # configureMPITypes with openmpi-2* insists on accessing the scaling
- # governor rw.
- addpredict /sys/devices/system/cpu/
-
- local mylang
- local myopt
-
- use cxx && mylang="cxx" || mylang="c"
- use debug && myopt="debug" || myopt="opt"
-
- # environmental variables expected by petsc during build
-
- export PETSC_DIR="${S}"
- export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
-
- if use debug; then
- strip-flags
- filter-flags -O*
- fi
-
- # C Support on CXX builds is enabled if possible i.e. when not using
- # complex scalars (no complex type for both available at the same time)
-
- econf \
- scrollOutput=1 \
- FFLAGS="${FFLAGS} -fPIC" \
- CFLAGS="${CFLAGS} -
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: ee52cea13773352cc13756c29cd0703acf61996d
Author: Matthias Maier gentoo org>
AuthorDate: Mon Sep 17 15:13:55 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon Sep 17 15:13:55 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=ee52cea1
sci-mathematics/petsc: version bump to 3.9.4
Package-Manager: Portage-2.3.49, Repoman-2.3.10
sci-mathematics/petsc/petsc-3.9.4.ebuild | 196 +++
1 file changed, 196 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.9.4.ebuild
b/sci-mathematics/petsc/petsc-3.9.4.ebuild
new file mode 100644
index 0..1755e242a
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.9.4.ebuild
@@ -0,0 +1,196 @@
+# Copyright 1999-2018 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="BSD-2"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ complex-scalars? ( !hypre !superlu )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi !superlu )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ superlu? ( !hypre )
+"
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ metis? ( >=sci-libs/parmetis-4 )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( >=sci-libs/superlu-5 )
+ X? ( x11-libs/libX11 )
+"
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+
+S="${WORKDIR}/${MY_P}"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
+)
+
+src_prepare() {
+ default
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+}
+# add external library:
+# petsc_with use_flag libname libdir
+# petsc_with use_flag libname include linking_libs
+petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+}
+
+# select between configure options depending on use flag
+petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+ # if mpi is built with knem support it needs /dev/knem too
+ addpredict /dev/knem
+
+ # configureMPITypes with openmpi-2* insists on accessing the scaling
+ # governor rw.
+ addpredict /sys/devices/system/cpu/
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+ strip-flags
+ filter-flags -O*
+ fi
+
+ # C Support on CXX builds is enabled if possible i.e. when not using
+ # complex scalars (no complex type for both available at the same time)
+
+ econf \
+ scrollOutput=1 \
+ FFLAGS="${FFLAGS} -fPIC" \
+ CFLAGS="${CFLAGS} -fPIC" \
+ CXXFLAGS="${CXXFLAGS} -fPIC" \
+ LDFLA
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
commit: 7942c05fe297d82b7f4a1e81282aaa9b3bfb406a Author: Matthias Maier gentoo org> AuthorDate: Fri Aug 31 03:25:26 2018 + Commit: Matthias Maier gentoo org> CommitDate: Fri Aug 31 03:25:26 2018 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=7942c05f sci-mathematics/petsc: remove obsolete patches Package-Manager: Portage-2.3.48, Repoman-2.3.10 .../petsc/files/petsc-3.5.3-disable-rpath.patch| 18 -- .../petsc/files/petsc-3.6.0-disable-rpath.patch| 17 -- .../files/petsc-3.6.0-fix_sandbox_violation.patch | 15 -- .../files/petsc-3.7.0-fix_sandbox_violation.patch | 17 -- sci-mathematics/petsc/petsc-3.7.7-r1.ebuild| 205 - 5 files changed, 272 deletions(-) diff --git a/sci-mathematics/petsc/files/petsc-3.5.3-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.5.3-disable-rpath.patch deleted file mode 100644 index 7fe3760c9..0 --- a/sci-mathematics/petsc/files/petsc-3.5.3-disable-rpath.patch +++ /dev/null @@ -1,18 +0,0 @@ -diff --git a/config/BuildSystem/config/setCompilers.py b/config/BuildSystem/config/setCompilers.py -index 8e0d2ee..ce53ad0 100644 a/config/BuildSystem/config/setCompilers.py -+++ b/config/BuildSystem/config/setCompilers.py -@@ -1326,12 +1326,7 @@ class Configure(config.base.Configure): - for language in languages: - flag = '-L' - self.pushLanguage(language) -- # test '-R' before '-rpath' as sun compilers [c,fortran] don't give proper errors with wrong options. -- if not Configure.isDarwin(): --testFlags = ['-Wl,-rpath,', '-R','-rpath ' , '-Wl,-R,'] -- else: --testFlags = [] -- # test '-R' before '-Wl,-rpath' for SUN compilers [as cc on linux accepts -Wl,-rpath, but f90 & CC do not. -+ testFlags = [] - if self.isSun(self.framework.getCompiler()): - testFlags.insert(0,'-R') - for testFlag in testFlags: diff --git a/sci-mathematics/petsc/files/petsc-3.6.0-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.6.0-disable-rpath.patch deleted file mode 100644 index 88a7db565..0 --- a/sci-mathematics/petsc/files/petsc-3.6.0-disable-rpath.patch +++ /dev/null @@ -1,17 +0,0 @@ -diff --git a/config/BuildSystem/config/setCompilers.py b/config/BuildSystem/config/setCompilers.py a/config/BuildSystem/config/setCompilers.py -+++ b/config/BuildSystem/config/setCompilers.py -@@ -1326,12 +1326,7 @@ class Configure(config.base.Configure): - for language in languages: - flag = '-L' - self.pushLanguage(language) -- # test '-R' before '-rpath' as sun compilers [c,fortran] don't give proper errors with wrong options. -- if not Configure.isDarwin(): --testFlags = ['-Wl,-rpath,', '-R','-rpath ' , '-Wl,-R,'] -- else: --testFlags = ['-Wl,-rpath,'] -- # test '-R' before '-Wl,-rpath' for SUN compilers [as cc on linux accepts -Wl,-rpath, but f90 & CC do not. -+ testFlags = [] - if self.isSun(self.framework.getCompiler()): - testFlags.insert(0,'-R') - for testFlag in testFlags: diff --git a/sci-mathematics/petsc/files/petsc-3.6.0-fix_sandbox_violation.patch b/sci-mathematics/petsc/files/petsc-3.6.0-fix_sandbox_violation.patch deleted file mode 100644 index 7510631a1..0 --- a/sci-mathematics/petsc/files/petsc-3.6.0-fix_sandbox_violation.patch +++ /dev/null @@ -1,15 +0,0 @@ config/PETSc/options/installDir.py.orig2015-06-23 18:11:25.054911894 +0200 -+++ config/PETSc/options/installDir.py 2015-06-23 18:11:44.100289841 +0200 -@@ -38,12 +38,6 @@ - self.installSudoMessage = '' - if self.framework.argDB['prefix']: - self.dir = self.framework.argDB['prefix'] -- try: --os.makedirs(os.path.join(self.dir,'PETScTestDirectory')) --os.rmdir(os.path.join(self.dir,'PETScTestDirectory')) -- except: --self.installSudoMessage = 'You do not have write permissions to the --prefix directory '+self.dir+'\nYou will be prompted for the sudo password for any external package installs' --self.installSudo = 'sudo ' - else: - self.dir = os.path.abspath(os.path.join(self.petscdir.dir, self.arch.arch)) - self.confDir = os.path.abspath(os.path.join(self.petscdir.dir, self.arch.arch)) diff --git a/sci-mathematics/petsc/files/petsc-3.7.0-fix_sandbox_violation.patch b/sci-mathematics/petsc/files/petsc-3.7.0-fix_sandbox_violation.patch deleted file mode 100644 index 191ca18c4..0 --- a/sci-mathematics/petsc/files/petsc-3.7.0-fix_sandbox_violation.patch +++ /dev/null @@ -1,17 +0,0 @@ -diff --git a/config/PETSc/options/installDir.py b/config/PETSc/options/installDir.py -index 0e2567c..bf782b5 100644 a/config/PETSc/options/installDir.py -+++ b/config/PETSc/options/installDir.py -@@ -38,12 +38,6 @@ class Configure(config.base.Configure): - self.installSudoMessage = '' - if self.framework.argDB['prefix']: - self.dir = os.path.abspath(os.path.expanduser(self
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: aee6b7af41bd5cf104e923ec8dd68db883bcdb80
Author: Matthias Maier gentoo org>
AuthorDate: Fri Aug 31 03:27:16 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Fri Aug 31 03:27:16 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=aee6b7af
sci-mathematics/petsc: version bump to 3.9.3
Package-Manager: Portage-2.3.48, Repoman-2.3.10
sci-mathematics/petsc/petsc-3.9.3.ebuild | 196 +++
1 file changed, 196 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.9.3.ebuild
b/sci-mathematics/petsc/petsc-3.9.3.ebuild
new file mode 100644
index 0..1755e242a
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.9.3.ebuild
@@ -0,0 +1,196 @@
+# Copyright 1999-2018 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="BSD-2"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ complex-scalars? ( !hypre !superlu )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi !superlu )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ superlu? ( !hypre )
+"
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ metis? ( >=sci-libs/parmetis-4 )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( >=sci-libs/superlu-5 )
+ X? ( x11-libs/libX11 )
+"
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+
+S="${WORKDIR}/${MY_P}"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
+)
+
+src_prepare() {
+ default
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+}
+# add external library:
+# petsc_with use_flag libname libdir
+# petsc_with use_flag libname include linking_libs
+petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+}
+
+# select between configure options depending on use flag
+petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+ # if mpi is built with knem support it needs /dev/knem too
+ addpredict /dev/knem
+
+ # configureMPITypes with openmpi-2* insists on accessing the scaling
+ # governor rw.
+ addpredict /sys/devices/system/cpu/
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+ strip-flags
+ filter-flags -O*
+ fi
+
+ # C Support on CXX builds is enabled if possible i.e. when not using
+ # complex scalars (no complex type for both available at the same time)
+
+ econf \
+ scrollOutput=1 \
+ FFLAGS="${FFLAGS} -fPIC" \
+ CFLAGS="${CFLAGS} -fPIC" \
+ CXXFLAGS="${CXXFLAGS} -fPIC" \
+ LDFLA
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: df3b9cb9a21f4e45de635f25cfec8b7c0ee42e74
Author: Matthias Maier gentoo org>
AuthorDate: Fri Aug 31 03:24:28 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Fri Aug 31 03:24:28 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=df3b9cb9
sci-mathematics/petsc: drop old
Package-Manager: Portage-2.3.48, Repoman-2.3.10
sci-mathematics/petsc/petsc-3.9.0-r1.ebuild | 196
1 file changed, 196 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.9.0-r1.ebuild
b/sci-mathematics/petsc/petsc-3.9.0-r1.ebuild
deleted file mode 100644
index 1755e242a..0
--- a/sci-mathematics/petsc/petsc-3.9.0-r1.ebuild
+++ /dev/null
@@ -1,196 +0,0 @@
-# Copyright 1999-2018 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${PN}-$(replace_version_separator _ -)"
-
-DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
-HOMEPAGE="http://www.mcs.anl.gov/petsc/";
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
-
-LICENSE="BSD-2"
-SLOT="0"
-KEYWORDS="~x86 ~amd64"
-IUSE="afterimage boost complex-scalars cxx debug doc fftw
- fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
-
-# hypre and superlu curretly exclude each other due to missing linking to hypre
-# if both are enabled
-REQUIRED_USE="
- afterimage? ( X )
- complex-scalars? ( !hypre !superlu )
- hdf5? ( mpi )
- hypre? ( cxx mpi !superlu )
- mumps? ( mpi scotch )
- scotch? ( mpi )
- superlu? ( !hypre )
-"
-
-RDEPEND="
- virtual/blas
- virtual/lapack
- afterimage? ( media-libs/libafterimage )
- boost? ( dev-libs/boost )
- fftw? ( sci-libs/fftw:3.0[mpi?] )
- hdf5? ( sci-libs/hdf5[mpi?] )
- hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
- metis? ( >=sci-libs/parmetis-4 )
- mpi? ( virtual/mpi[cxx?,fortran?] )
- mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
- scotch? ( sci-libs/scotch[mpi?] )
- sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
- superlu? ( >=sci-libs/superlu-5 )
- X? ( x11-libs/libX11 )
-"
-
-DEPEND="${RDEPEND}
- ${PYTHON_DEPS}
- virtual/pkgconfig
- dev-util/cmake
-"
-
-S="${WORKDIR}/${MY_P}"
-
-PATCHES=(
- "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
- "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
-)
-
-src_prepare() {
- default
-
- sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
-}
-
-# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
-petsc_enable() {
- use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
-}
-# add external library:
-# petsc_with use_flag libname libdir
-# petsc_with use_flag libname include linking_libs
-petsc_with() {
- local myuse p=${2:-${1}}
- if use ${1}; then
- myuse="--with-${p}=1"
- if [[ $# -ge 4 ]]; then
- myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
- shift 3
- myuse="${myuse} --with-${p}-lib=$@"
- else
- myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
- fi
- else
- myuse="--with-${p}=0"
- fi
- echo ${myuse}
-}
-
-# select between configure options depending on use flag
-petsc_select() {
- use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
-}
-
-src_configure() {
- # bug 548498
- # PETSc runs mpi processes during configure that result in a sandbox
- # violation by trying to open /proc/mtrr rw. This is not easy to
- # mitigate because it happens in libpciaccess.so called by libhwloc.so,
- # which is used by libmpi.so.
- addpredict /proc/mtrr
- # if mpi is built with knem support it needs /dev/knem too
- addpredict /dev/knem
-
- # configureMPITypes with openmpi-2* insists on accessing the scaling
- # governor rw.
- addpredict /sys/devices/system/cpu/
-
- local mylang
- local myopt
-
- use cxx && mylang="cxx" || mylang="c"
- use debug && myopt="debug" || myopt="opt"
-
- # environmental variables expected by petsc during build
-
- export PETSC_DIR="${S}"
- export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
-
- if use debug; then
- strip-flags
- filter-flags -O*
- fi
-
- # C Support on CXX builds is enabled if possible i.e. when not using
- # complex scalars (no complex type for both available at the same time)
-
- econf \
- scrollOutput=1 \
- FFLAGS="${FFLAGS} -fPIC" \
- CFLAGS="${CFLAGS} -fPIC" \
- CXXFLAGS="${CXXFLAGS} -fPIC" \
- LDFLAG
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 3769248d3d8e5d30c3ef5352d244f13459b6add7
Author: Matthias Maier gentoo org>
AuthorDate: Thu May 24 01:08:24 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Thu May 24 01:20:13 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=3769248d
sci-mathematics/petsc: version bump to 3.9.2
Package-Manager: Portage-2.3.38, Repoman-2.3.9
sci-mathematics/petsc/petsc-3.9.2.ebuild | 196 +++
1 file changed, 196 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.9.2.ebuild
b/sci-mathematics/petsc/petsc-3.9.2.ebuild
new file mode 100644
index 0..1755e242a
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.9.2.ebuild
@@ -0,0 +1,196 @@
+# Copyright 1999-2018 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="BSD-2"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ complex-scalars? ( !hypre !superlu )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi !superlu )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ superlu? ( !hypre )
+"
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ metis? ( >=sci-libs/parmetis-4 )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( >=sci-libs/superlu-5 )
+ X? ( x11-libs/libX11 )
+"
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+
+S="${WORKDIR}/${MY_P}"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
+)
+
+src_prepare() {
+ default
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+}
+# add external library:
+# petsc_with use_flag libname libdir
+# petsc_with use_flag libname include linking_libs
+petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+}
+
+# select between configure options depending on use flag
+petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+ # if mpi is built with knem support it needs /dev/knem too
+ addpredict /dev/knem
+
+ # configureMPITypes with openmpi-2* insists on accessing the scaling
+ # governor rw.
+ addpredict /sys/devices/system/cpu/
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+ strip-flags
+ filter-flags -O*
+ fi
+
+ # C Support on CXX builds is enabled if possible i.e. when not using
+ # complex scalars (no complex type for both available at the same time)
+
+ econf \
+ scrollOutput=1 \
+ FFLAGS="${FFLAGS} -fPIC" \
+ CFLAGS="${CFLAGS} -fPIC" \
+ CXXFLAGS="${CXXFLAGS} -fPIC" \
+ LDFLAG
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 2c7b47b7e6de8a6c1fc57e2c947d13a52a0782a2
Author: Matthias Maier gentoo org>
AuthorDate: Mon Apr 23 14:37:44 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon Apr 23 14:37:44 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=2c7b47b7
sci-mathematics/petsc: avoid double prefix
Package-Manager: Portage-2.3.31, Repoman-2.3.9
sci-mathematics/petsc/{petsc-3.9.0.ebuild => petsc-3.9.0-r1.ebuild} | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-mathematics/petsc/petsc-3.9.0.ebuild
b/sci-mathematics/petsc/petsc-3.9.0-r1.ebuild
similarity index 99%
rename from sci-mathematics/petsc/petsc-3.9.0.ebuild
rename to sci-mathematics/petsc/petsc-3.9.0-r1.ebuild
index e2f57c04f..1755e242a 100644
--- a/sci-mathematics/petsc/petsc-3.9.0.ebuild
+++ b/sci-mathematics/petsc/petsc-3.9.0-r1.ebuild
@@ -181,7 +181,7 @@ src_configure() {
}
src_install() {
- emake DESTDIR="${D}/usr/$(get_libdir)/petsc" install
+ emake DESTDIR="${ED}" install
# add PETSC_DIR to environmental variables
cat >> 99petsc <<- EOF
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 0ee1bc73eba5a795a6ec837691cce3d19fe6962f
Author: Matthias Maier gentoo org>
AuthorDate: Mon Apr 23 01:54:52 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon Apr 23 01:54:52 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=0ee1bc73
sci-mathematics/petsc: remove upstream workaround for -j1 in 3.9.0
Apparently this is not needed anymore. *hooray*
Package-Manager: Portage-2.3.31, Repoman-2.3.9
sci-mathematics/petsc/petsc-3.9.0.ebuild | 9 -
1 file changed, 9 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.9.0.ebuild
b/sci-mathematics/petsc/petsc-3.9.0.ebuild
index 37def4450..e2f57c04f 100644
--- a/sci-mathematics/petsc/petsc-3.9.0.ebuild
+++ b/sci-mathematics/petsc/petsc-3.9.0.ebuild
@@ -54,15 +54,6 @@ DEPEND="${RDEPEND}
dev-util/cmake
"
-#
-# PETSc does not want its Makefiles to be invoked with anything higher than
-# -j1. The underlying build system does automatically invoke a parallel
-# build. This might not be what you want, but *hey* not your choice.
-#
-# V=1 enables verbose output with full compiler and linker invocation
-#
-MAKEOPTS="${MAKEOPTS} -j1 V=1"
-
S="${WORKDIR}/${MY_P}"
PATCHES=(
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
commit: 5cef376ca642f43faa2462e0553b0d6e0384de9e
Author: Matthias Maier gentoo org>
AuthorDate: Mon Apr 23 00:30:26 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon Apr 23 00:30:26 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=5cef376c
sci-mathematics/petsc: vesrion bump to 3.9.0
Package-Manager: Portage-2.3.31, Repoman-2.3.9
.../files/petsc-3.9.0-fix_sandbox_violation.patch | 17 ++
sci-mathematics/petsc/petsc-3.9.0.ebuild | 205 +
2 files changed, 222 insertions(+)
diff --git
a/sci-mathematics/petsc/files/petsc-3.9.0-fix_sandbox_violation.patch
b/sci-mathematics/petsc/files/petsc-3.9.0-fix_sandbox_violation.patch
new file mode 100644
index 0..97f8dfed4
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.9.0-fix_sandbox_violation.patch
@@ -0,0 +1,17 @@
+diff --git a/config/PETSc/options/installDir.py
b/config/PETSc/options/installDir.py
+index 92f190d..047c85b 100644
+--- a/config/PETSc/options/installDir.py
b/config/PETSc/options/installDir.py
+@@ -41,12 +41,6 @@ class Configure(config.base.Configure):
+ self.dir =
os.path.abspath(os.path.expanduser(self.framework.argDB['prefix']))
+ self.petscDir = self.dir
+ self.petscArch = ''
+- try:
+-os.makedirs(os.path.join(self.dir,'PETScTestDirectory'))
+-os.rmdir(os.path.join(self.dir,'PETScTestDirectory'))
+- except:
+-self.installSudoMessage = 'You do not have write permissions to the
--prefix directory '+self.dir+'\nYou will be prompted for the sudo password for
any external package installs'
+-self.installSudo = 'sudo '
+ else:
+ self.dir = os.path.abspath(os.path.join(self.petscdir.dir,
self.arch.arch))
+ self.petscDir = self.petscdir.dir
diff --git a/sci-mathematics/petsc/petsc-3.9.0.ebuild
b/sci-mathematics/petsc/petsc-3.9.0.ebuild
new file mode 100644
index 0..37def4450
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.9.0.ebuild
@@ -0,0 +1,205 @@
+# Copyright 1999-2018 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="BSD-2"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ complex-scalars? ( !hypre !superlu )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi !superlu )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ superlu? ( !hypre )
+"
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ metis? ( >=sci-libs/parmetis-4 )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( >=sci-libs/superlu-5 )
+ X? ( x11-libs/libX11 )
+"
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+
+#
+# PETSc does not want its Makefiles to be invoked with anything higher than
+# -j1. The underlying build system does automatically invoke a parallel
+# build. This might not be what you want, but *hey* not your choice.
+#
+# V=1 enables verbose output with full compiler and linker invocation
+#
+MAKEOPTS="${MAKEOPTS} -j1 V=1"
+
+S="${WORKDIR}/${MY_P}"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.9.0-fix_sandbox_violation.patch
+)
+
+src_prepare() {
+ default
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+}
+# add external library:
+# petsc_with use_flag libname libdir
+# petsc_with use_flag libname include linking_libs
+petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${m
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 2dee653ff1d3c49dc699bbfa6bd775b15d247dcf
Author: Matthias Maier gentoo org>
AuthorDate: Thu Mar 29 22:09:26 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Thu Mar 29 22:09:26 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=2dee653f
sci-mathematics/petsc: version bump to 3.8.4
Package-Manager: Portage-2.3.26, Repoman-2.3.7
sci-mathematics/petsc/{petsc-3.8.3-r1.ebuild => petsc-3.8.4.ebuild} | 0
1 file changed, 0 insertions(+), 0 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.8.3-r1.ebuild
b/sci-mathematics/petsc/petsc-3.8.4.ebuild
similarity index 100%
rename from sci-mathematics/petsc/petsc-3.8.3-r1.ebuild
rename to sci-mathematics/petsc/petsc-3.8.4.ebuild
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 4590faa4d554a9c522212cc005449082adcc413b
Author: Matthias Maier gentoo org>
AuthorDate: Mon Mar 19 03:48:48 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon Mar 19 03:48:48 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=4590faa4
sci-mathematics/petsc: fix dependencies, drop old
Package-Manager: Portage-2.3.24, Repoman-2.3.6
sci-mathematics/petsc/petsc-3.5.4.ebuild | 243
sci-mathematics/petsc/petsc-3.6.4.ebuild | 251 -
.../{petsc-3.7.7.ebuild => petsc-3.7.7-r1.ebuild} | 5 +-
.../{petsc-3.8.3.ebuild => petsc-3.8.3-r1.ebuild} | 5 +-
4 files changed, 6 insertions(+), 498 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.5.4.ebuild
b/sci-mathematics/petsc/petsc-3.5.4.ebuild
deleted file mode 100644
index c70fcf2cb..0
--- a/sci-mathematics/petsc/petsc-3.5.4.ebuild
+++ /dev/null
@@ -1,243 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${PN}-$(replace_version_separator _ -)"
-
-DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
-HOMEPAGE="http://www.mcs.anl.gov/petsc/";
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
-
-LICENSE="BSD-2"
-SLOT="0"
-KEYWORDS="~x86 ~amd64"
-IUSE="afterimage boost complex-scalars cxx debug doc fftw
- fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
-# Failed: imagemagick metis
-
-# hypre and superlu curretly exclude each other due to missing linking to hypre
-# if both are enabled
-REQUIRED_USE="
- afterimage? ( X )
- hdf5? ( mpi )
- hypre? ( cxx mpi )
- mumps? ( mpi scotch )
- scotch? ( mpi )
- ^^ ( hypre superlu )
-"
-# imagemagick? ( X )
-
-RDEPEND="
- virtual/blas
- virtual/lapack
- afterimage? ( media-libs/libafterimage )
- boost? ( dev-libs/boost )
- fftw? ( sci-libs/fftw:3.0[mpi?] )
- hdf5? ( sci-libs/hdf5[mpi?] )
- hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
- mpi? ( virtual/mpi[cxx?,fortran?] )
- mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
- scotch? ( sci-libs/scotch[mpi?] )
- sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
- superlu? ( sci-libs/superlu )
- X? ( x11-libs/libX11 )
-"
-# metis? ( sci-libs/parmetis )
-# imagemagick? ( media-gfx/imagemagick )
-
-DEPEND="${RDEPEND}
- ${PYTHON_DEPS}
- virtual/pkgconfig
- dev-util/cmake
-"
-# cmake is used for parallel building
-# in some configuration setups, legacy build is used (slow)
-
-#
-# PETSc does not want its Makefiles to be invoked with anything higher than
-# -j1. The underlying build system does automatically invoke a parallel
-# build. This might not be what you want, but *hey* not your choice.
-#
-MAKEOPTS="${MAKEOPTS} -j1"
-
-S="${WORKDIR}/${MY_P}"
-
-src_prepare() {
- epatch "${FILESDIR}"/${PN}-3.5.3-disable-rpath.patch
- sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
-}
-
-src_configure() {
- # bug 548498
- # PETSc runs mpi processes during configure that result in a sandbox
- # violation by trying to open /proc/mtrr rw. This is not easy to
- # mitigate because it happens in libpciaccess.so called by libhwloc.so,
- # which is used by libmpi.so.
- addpredict /proc/mtrr
-
- # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
- petsc_enable() {
- use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
- }
- # add external library:
- # petsc_with use_flag libname libdir
- # petsc_with use_flag libname include linking_libs
- petsc_with() {
- local myuse p=${2:-${1}}
- if use ${1}; then
- myuse="--with-${p}=1"
- if [[ $# -ge 4 ]]; then
- myuse="${myuse}
--with-${p}-include=${EPREFIX}${3}"
- shift 3
- myuse="${myuse} --with-${p}-lib=$@"
- else
- myuse="${myuse}
--with-${p}-dir=${EPREFIX}${3:-/usr}"
- fi
- else
- myuse="--with-${p}=0"
- fi
- echo ${myuse}
- }
-
- # select between configure options depending on use flag
- petsc_select() {
- use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
- }
-
- local mylang
- local myopt
-
- use cxx && mylang="cxx" || mylang="c"
- use debug && myopt="debug" || myopt="opt"
-
- # environmental variables expected by petsc during build
- export PETSC_DIR="${S}"
- export PETSC_ARCH="linux
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/, sci-mathematics/petsc/files/
commit: df1d306bdeb962a086a64749ee1ad9eb84152752
Author: Matthias Maier gentoo org>
AuthorDate: Mon Mar 19 03:25:55 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon Mar 19 03:25:55 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=df1d306b
sci-mathematics/petsc: version bump to 3.8.3
Package-Manager: Portage-2.3.24, Repoman-2.3.6
.../files/petsc-3.8.3-fix_sandbox_violation.patch | 17 ++
sci-mathematics/petsc/petsc-3.8.3.ebuild | 204 +
2 files changed, 221 insertions(+)
diff --git
a/sci-mathematics/petsc/files/petsc-3.8.3-fix_sandbox_violation.patch
b/sci-mathematics/petsc/files/petsc-3.8.3-fix_sandbox_violation.patch
new file mode 100644
index 0..4f51aee81
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.8.3-fix_sandbox_violation.patch
@@ -0,0 +1,17 @@
+diff --git a/config/PETSc/options/installDir.py
b/config/PETSc/options/installDir.py
+index 975dc8a..c216941 100644
+--- a/config/PETSc/options/installDir.py
b/config/PETSc/options/installDir.py
+@@ -39,12 +39,6 @@ class Configure(config.base.Configure):
+ if self.framework.argDB['prefix']:
+ self.dir =
os.path.abspath(os.path.expanduser(self.framework.argDB['prefix']))
+ self.addMakeMacro('PREFIXDIR',self.dir)
+- try:
+-os.makedirs(os.path.join(self.dir,'PETScTestDirectory'))
+-os.rmdir(os.path.join(self.dir,'PETScTestDirectory'))
+- except:
+-self.installSudoMessage = 'You do not have write permissions to the
--prefix directory '+self.dir+'\nYou will be prompted for the sudo password for
any external package installs'
+-self.installSudo = 'sudo '
+ else:
+ self.dir = os.path.abspath(os.path.join(self.petscdir.dir,
self.arch.arch))
+ self.confDir = os.path.abspath(os.path.join(self.petscdir.dir,
self.arch.arch))
diff --git a/sci-mathematics/petsc/petsc-3.8.3.ebuild
b/sci-mathematics/petsc/petsc-3.8.3.ebuild
new file mode 100644
index 0..33ec0bd93
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.8.3.ebuild
@@ -0,0 +1,204 @@
+# Copyright 1999-2018 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="BSD-2"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi metis mumps scotch sparse superlu threads X"
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ metis? ( >=sci-libs/parmetis-4 )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( >=sci-libs/superlu-5 )
+ X? ( x11-libs/libX11 )
+"
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+
+#
+# PETSc does not want its Makefiles to be invoked with anything higher than
+# -j1. The underlying build system does automatically invoke a parallel
+# build. This might not be what you want, but *hey* not your choice.
+#
+# V=1 enables verbose output with full compiler and linker invocation
+#
+MAKEOPTS="${MAKEOPTS} -j1 V=1"
+
+S="${WORKDIR}/${MY_P}"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.8.3-fix_sandbox_violation.patch
+)
+
+src_prepare() {
+ default
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+}
+# add external library:
+# petsc_with use_flag libname libdir
+# petsc_with use_flag libname include linking_libs
+petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 70aa1dbe7740a0b5d68c0b274c6f98b4c95eb6ec
Author: Matthias Maier gentoo org>
AuthorDate: Mon Mar 19 03:26:56 2018 +
Commit: Matthias Maier gentoo org>
CommitDate: Mon Mar 19 03:26:56 2018 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=70aa1dbe
sci-mathematics/petsc: update 3.7.* to 3.7.7
Package-Manager: Portage-2.3.24, Repoman-2.3.6
sci-mathematics/petsc/{petsc-3.7.6.ebuild => petsc-3.7.7.ebuild} | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-mathematics/petsc/petsc-3.7.6.ebuild
b/sci-mathematics/petsc/petsc-3.7.7.ebuild
similarity index 99%
rename from sci-mathematics/petsc/petsc-3.7.6.ebuild
rename to sci-mathematics/petsc/petsc-3.7.7.ebuild
index 37c89710d..4d8a2953f 100644
--- a/sci-mathematics/petsc/petsc-3.7.6.ebuild
+++ b/sci-mathematics/petsc/petsc-3.7.7.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2018 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=6
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 259e26e9a8fcb27f9ecd4a026b1edbdb00cd29c1
Author: Andrew Savchenko gentoo org>
AuthorDate: Tue Oct 3 12:57:03 2017 +
Commit: Andrew Savchenko gentoo org>
CommitDate: Tue Oct 3 12:57:03 2017 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=259e26e9
sci-mathematics/petsc: fix build on knem setups
If host MPI is configured to use knem, petsc needs to access /dev/knem as well.
Package-Manager: Portage-2.3.8, Repoman-2.3.3
Signed-off-by: Andrew Savchenko gentoo.org>
sci-mathematics/petsc/petsc-3.7.6.ebuild | 2 ++
1 file changed, 2 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.7.6.ebuild
b/sci-mathematics/petsc/petsc-3.7.6.ebuild
index c9c04f3e1..37c89710d 100644
--- a/sci-mathematics/petsc/petsc-3.7.6.ebuild
+++ b/sci-mathematics/petsc/petsc-3.7.6.ebuild
@@ -111,6 +111,8 @@ src_configure() {
# mitigate because it happens in libpciaccess.so called by libhwloc.so,
# which is used by libmpi.so.
addpredict /proc/mtrr
+ # if mpi is built with knem support it needs /dev/knem too
+ addpredict /dev/knem
# configureMPITypes with openmpi-2* insists on accessing the scaling
# governor rw.
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 8cb375f4224fad6ee34b57d8e8ed39147de41b6c Author: Andrew Savchenko gentoo org> AuthorDate: Tue Oct 3 12:54:04 2017 + Commit: Andrew Savchenko gentoo org> CommitDate: Tue Oct 3 12:54:04 2017 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=8cb375f4 sci-mathematics/petsc: fix superlu version requirement >=sci-libs/superlu-5 is required, see https://lists.debian.org/debian-science/2016/05/msg00059.html This also happens at our local Gentoo HPC setup. Package-Manager: Portage-2.3.8, Repoman-2.3.3 Signed-off-by: Andrew Savchenko gentoo.org> sci-mathematics/petsc/petsc-3.7.6.ebuild | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/sci-mathematics/petsc/petsc-3.7.6.ebuild b/sci-mathematics/petsc/petsc-3.7.6.ebuild index 784371ed3..c9c04f3e1 100644 --- a/sci-mathematics/petsc/petsc-3.7.6.ebuild +++ b/sci-mathematics/petsc/petsc-3.7.6.ebuild @@ -43,7 +43,7 @@ RDEPEND=" mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack ) scotch? ( sci-libs/scotch[mpi?] ) sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 ) - superlu? ( sci-libs/superlu ) + superlu? ( >=sci-libs/superlu-5 ) X? ( x11-libs/libX11 ) "
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 73918b00c7bd72a5d20661b55d81b3493b5fa139
Author: Matthias Maier gentoo org>
AuthorDate: Fri Jan 6 20:12:46 2017 +
Commit: Marius Brehler linux sungazer de>
CommitDate: Fri Jan 6 20:12:46 2017 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=73918b00
sci-mathematics/petsc: version bump to 3.7.5
Package-Manager: Portage-2.3.0, Repoman-2.3.1
sci-mathematics/petsc/{petsc-3.7.4.ebuild => petsc-3.7.5.ebuild} | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-mathematics/petsc/petsc-3.7.4.ebuild
b/sci-mathematics/petsc/petsc-3.7.5.ebuild
similarity index 99%
rename from sci-mathematics/petsc/petsc-3.7.4.ebuild
rename to sci-mathematics/petsc/petsc-3.7.5.ebuild
index ae26a85..8889ba8 100644
--- a/sci-mathematics/petsc/petsc-3.7.4.ebuild
+++ b/sci-mathematics/petsc/petsc-3.7.5.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2016 Gentoo Foundation
+# Copyright 1999-2017 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: aba912dd378338609d10389c6f8f021f60828fc3
Author: Matthias Maier gentoo org>
AuthorDate: Thu Nov 24 03:47:11 2016 +
Commit: Marius Brehler linux sungazer de>
CommitDate: Thu Nov 24 03:47:11 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=aba912dd
sci-mathematics/petsc: version bump to 3.7.4
Package-Manager: portage-2.3.0
sci-mathematics/petsc/{petsc-3.7.3.ebuild => petsc-3.7.4.ebuild} | 4
1 file changed, 4 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.7.3.ebuild
b/sci-mathematics/petsc/petsc-3.7.4.ebuild
similarity index 98%
rename from sci-mathematics/petsc/petsc-3.7.3.ebuild
rename to sci-mathematics/petsc/petsc-3.7.4.ebuild
index 357189f..ae26a85 100644
--- a/sci-mathematics/petsc/petsc-3.7.3.ebuild
+++ b/sci-mathematics/petsc/petsc-3.7.4.ebuild
@@ -86,6 +86,10 @@ src_configure() {
# which is used by libmpi.so.
addpredict /proc/mtrr
+ # configureMPITypes with openmpi-2* insists on accessing the scaling
+ # governor rw.
+ addpredict /sys/devices/system/cpu/
+
# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
petsc_enable() {
use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 7d46fb1d005394c121a9fab2585d50b13660e74e
Author: Matthias Maier gentoo org>
AuthorDate: Tue Aug 30 00:52:06 2016 +
Commit: Marius Brehler linux sungazer de>
CommitDate: Tue Aug 30 00:52:29 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=7d46fb1d
sci-mathematics/petsc: version bump to 3.7.3
Package-Manager: portage-2.2.28
sci-mathematics/petsc/petsc-3.7.3.ebuild | 255 +++
1 file changed, 255 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.7.3.ebuild
b/sci-mathematics/petsc/petsc-3.7.3.ebuild
new file mode 100644
index 000..357189f
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.7.3.ebuild
@@ -0,0 +1,255 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
+# Failed: imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# metis? ( sci-libs/parmetis )
+# imagemagick? ( media-gfx/imagemagick )
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+# cmake is used for parallel building
+# in some configuration setups, legacy build is used (slow)
+
+#
+# PETSc does not want its Makefiles to be invoked with anything higher than
+# -j1. The underlying build system does automatically invoke a parallel
+# build. This might not be what you want, but *hey* not your choice.
+#
+# V=1 enables verbose output with full compiler and linker invocation
+#
+MAKEOPTS="${MAKEOPTS} -j1 V=1"
+
+S="${WORKDIR}/${MY_P}"
+
+src_prepare() {
+ epatch \
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.7.0-fix_sandbox_violation.patch
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+
+ # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+ petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+ }
+ # add external library:
+ # petsc_with use_flag libname libdir
+ # petsc_with use_flag libname include linking_libs
+ petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse}
--with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse}
--with-${p}-dir=${EPREFIX}${3:-/usr}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+ }
+
+ # select between configure options depending on use flag
+ petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+ }
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: a5a2b1bc8125c111d11d9474ae10accdbd9fc4c2
Author: Matthias Maier gentoo org>
AuthorDate: Tue Aug 30 00:52:46 2016 +
Commit: Marius Brehler linux sungazer de>
CommitDate: Tue Aug 30 00:52:46 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=a5a2b1bc
sci-mathematics/petsc: drop old
Package-Manager: portage-2.2.28
sci-mathematics/petsc/petsc-3.7.2.ebuild | 255 ---
1 file changed, 255 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.7.2.ebuild
b/sci-mathematics/petsc/petsc-3.7.2.ebuild
deleted file mode 100644
index 3ca12ff..000
--- a/sci-mathematics/petsc/petsc-3.7.2.ebuild
+++ /dev/null
@@ -1,255 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${PN}-$(replace_version_separator _ -)"
-
-DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
-HOMEPAGE="http://www.mcs.anl.gov/petsc/";
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
-
-LICENSE="petsc"
-SLOT="0"
-KEYWORDS="~x86 ~amd64"
-IUSE="afterimage boost complex-scalars cxx debug doc fftw
- fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
-# Failed: imagemagick metis
-
-# hypre and superlu curretly exclude each other due to missing linking to hypre
-# if both are enabled
-REQUIRED_USE="
- afterimage? ( X )
- hdf5? ( mpi )
- hypre? ( cxx mpi )
- mumps? ( mpi scotch )
- scotch? ( mpi )
- ^^ ( hypre superlu )
-"
-# imagemagick? ( X )
-
-RDEPEND="
- virtual/blas
- virtual/lapack
- afterimage? ( media-libs/libafterimage )
- boost? ( dev-libs/boost )
- fftw? ( sci-libs/fftw:3.0[mpi?] )
- hdf5? ( sci-libs/hdf5[mpi?] )
- hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
- mpi? ( virtual/mpi[cxx?,fortran?] )
- mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
- scotch? ( sci-libs/scotch[mpi?] )
- sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
- superlu? ( sci-libs/superlu )
- X? ( x11-libs/libX11 )
-"
-# metis? ( sci-libs/parmetis )
-# imagemagick? ( media-gfx/imagemagick )
-
-DEPEND="${RDEPEND}
- ${PYTHON_DEPS}
- virtual/pkgconfig
- dev-util/cmake
-"
-# cmake is used for parallel building
-# in some configuration setups, legacy build is used (slow)
-
-#
-# PETSc does not want its Makefiles to be invoked with anything higher than
-# -j1. The underlying build system does automatically invoke a parallel
-# build. This might not be what you want, but *hey* not your choice.
-#
-# V=1 enables verbose output with full compiler and linker invocation
-#
-MAKEOPTS="${MAKEOPTS} -j1 V=1"
-
-S="${WORKDIR}/${MY_P}"
-
-src_prepare() {
- epatch \
- "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
- "${FILESDIR}"/${PN}-3.7.0-fix_sandbox_violation.patch
-
- sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
-}
-
-src_configure() {
- # bug 548498
- # PETSc runs mpi processes during configure that result in a sandbox
- # violation by trying to open /proc/mtrr rw. This is not easy to
- # mitigate because it happens in libpciaccess.so called by libhwloc.so,
- # which is used by libmpi.so.
- addpredict /proc/mtrr
-
- # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
- petsc_enable() {
- use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
- }
- # add external library:
- # petsc_with use_flag libname libdir
- # petsc_with use_flag libname include linking_libs
- petsc_with() {
- local myuse p=${2:-${1}}
- if use ${1}; then
- myuse="--with-${p}=1"
- if [[ $# -ge 4 ]]; then
- myuse="${myuse}
--with-${p}-include=${EPREFIX}${3}"
- shift 3
- myuse="${myuse} --with-${p}-lib=$@"
- else
- myuse="${myuse}
--with-${p}-dir=${EPREFIX}${3:-/usr}"
- fi
- else
- myuse="--with-${p}=0"
- fi
- echo ${myuse}
- }
-
- # select between configure options depending on use flag
- petsc_select() {
- use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
- }
-
- local mylang
- local myopt
-
- use cxx && mylang="cxx" || mylang="c"
- use debug && myopt="debug" || myopt="opt"
-
- # environmental variables expected by petsc during build
- export PETSC_DIR="${S}"
- export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
-
- if use debug; then
-
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: a02841bb9ce8e70bd21ef6c65257d9467a85a47e
Author: Matthias Maier gentoo org>
AuthorDate: Sat Jul 9 16:22:32 2016 +
Commit: Marius Brehler linux sungazer de>
CommitDate: Sat Jul 9 16:33:56 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=a02841bb
sci-mathematics/petsc: version bump to 3.7.2
Package-Manager: portage-2.2.28
sci-mathematics/petsc/petsc-3.7.2.ebuild | 255 +++
1 file changed, 255 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.7.2.ebuild
b/sci-mathematics/petsc/petsc-3.7.2.ebuild
new file mode 100644
index 000..3ca12ff
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.7.2.ebuild
@@ -0,0 +1,255 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
+# Failed: imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# metis? ( sci-libs/parmetis )
+# imagemagick? ( media-gfx/imagemagick )
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+# cmake is used for parallel building
+# in some configuration setups, legacy build is used (slow)
+
+#
+# PETSc does not want its Makefiles to be invoked with anything higher than
+# -j1. The underlying build system does automatically invoke a parallel
+# build. This might not be what you want, but *hey* not your choice.
+#
+# V=1 enables verbose output with full compiler and linker invocation
+#
+MAKEOPTS="${MAKEOPTS} -j1 V=1"
+
+S="${WORKDIR}/${MY_P}"
+
+src_prepare() {
+ epatch \
+ "${FILESDIR}"/${PN}-3.7.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.7.0-fix_sandbox_violation.patch
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+
+ # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+ petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+ }
+ # add external library:
+ # petsc_with use_flag libname libdir
+ # petsc_with use_flag libname include linking_libs
+ petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse}
--with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse}
--with-${p}-dir=${EPREFIX}${3:-/usr}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+ }
+
+ # select between configure options depending on use flag
+ petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+ }
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 48f9a32050afb3cf4ded913f154a725f1861a197
Author: Matthias Maier gentoo org>
AuthorDate: Sat Jul 9 16:39:09 2016 +
Commit: Marius Brehler linux sungazer de>
CommitDate: Sat Jul 9 16:40:37 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=48f9a320
sci-mathematics/petsc: version bump to 3.5.4
Package-Manager: portage-2.2.28
sci-mathematics/petsc/{petsc-3.5.3.ebuild => petsc-3.5.4.ebuild} | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.5.3.ebuild
b/sci-mathematics/petsc/petsc-3.5.4.ebuild
similarity index 98%
rename from sci-mathematics/petsc/petsc-3.5.3.ebuild
rename to sci-mathematics/petsc/petsc-3.5.4.ebuild
index 7c1d0b3..7838e5d 100644
--- a/sci-mathematics/petsc/petsc-3.5.3.ebuild
+++ b/sci-mathematics/petsc/petsc-3.5.4.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2015 Gentoo Foundation
+# Copyright 1999-2016 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
@@ -69,7 +69,7 @@ MAKEOPTS="${MAKEOPTS} -j1"
S="${WORKDIR}/${MY_P}"
src_prepare() {
- epatch "${FILESDIR}"/${P%_*}-disable-rpath.patch
+ epatch "${FILESDIR}"/${PN}-3.5.3-disable-rpath.patch
sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
}
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: a4d74bf5cf42a039a93e81264382eb3bb159b052
Author: Matthias Maier gentoo org>
AuthorDate: Sat Jul 9 16:35:21 2016 +
Commit: Marius Brehler linux sungazer de>
CommitDate: Sat Jul 9 16:35:21 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=a4d74bf5
sci-mathematics/petsc: drop old
Package-Manager: portage-2.2.28
sci-mathematics/petsc/petsc-3.6.0.ebuild | 247 --
sci-mathematics/petsc/petsc-3.6.3.ebuild | 247 --
sci-mathematics/petsc/petsc-3.7.0.ebuild | 255 ---
3 files changed, 749 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.6.0.ebuild
b/sci-mathematics/petsc/petsc-3.6.0.ebuild
deleted file mode 100644
index 58ff3bd..000
--- a/sci-mathematics/petsc/petsc-3.6.0.ebuild
+++ /dev/null
@@ -1,247 +0,0 @@
-# Copyright 1999-2015 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${PN}-$(replace_version_separator _ -)"
-
-DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
-HOMEPAGE="http://www.mcs.anl.gov/petsc/";
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
-
-LICENSE="petsc"
-SLOT="0"
-KEYWORDS="~x86 ~amd64"
-IUSE="afterimage boost complex-scalars cxx debug doc fftw
- fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
-# Failed: imagemagick metis
-
-# hypre and superlu curretly exclude each other due to missing linking to hypre
-# if both are enabled
-REQUIRED_USE="
- afterimage? ( X )
- hdf5? ( mpi )
- hypre? ( cxx mpi )
- mumps? ( mpi scotch )
- scotch? ( mpi )
- ^^ ( hypre superlu )
-"
-# imagemagick? ( X )
-
-RDEPEND="
- virtual/blas
- virtual/lapack
- afterimage? ( media-libs/libafterimage )
- boost? ( dev-libs/boost )
- fftw? ( sci-libs/fftw:3.0[mpi?] )
- hdf5? ( sci-libs/hdf5[mpi?] )
- hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
- mpi? ( virtual/mpi[cxx?,fortran?] )
- mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
- scotch? ( sci-libs/scotch[mpi?] )
- sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
- superlu? ( sci-libs/superlu )
- X? ( x11-libs/libX11 )
-"
-# metis? ( sci-libs/parmetis )
-# imagemagick? ( media-gfx/imagemagick )
-
-DEPEND="${RDEPEND}
- ${PYTHON_DEPS}
- virtual/pkgconfig
- dev-util/cmake
-"
-# cmake is used for parallel building
-# in some configuration setups, legacy build is used (slow)
-
-#
-# PETSc does not want its Makefiles to be invoked with anything higher than
-# -j1. The underlying build system does automatically invoke a parallel
-# build. This might not be what you want, but *hey* not your choice.
-#
-MAKEOPTS="${MAKEOPTS} -j1"
-
-S="${WORKDIR}/${MY_P}"
-
-src_prepare() {
- epatch \
- "${FILESDIR}"/${P%_*}-disable-rpath.patch \
- "${FILESDIR}"/${P%_*}-fix_sandbox_violation.patch
-
- sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
-}
-
-src_configure() {
- # bug 548498
- # PETSc runs mpi processes during configure that result in a sandbox
- # violation by trying to open /proc/mtrr rw. This is not easy to
- # mitigate because it happens in libpciaccess.so called by libhwloc.so,
- # which is used by libmpi.so.
- addpredict /proc/mtrr
-
- # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
- petsc_enable() {
- use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
- }
- # add external library:
- # petsc_with use_flag libname libdir
- # petsc_with use_flag libname include linking_libs
- petsc_with() {
- local myuse p=${2:-${1}}
- if use ${1}; then
- myuse="--with-${p}=1"
- if [[ $# -ge 4 ]]; then
- myuse="${myuse}
--with-${p}-include=${EPREFIX}${3}"
- shift 3
- myuse="${myuse} --with-${p}-lib=$@"
- else
- myuse="${myuse}
--with-${p}-dir=${EPREFIX}${3:-/usr}"
- fi
- else
- myuse="--with-${p}=0"
- fi
- echo ${myuse}
- }
-
- # select between configure options depending on use flag
- petsc_select() {
- use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
- }
-
- local mylang
- local myopt
-
- use cxx && mylang="cxx" || mylang="c"
- use debug && myopt="debug" || myopt="opt"
-
- # environmental variables expected by petsc during build
- export PETSC_DIR="${S}"
- export PETSC_ARCH="li
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/, sci-mathematics/petsc/files/
commit: d3626423dea598c19550b3af5e7857412e1b4bac
Author: Matthias Maier gentoo org>
AuthorDate: Sat Jul 9 10:21:40 2016 +
Commit: Marius Brehler linux sungazer de>
CommitDate: Sat Jul 9 12:09:53 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=d3626423
sci-mathematics/petsc: version bump to 3.7.0
Package-Manager: portage-2.2.28
Signed-off-by: Matthias Maier gentoo.org>
.../petsc/files/petsc-3.7.0-disable-rpath.patch| 18 ++
.../files/petsc-3.7.0-fix_sandbox_violation.patch | 17 ++
sci-mathematics/petsc/petsc-3.7.0.ebuild | 255 +
3 files changed, 290 insertions(+)
diff --git a/sci-mathematics/petsc/files/petsc-3.7.0-disable-rpath.patch
b/sci-mathematics/petsc/files/petsc-3.7.0-disable-rpath.patch
new file mode 100644
index 000..8d0d993
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.7.0-disable-rpath.patch
@@ -0,0 +1,18 @@
+diff --git a/config/BuildSystem/config/setCompilers.py
b/config/BuildSystem/config/setCompilers.py
+index 219a35b..ad2ed8c 100644
+--- a/config/BuildSystem/config/setCompilers.py
b/config/BuildSystem/config/setCompilers.py
+@@ -1385,12 +1385,7 @@ class Configure(config.base.Configure):
+ for language in languages:
+ flag = '-L'
+ self.pushLanguage(language)
+- # test '-R' before '-rpath' as sun compilers [c,fortran] don't give
proper errors with wrong options.
+- if not Configure.isDarwin(self.log):
+-testFlags = ['-Wl,-rpath,', '-R','-rpath ' , '-Wl,-R,']
+- else:
+-testFlags = ['-Wl,-rpath,']
+- # test '-R' before '-Wl,-rpath' for SUN compilers [as cc on linux
accepts -Wl,-rpath, but f90 & CC do not.
++ testFlags = []
+ if self.isSun(self.framework.getCompiler(), self.log):
+ testFlags.insert(0,'-R')
+ for testFlag in testFlags:
diff --git
a/sci-mathematics/petsc/files/petsc-3.7.0-fix_sandbox_violation.patch
b/sci-mathematics/petsc/files/petsc-3.7.0-fix_sandbox_violation.patch
new file mode 100644
index 000..191ca18
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.7.0-fix_sandbox_violation.patch
@@ -0,0 +1,17 @@
+diff --git a/config/PETSc/options/installDir.py
b/config/PETSc/options/installDir.py
+index 0e2567c..bf782b5 100644
+--- a/config/PETSc/options/installDir.py
b/config/PETSc/options/installDir.py
+@@ -38,12 +38,6 @@ class Configure(config.base.Configure):
+ self.installSudoMessage = ''
+ if self.framework.argDB['prefix']:
+ self.dir =
os.path.abspath(os.path.expanduser(self.framework.argDB['prefix']))
+- try:
+-os.makedirs(os.path.join(self.dir,'PETScTestDirectory'))
+-os.rmdir(os.path.join(self.dir,'PETScTestDirectory'))
+- except:
+-self.installSudoMessage = 'You do not have write permissions to the
--prefix directory '+self.dir+'\nYou will be prompted for the sudo password for
any external package installs'
+-self.installSudo = 'sudo '
+ else:
+ self.dir = os.path.abspath(os.path.join(self.petscdir.dir,
self.arch.arch))
+ self.confDir = os.path.abspath(os.path.join(self.petscdir.dir,
self.arch.arch))
diff --git a/sci-mathematics/petsc/petsc-3.7.0.ebuild
b/sci-mathematics/petsc/petsc-3.7.0.ebuild
new file mode 100644
index 000..bcf8cc5
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.7.0.ebuild
@@ -0,0 +1,255 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
+# Failed: imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# metis? ( sci-libs/parmetis )
+# image
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 4c50902cb7f54cf48e7c30b835cfd2c47ffdae57
Author: Matthias Maier gentoo org>
AuthorDate: Fri Apr 22 03:12:27 2016 +
Commit: Christoph Junghans gentoo org>
CommitDate: Fri Apr 22 03:12:27 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=4c50902c
sci-mathematics/petsc: version bump to 3.6.4, fix bug #559172
Package-Manager: portage-2.2.26
sci-mathematics/petsc/petsc-3.6.4.ebuild | 252 +++
1 file changed, 252 insertions(+)
diff --git a/sci-mathematics/petsc/petsc-3.6.4.ebuild
b/sci-mathematics/petsc/petsc-3.6.4.ebuild
new file mode 100644
index 000..cff1192
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.6.4.ebuild
@@ -0,0 +1,252 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
+# Failed: imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# metis? ( sci-libs/parmetis )
+# imagemagick? ( media-gfx/imagemagick )
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+# cmake is used for parallel building
+# in some configuration setups, legacy build is used (slow)
+
+#
+# PETSc does not want its Makefiles to be invoked with anything higher than
+# -j1. The underlying build system does automatically invoke a parallel
+# build. This might not be what you want, but *hey* not your choice.
+#
+MAKEOPTS="${MAKEOPTS} -j1"
+
+S="${WORKDIR}/${MY_P}"
+
+src_prepare() {
+ epatch \
+ "${FILESDIR}"/${PN}-3.6.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.6.0-fix_sandbox_violation.patch
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+
+ # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+ petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+ }
+ # add external library:
+ # petsc_with use_flag libname libdir
+ # petsc_with use_flag libname include linking_libs
+ petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse}
--with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse}
--with-${p}-dir=${EPREFIX}${3:-/usr}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+ }
+
+ # select between configure options depending on use flag
+ petsc_select() {
+ use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
+ }
+
+ local mylang
+ local myopt
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ # environmental variables expected by petsc during build
+ export PETSC_DIR="${S}"
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}"
+
+ if use debug; then
+ strip-flags
+ filter-flags -O*
+ fi
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 974ee970511dc54931a03656d26922dfc7c22fdb
Author: Matthias Maier gentoo org>
AuthorDate: Fri Apr 22 02:52:53 2016 +
Commit: Christoph Junghans gentoo org>
CommitDate: Fri Apr 22 02:52:53 2016 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=974ee970
sci-mathematics/petsc: remove obsolete elog message pointing to bug #53386
Package-Manager: portage-2.2.26
sci-mathematics/petsc/petsc-3.4.2.ebuild | 6 --
sci-mathematics/petsc/petsc-3.5.3.ebuild | 6 --
sci-mathematics/petsc/petsc-3.6.0.ebuild | 6 --
sci-mathematics/petsc/petsc-3.6.3.ebuild | 6 --
4 files changed, 24 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.4.2.ebuild
b/sci-mathematics/petsc/petsc-3.4.2.ebuild
index 6a8dace..52e9a19 100644
--- a/sci-mathematics/petsc/petsc-3.4.2.ebuild
+++ b/sci-mathematics/petsc/petsc-3.4.2.ebuild
@@ -239,9 +239,3 @@ src_install() {
dohtml -r docs/*.html docs/changes docs/manualpages
fi
}
-
-pkg_postinst() {
- elog "The petsc ebuild is still under development."
- elog "Help us improve the ebuild in:"
- elog "http://bugs.gentoo.org/show_bug.cgi?id=53386";
-}
diff --git a/sci-mathematics/petsc/petsc-3.5.3.ebuild
b/sci-mathematics/petsc/petsc-3.5.3.ebuild
index a5d339b..7c1d0b3 100644
--- a/sci-mathematics/petsc/petsc-3.5.3.ebuild
+++ b/sci-mathematics/petsc/petsc-3.5.3.ebuild
@@ -242,9 +242,3 @@ src_install() {
dohtml -r docs/*.html docs/changes docs/manualpages
fi
}
-
-pkg_postinst() {
- elog "The petsc ebuild is still under development."
- elog "Help us improve the ebuild in:"
- elog "http://bugs.gentoo.org/show_bug.cgi?id=53386";
-}
diff --git a/sci-mathematics/petsc/petsc-3.6.0.ebuild
b/sci-mathematics/petsc/petsc-3.6.0.ebuild
index 874eca0..58ff3bd 100644
--- a/sci-mathematics/petsc/petsc-3.6.0.ebuild
+++ b/sci-mathematics/petsc/petsc-3.6.0.ebuild
@@ -245,9 +245,3 @@ src_install() {
dohtml -r docs/*.html docs/changes docs/manualpages
fi
}
-
-pkg_postinst() {
- elog "The petsc ebuild is still under development."
- elog "Help us improve the ebuild in:"
- elog "http://bugs.gentoo.org/show_bug.cgi?id=53386";
-}
diff --git a/sci-mathematics/petsc/petsc-3.6.3.ebuild
b/sci-mathematics/petsc/petsc-3.6.3.ebuild
index dd3aed2..87537cb 100644
--- a/sci-mathematics/petsc/petsc-3.6.3.ebuild
+++ b/sci-mathematics/petsc/petsc-3.6.3.ebuild
@@ -245,9 +245,3 @@ src_install() {
dohtml -r docs/*.html docs/changes docs/manualpages
fi
}
-
-pkg_postinst() {
- elog "The petsc ebuild is still under development."
- elog "Help us improve the ebuild in:"
- elog "http://bugs.gentoo.org/show_bug.cgi?id=53386";
-}
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: ea635c5ba9ce7015a7f3cf0f1aa1b8341e9c0eab
Author: Matthias Maier gentoo org>
AuthorDate: Thu Dec 31 08:02:03 2015 +
Commit: Justin Lecher gentoo org>
CommitDate: Thu Dec 31 08:02:21 2015 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=ea635c5b
sci-mathematics/petsc: version bump to 2.6.3
Package-Manager: portage-2.2.26
sci-mathematics/petsc/ChangeLog | 5 +
sci-mathematics/petsc/petsc-3.6.3.ebuild | 253 +++
2 files changed, 258 insertions(+)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index 861d62b..89fdf76 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -2,6 +2,11 @@
# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Id$
+*petsc-3.6.3 (31 Dec 2015)
+
+ 31 Dec 2015; Matthias Maier +petsc-3.6.3.ebuild:
+ sci-mathematics/petsc: version bump
+
01 Sep 2015; Marius Brehler petsc-3.5.3.ebuild,
petsc-3.6.0.ebuild:
sci-mathematics/petsc: Add subslot for fftw dependency
diff --git a/sci-mathematics/petsc/petsc-3.6.3.ebuild
b/sci-mathematics/petsc/petsc-3.6.3.ebuild
new file mode 100644
index 000..dd3aed2
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.6.3.ebuild
@@ -0,0 +1,253 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
+# Failed: imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw:3.0[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# metis? ( sci-libs/parmetis )
+# imagemagick? ( media-gfx/imagemagick )
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+# cmake is used for parallel building
+# in some configuration setups, legacy build is used (slow)
+
+#
+# PETSc does not want its Makefiles to be invoked with anything higher than
+# -j1. The underlying build system does automatically invoke a parallel
+# build. This might not be what you want, but *hey* not your choice.
+#
+MAKEOPTS="${MAKEOPTS} -j1"
+
+S="${WORKDIR}/${MY_P}"
+
+src_prepare() {
+ epatch \
+ "${FILESDIR}"/${PN}-3.6.0-disable-rpath.patch \
+ "${FILESDIR}"/${PN}-3.6.0-fix_sandbox_violation.patch
+
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+
+ # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+ petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+ }
+ # add external library:
+ # petsc_with use_flag libname libdir
+ # petsc_with use_flag libname include linking_libs
+ petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse}
--with-${p}-include=${EPREFIX}${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=$@"
+ else
+ myuse="${myuse}
--with-${p}-dir=${EPREFIX}${3:-/usr}"
+ fi
+ else
+ myuse="--with-${p}=0"
+ fi
+ echo ${myuse}
+ }
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: c0b79811015288696f74c4c55694e6c3c1b95413 Author: Marius Brehler linux sungazer de> AuthorDate: Tue Sep 1 08:16:12 2015 + Commit: Justin Lecher gentoo org> CommitDate: Tue Sep 1 08:16:12 2015 + URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=c0b79811 sci-mathematics/petsc: Add subslot for fftw dependency Package-Manager: portage-2.2.20.1 sci-mathematics/petsc/ChangeLog | 4 sci-mathematics/petsc/petsc-3.5.3.ebuild | 2 +- sci-mathematics/petsc/petsc-3.6.0.ebuild | 2 +- 3 files changed, 6 insertions(+), 2 deletions(-) diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog index ede47d8..861d62b 100644 --- a/sci-mathematics/petsc/ChangeLog +++ b/sci-mathematics/petsc/ChangeLog @@ -2,6 +2,10 @@ # Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2 # $Id$ + 01 Sep 2015; Marius Brehler petsc-3.5.3.ebuild, + petsc-3.6.0.ebuild: + sci-mathematics/petsc: Add subslot for fftw dependency + 23 Jun 2015; Matthias Maier petsc-3.5.3.ebuild, petsc-3.6.0.ebuild: sci-mathematics/petsc: Avoid a sandbox violation, bug #548498 diff --git a/sci-mathematics/petsc/petsc-3.5.3.ebuild b/sci-mathematics/petsc/petsc-3.5.3.ebuild index 44076f7..a5d339b 100644 --- a/sci-mathematics/petsc/petsc-3.5.3.ebuild +++ b/sci-mathematics/petsc/petsc-3.5.3.ebuild @@ -38,7 +38,7 @@ RDEPEND=" virtual/lapack afterimage? ( media-libs/libafterimage ) boost? ( dev-libs/boost ) - fftw? ( sci-libs/fftw[mpi?] ) + fftw? ( sci-libs/fftw:3.0[mpi?] ) hdf5? ( sci-libs/hdf5[mpi?] ) hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] ) mpi? ( virtual/mpi[cxx?,fortran?] ) diff --git a/sci-mathematics/petsc/petsc-3.6.0.ebuild b/sci-mathematics/petsc/petsc-3.6.0.ebuild index 6a5ce37..874eca0 100644 --- a/sci-mathematics/petsc/petsc-3.6.0.ebuild +++ b/sci-mathematics/petsc/petsc-3.6.0.ebuild @@ -38,7 +38,7 @@ RDEPEND=" virtual/lapack afterimage? ( media-libs/libafterimage ) boost? ( dev-libs/boost ) - fftw? ( sci-libs/fftw[mpi?] ) + fftw? ( sci-libs/fftw:3.0[mpi?] ) hdf5? ( sci-libs/hdf5[mpi?] ) hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] ) mpi? ( virtual/mpi[cxx?,fortran?] )
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 8b2c35ac92ac6644a09d897c1616ed3753396bff
Author: Matthias Maier gentoo org>
AuthorDate: Tue Jun 23 18:03:38 2015 +
Commit: Justin Lecher gentoo org>
CommitDate: Tue Jun 23 18:03:38 2015 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=8b2c35ac
sci-mathematics/petsc: Avoid a sandbox violation, bug #548498
Package-Manager: portage-2.2.18
sci-mathematics/petsc/ChangeLog | 4
sci-mathematics/petsc/petsc-3.5.3.ebuild | 7 +++
sci-mathematics/petsc/petsc-3.6.0.ebuild | 7 +++
3 files changed, 18 insertions(+)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index 858b694..1f8dcbb 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -2,6 +2,10 @@
# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 23 Jun 2015; Matthias Maier petsc-3.5.3.ebuild,
+ petsc-3.6.0.ebuild:
+ sci-mathematics/petsc: Avoid a sandbox violation, bug #548498
+
*petsc-3.6.0 (23 Jun 2015)
23 Jun 2015; Matthias Maier
diff --git a/sci-mathematics/petsc/petsc-3.5.3.ebuild
b/sci-mathematics/petsc/petsc-3.5.3.ebuild
index 09e5bfb..c7f0269 100644
--- a/sci-mathematics/petsc/petsc-3.5.3.ebuild
+++ b/sci-mathematics/petsc/petsc-3.5.3.ebuild
@@ -74,6 +74,13 @@ src_prepare() {
}
src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+
# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
petsc_enable() {
use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
diff --git a/sci-mathematics/petsc/petsc-3.6.0.ebuild
b/sci-mathematics/petsc/petsc-3.6.0.ebuild
index 6c96de3..d7ee394 100644
--- a/sci-mathematics/petsc/petsc-3.6.0.ebuild
+++ b/sci-mathematics/petsc/petsc-3.6.0.ebuild
@@ -77,6 +77,13 @@ src_prepare() {
}
src_configure() {
+ # bug 548498
+ # PETSc runs mpi processes during configure that result in a sandbox
+ # violation by trying to open /proc/mtrr rw. This is not easy to
+ # mitigate because it happens in libpciaccess.so called by libhwloc.so,
+ # which is used by libmpi.so.
+ addpredict /proc/mtrr
+
# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
petsc_enable() {
use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/, sci-mathematics/petsc/files/
commit: a5ec25be61777284cc15c42d6574b33388932ee9
Author: Matthias Maier gentoo org>
AuthorDate: Tue Jun 23 17:37:16 2015 +
Commit: Justin Lecher gentoo org>
CommitDate: Tue Jun 23 17:37:16 2015 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=a5ec25be
version bump
Package-Manager: portage-2.2.18
sci-mathematics/petsc/ChangeLog | 8
...able-rpath.patch => petsc-3.6.0-disable-rpath.patch} | 9 +
.../petsc/files/petsc-3.6.0-fix_sandbox_violation.patch | 15 +++
.../petsc/{petsc-3.5.1.ebuild => petsc-3.6.0.ebuild}| 17 ++---
4 files changed, 38 insertions(+), 11 deletions(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index a29efad..858b694 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -2,6 +2,14 @@
# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+*petsc-3.6.0 (23 Jun 2015)
+
+ 23 Jun 2015; Matthias Maier
+ +files/petsc-3.6.0-disable-rpath.patch,
+ +files/petsc-3.6.0-fix_sandbox_violation.patch, +petsc-3.6.0.ebuild,
+ -files/petsc-3.5.1-disable-rpath.patch, -petsc-3.5.1.ebuild:
+ version bump
+
*petsc-3.5.3 (13 Mar 2015)
13 Mar 2015; Matthias Maier
diff --git a/sci-mathematics/petsc/files/petsc-3.5.1-disable-rpath.patch
b/sci-mathematics/petsc/files/petsc-3.6.0-disable-rpath.patch
similarity index 65%
rename from sci-mathematics/petsc/files/petsc-3.5.1-disable-rpath.patch
rename to sci-mathematics/petsc/files/petsc-3.6.0-disable-rpath.patch
index 0ccf45d..88a7db5 100644
--- a/sci-mathematics/petsc/files/petsc-3.5.1-disable-rpath.patch
+++ b/sci-mathematics/petsc/files/petsc-3.6.0-disable-rpath.patch
@@ -1,6 +1,7 @@
config/BuildSystem/config/setCompilers.py 2013-10-08 19:45:00.581513389
+0200
-+++ config/BuildSystem/config/setCompilers.py 2013-05-13 23:35:20.0
+0200
-@@ -1303,12 +1303,7 @@
+diff --git a/config/BuildSystem/config/setCompilers.py
b/config/BuildSystem/config/setCompilers.py
+--- a/config/BuildSystem/config/setCompilers.py
b/config/BuildSystem/config/setCompilers.py
+@@ -1326,12 +1326,7 @@ class Configure(config.base.Configure):
for language in languages:
flag = '-L'
self.pushLanguage(language)
@@ -8,7 +9,7 @@
- if not Configure.isDarwin():
-testFlags = ['-Wl,-rpath,', '-R','-rpath ' , '-Wl,-R,']
- else:
--testFlags = []
+-testFlags = ['-Wl,-rpath,']
- # test '-R' before '-Wl,-rpath' for SUN compilers [as cc on linux
accepts -Wl,-rpath, but f90 & CC do not.
+ testFlags = []
if self.isSun(self.framework.getCompiler()):
diff --git
a/sci-mathematics/petsc/files/petsc-3.6.0-fix_sandbox_violation.patch
b/sci-mathematics/petsc/files/petsc-3.6.0-fix_sandbox_violation.patch
new file mode 100644
index 000..7510631
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.6.0-fix_sandbox_violation.patch
@@ -0,0 +1,15 @@
+--- config/PETSc/options/installDir.py.orig2015-06-23 18:11:25.054911894
+0200
config/PETSc/options/installDir.py 2015-06-23 18:11:44.100289841 +0200
+@@ -38,12 +38,6 @@
+ self.installSudoMessage = ''
+ if self.framework.argDB['prefix']:
+ self.dir = self.framework.argDB['prefix']
+- try:
+-os.makedirs(os.path.join(self.dir,'PETScTestDirectory'))
+-os.rmdir(os.path.join(self.dir,'PETScTestDirectory'))
+- except:
+-self.installSudoMessage = 'You do not have write permissions to the
--prefix directory '+self.dir+'\nYou will be prompted for the sudo password for
any external package installs'
+-self.installSudo = 'sudo '
+ else:
+ self.dir = os.path.abspath(os.path.join(self.petscdir.dir,
self.arch.arch))
+ self.confDir = os.path.abspath(os.path.join(self.petscdir.dir,
self.arch.arch))
diff --git a/sci-mathematics/petsc/petsc-3.5.1.ebuild
b/sci-mathematics/petsc/petsc-3.6.0.ebuild
similarity index 94%
rename from sci-mathematics/petsc/petsc-3.5.1.ebuild
rename to sci-mathematics/petsc/petsc-3.6.0.ebuild
index 3d01eee..6c96de3 100644
--- a/sci-mathematics/petsc/petsc-3.5.1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.6.0.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2014 Gentoo Foundation
+# Copyright 1999-2015 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: $
@@ -69,7 +69,10 @@ MAKEOPTS="${MAKEOPTS} -j1"
S="${WORKDIR}/${MY_P}"
src_prepare() {
- epatch "${FILESDIR}"/${P%_*}-disable-rpath.patch
+ epatch \
+ "${FILESDIR}"/${P%_*}-disable-rpath.patch \
+ "${FILESDIR}"/${P%_*}-fix_sandbox_violation.patch
+
sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
}
@@ -192,18 +195,18 @@ src_install() {
doins ${PETSC_ARCH}/include/*
if use fortran; then
insinto /usr/include/${PN}/finclude
- doins -r include/finc
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
commit: e5b32727b4eb32e49f03c780c8c6005ee42a2843
Author: Matthias Maier gentoo org>
AuthorDate: Fri Mar 13 13:19:23 2015 +
Commit: Justin Lecher gentoo org>
CommitDate: Sat Mar 14 08:21:00 2015 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=e5b32727
version bump
Package-Manager: portage-2.2.15
sci-mathematics/petsc/ChangeLog| 8 +-
.../petsc/files/petsc-3.5.3-disable-rpath.patch| 18 ++
sci-mathematics/petsc/petsc-3.5.3.ebuild | 243 +
3 files changed, 268 insertions(+), 1 deletion(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index a3aabff..a29efad 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -1,7 +1,13 @@
# ChangeLog for sci-mathematics/petsc
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+*petsc-3.5.3 (13 Mar 2015)
+
+ 13 Mar 2015; Matthias Maier
+ +files/petsc-3.5.3-disable-rpath.patch, +petsc-3.5.3.ebuild:
+ version bump
+
16 Sep 2014; Christoph Junghans petsc-3.4.2.ebuild:
remove whitespace
diff --git a/sci-mathematics/petsc/files/petsc-3.5.3-disable-rpath.patch
b/sci-mathematics/petsc/files/petsc-3.5.3-disable-rpath.patch
new file mode 100644
index 000..7fe3760
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.5.3-disable-rpath.patch
@@ -0,0 +1,18 @@
+diff --git a/config/BuildSystem/config/setCompilers.py
b/config/BuildSystem/config/setCompilers.py
+index 8e0d2ee..ce53ad0 100644
+--- a/config/BuildSystem/config/setCompilers.py
b/config/BuildSystem/config/setCompilers.py
+@@ -1326,12 +1326,7 @@ class Configure(config.base.Configure):
+ for language in languages:
+ flag = '-L'
+ self.pushLanguage(language)
+- # test '-R' before '-rpath' as sun compilers [c,fortran] don't give
proper errors with wrong options.
+- if not Configure.isDarwin():
+-testFlags = ['-Wl,-rpath,', '-R','-rpath ' , '-Wl,-R,']
+- else:
+-testFlags = []
+- # test '-R' before '-Wl,-rpath' for SUN compilers [as cc on linux
accepts -Wl,-rpath, but f90 & CC do not.
++ testFlags = []
+ if self.isSun(self.framework.getCompiler()):
+ testFlags.insert(0,'-R')
+ for testFlag in testFlags:
diff --git a/sci-mathematics/petsc/petsc-3.5.3.ebuild
b/sci-mathematics/petsc/petsc-3.5.3.ebuild
new file mode 100644
index 000..09e5bfb
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.5.3.ebuild
@@ -0,0 +1,243 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
+# Failed: imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# metis? ( sci-libs/parmetis )
+# imagemagick? ( media-gfx/imagemagick )
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+# cmake is used for parallel building
+# in some configuration setups, legacy build is used (slow)
+
+#
+# PETSc does not want its Makefiles to be invoked with anything higher than
+# -j1. The underlying build system does automatically invoke a parallel
+# build. This might not be what you want, but *hey* not your choice.
+#
+MAKEOPTS="${MAKEOPTS} -j1"
+
+S="${WORKDIR}/${MY_P}"
+
+src_prepare() {
+ epatch "${FILESDIR}"/${P%_*}-disable-rpath.patch
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+src_configure() {
+ # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
commit: ccf847720716a390cbe79d4b06b60113d9748774
Author: Matthias Maier gentoo org>
AuthorDate: Fri Mar 13 13:19:23 2015 +
Commit: Justin Lecher gentoo org>
CommitDate: Fri Mar 13 13:19:23 2015 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=ccf84772
version bump
Package-Manager: portage-2.2.15
sci-mathematics/petsc/ChangeLog| 8 +-
.../petsc/files/petsc-3.5.3-disable-rpath.patch| 18 ++
sci-mathematics/petsc/petsc-3.5.3.ebuild | 243 +
3 files changed, 268 insertions(+), 1 deletion(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index a3aabff..a29efad 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -1,7 +1,13 @@
# ChangeLog for sci-mathematics/petsc
-# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2015 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+*petsc-3.5.3 (13 Mar 2015)
+
+ 13 Mar 2015; Matthias Maier
+ +files/petsc-3.5.3-disable-rpath.patch, +petsc-3.5.3.ebuild:
+ version bump
+
16 Sep 2014; Christoph Junghans petsc-3.4.2.ebuild:
remove whitespace
diff --git a/sci-mathematics/petsc/files/petsc-3.5.3-disable-rpath.patch
b/sci-mathematics/petsc/files/petsc-3.5.3-disable-rpath.patch
new file mode 100644
index 000..7fe3760
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.5.3-disable-rpath.patch
@@ -0,0 +1,18 @@
+diff --git a/config/BuildSystem/config/setCompilers.py
b/config/BuildSystem/config/setCompilers.py
+index 8e0d2ee..ce53ad0 100644
+--- a/config/BuildSystem/config/setCompilers.py
b/config/BuildSystem/config/setCompilers.py
+@@ -1326,12 +1326,7 @@ class Configure(config.base.Configure):
+ for language in languages:
+ flag = '-L'
+ self.pushLanguage(language)
+- # test '-R' before '-rpath' as sun compilers [c,fortran] don't give
proper errors with wrong options.
+- if not Configure.isDarwin():
+-testFlags = ['-Wl,-rpath,', '-R','-rpath ' , '-Wl,-R,']
+- else:
+-testFlags = []
+- # test '-R' before '-Wl,-rpath' for SUN compilers [as cc on linux
accepts -Wl,-rpath, but f90 & CC do not.
++ testFlags = []
+ if self.isSun(self.framework.getCompiler()):
+ testFlags.insert(0,'-R')
+ for testFlag in testFlags:
diff --git a/sci-mathematics/petsc/petsc-3.5.3.ebuild
b/sci-mathematics/petsc/petsc-3.5.3.ebuild
new file mode 100644
index 000..09e5bfb
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.5.3.ebuild
@@ -0,0 +1,243 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
+# Failed: imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# metis? ( sci-libs/parmetis )
+# imagemagick? ( media-gfx/imagemagick )
+
+DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+# cmake is used for parallel building
+# in some configuration setups, legacy build is used (slow)
+
+#
+# PETSc does not want its Makefiles to be invoked with anything higher than
+# -j1. The underlying build system does automatically invoke a parallel
+# build. This might not be what you want, but *hey* not your choice.
+#
+MAKEOPTS="${MAKEOPTS} -j1"
+
+S="${WORKDIR}/${MY_P}"
+
+src_prepare() {
+ epatch "${FILESDIR}"/${P%_*}-disable-rpath.patch
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
+}
+
+src_configure() {
+ # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: e677c77edead491f921c2d24a7935ee6be6b5af0
Author: Christoph Junghans gentoo org>
AuthorDate: Tue Sep 16 16:55:59 2014 +
Commit: Christoph Junghans gentoo org>
CommitDate: Tue Sep 16 16:55:59 2014 +
URL:http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=e677c77e
remove whitespace
Package-Manager: portage-2.2.8-r1
---
sci-mathematics/petsc/ChangeLog | 4 +++-
sci-mathematics/petsc/petsc-3.4.2.ebuild | 2 +-
2 files changed, 4 insertions(+), 2 deletions(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index 7e45651..a3aabff 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -2,6 +2,9 @@
# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 16 Sep 2014; Christoph Junghans petsc-3.4.2.ebuild:
+ remove whitespace
+
01 Sep 2014; Jauhien Piatlicki petsc-3.4.2.ebuild,
petsc-3.5.1.ebuild:
fix INCLUDE dirs in petscvariables
@@ -129,4 +132,3 @@
13 Sep 2010; Thomas Kahle +petsc-3.1_p4.ebuild,
+files/fix-configure-pic.patch, +files/fix-mpiuni.patch, +metadata.xml:
New package. Ebuild by J. M. Gottfried. Corresponding bug is 53386.
-
diff --git a/sci-mathematics/petsc/petsc-3.4.2.ebuild
b/sci-mathematics/petsc/petsc-3.4.2.ebuild
index b0c767a..604da45 100644
--- a/sci-mathematics/petsc/petsc-3.4.2.ebuild
+++ b/sci-mathematics/petsc/petsc-3.4.2.ebuild
@@ -172,7 +172,7 @@ src_configure() {
/usr/include \
[-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
--with-imagemagick=0 \
- --with-python=0 \
+ --with-python=0
# not yet tested:
# python bindings, netcdf
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: f6dac7e5f0c578330f3994c83afc702c78d785a4
Author: Jauhien Piatlicki gentoo org>
AuthorDate: Mon Sep 1 17:53:43 2014 +
Commit: Jauhien Piatlicki gentoo org>
CommitDate: Mon Sep 1 17:53:43 2014 +
URL:http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=f6dac7e5
sci-mathematics/petsc: fix INCLUDE dirs in petscvariables
---
sci-mathematics/petsc/ChangeLog | 4
sci-mathematics/petsc/petsc-3.4.2.ebuild | 4
sci-mathematics/petsc/petsc-3.5.1.ebuild | 4
3 files changed, 12 insertions(+)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index a0fd4a7..7e45651 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -4,6 +4,10 @@
01 Sep 2014; Jauhien Piatlicki petsc-3.4.2.ebuild,
petsc-3.5.1.ebuild:
+ fix INCLUDE dirs in petscvariables
+
+ 01 Sep 2014; Jauhien Piatlicki petsc-3.4.2.ebuild,
+ petsc-3.5.1.ebuild:
make configure work on systems with default python3 interpreter
06 Jan 2014; Justin Lecher -petsc-3.3_p5.ebuild,
diff --git a/sci-mathematics/petsc/petsc-3.4.2.ebuild
b/sci-mathematics/petsc/petsc-3.4.2.ebuild
index 065c95d..b0c767a 100644
--- a/sci-mathematics/petsc/petsc-3.4.2.ebuild
+++ b/sci-mathematics/petsc/petsc-3.4.2.ebuild
@@ -216,6 +216,10 @@ src_install() {
"${ED}"/usr/include/${PN}/${PETSC_ARCH}/include/petscconf.h \
"${ED}"/usr/include/${PN}/${PETSC_ARCH}/conf/petscvariables ||
die
sed -i \
+ -e "s:-I/include:-I${EPREFIX}/usr/include/${PN}:g" \
+ -e
"s:-I/linux-gnu-cxx-opt/include:-I${EPREFIX}/usr/include/${PN}/${PETSC_ARCH}/include/:g"
\
+ "${ED}"/usr/include/${PN}/${PETSC_ARCH}/conf/petscvariables ||
die
+ sed -i \
-e "s:usr/lib:usr/$(get_libdir):g" \
"${ED}"/usr/include/${PN}/${PETSC_ARCH}/include/petscconf.h ||
die
diff --git a/sci-mathematics/petsc/petsc-3.5.1.ebuild
b/sci-mathematics/petsc/petsc-3.5.1.ebuild
index 147c36b..3d01eee 100644
--- a/sci-mathematics/petsc/petsc-3.5.1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.5.1.ebuild
@@ -211,6 +211,10 @@ src_install() {
"${ED}"/usr/include/${PN}/${PETSC_ARCH}/include/petscconf.h \
"${ED}"/usr/include/${PN}/${PETSC_ARCH}/conf/petscvariables ||
die
sed -i \
+ -e "s:-I/include:-I${EPREFIX}/usr/include/${PN}:g" \
+ -e
"s:-I/linux-gnu-cxx-opt/include:-I${EPREFIX}/usr/include/${PN}/${PETSC_ARCH}/include/:g"
\
+ "${ED}"/usr/include/${PN}/${PETSC_ARCH}/conf/petscvariables ||
die
+ sed -i \
-e "s:usr/lib:usr/$(get_libdir):g" \
"${ED}"/usr/include/${PN}/${PETSC_ARCH}/include/petscconf.h ||
die
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: da574aba923a790a2af6c043f5a3f94a0659bf53
Author: Jauhien Piatlicki gentoo org>
AuthorDate: Mon Sep 1 13:05:37 2014 +
Commit: Jauhien Piatlicki gentoo org>
CommitDate: Mon Sep 1 13:05:37 2014 +
URL:http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=da574aba
sci-mathematics/petsc: make configure work on systems with default python3
interpreter
---
sci-mathematics/petsc/ChangeLog | 4
sci-mathematics/petsc/petsc-3.4.2.ebuild | 6 +-
sci-mathematics/petsc/petsc-3.5.1.ebuild | 6 +-
3 files changed, 14 insertions(+), 2 deletions(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index f963803..a0fd4a7 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -2,6 +2,10 @@
# Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 01 Sep 2014; Jauhien Piatlicki petsc-3.4.2.ebuild,
+ petsc-3.5.1.ebuild:
+ make configure work on systems with default python3 interpreter
+
06 Jan 2014; Justin Lecher -petsc-3.3_p5.ebuild,
petsc-3.4.2.ebuild, metadata.xml:
Punt base.eclass
diff --git a/sci-mathematics/petsc/petsc-3.4.2.ebuild
b/sci-mathematics/petsc/petsc-3.4.2.ebuild
index 5263263..065c95d 100644
--- a/sci-mathematics/petsc/petsc-3.4.2.ebuild
+++ b/sci-mathematics/petsc/petsc-3.4.2.ebuild
@@ -4,7 +4,9 @@
EAPI=5
-inherit eutils flag-o-matic fortran-2 toolchain-funcs versionator
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
MY_P="${PN}-$(replace_version_separator _ -)"
@@ -49,6 +51,7 @@ RDEPEND="
# imagemagick? ( media-gfx/imagemagick )
DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
virtual/pkgconfig
dev-util/cmake
"
@@ -66,6 +69,7 @@ S="${WORKDIR}/${MY_P}"
src_prepare() {
epatch "${FILESDIR}"/${P%_*}-disable-rpath.patch
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
}
src_configure() {
diff --git a/sci-mathematics/petsc/petsc-3.5.1.ebuild
b/sci-mathematics/petsc/petsc-3.5.1.ebuild
index bacf55e..147c36b 100644
--- a/sci-mathematics/petsc/petsc-3.5.1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.5.1.ebuild
@@ -4,7 +4,9 @@
EAPI=5
-inherit eutils flag-o-matic fortran-2 toolchain-funcs versionator
+PYTHON_COMPAT=( python2_7 )
+
+inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
MY_P="${PN}-$(replace_version_separator _ -)"
@@ -50,6 +52,7 @@ RDEPEND="
# imagemagick? ( media-gfx/imagemagick )
DEPEND="${RDEPEND}
+ ${PYTHON_DEPS}
virtual/pkgconfig
dev-util/cmake
"
@@ -67,6 +70,7 @@ S="${WORKDIR}/${MY_P}"
src_prepare() {
epatch "${FILESDIR}"/${P%_*}-disable-rpath.patch
+ sed -i -e 's%/usr/bin/env python%/usr/bin/env python2%' configure || die
}
src_configure() {
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/
commit: 9d554536bddca6aa5d766020a3513ec16bc5000b
Author: layman localhost>
AuthorDate: Sun Aug 3 08:55:23 2014 +
Commit: Justin Lecher gentoo org>
CommitDate: Sun Aug 3 08:55:23 2014 +
URL:
http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=9d554536
Install the .f90 fortran includes.
---
sci-mathematics/petsc/petsc-3.5.1.ebuild | 5 +++--
1 file changed, 3 insertions(+), 2 deletions(-)
diff --git a/sci-mathematics/petsc/petsc-3.5.1.ebuild
b/sci-mathematics/petsc/petsc-3.5.1.ebuild
index e4ea76a..bacf55e 100644
--- a/sci-mathematics/petsc/petsc-3.5.1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.5.1.ebuild
@@ -165,7 +165,7 @@ src_configure() {
--with-imagemagick=0 \
--with-python=0 \
$(petsc_with boost) \
- $(petsc_with fftw) \
+ $(petsc_with fftw)
# not yet tested:
# python bindings, netcdf, fftw
@@ -188,7 +188,7 @@ src_install() {
doins ${PETSC_ARCH}/include/*
if use fortran; then
insinto /usr/include/${PN}/finclude
- doins include/finclude/*.h
+ doins -r include/finclude/*
fi
if ! use mpi ; then
insinto /usr/include/${PN}/mpiuni
@@ -219,6 +219,7 @@ src_install() {
doenvd 99petsc
dolib.so ${PETSC_ARCH}/lib/*.so
+ dolib.so ${PETSC_ARCH}/lib/*.so.*
if use doc ; then
einfo "installing documentation (this could take a while)"
[gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
commit: eaa505b7fe3ae5a00cc9d99e1d8f4ab960e66610
Author: Jens Malte Gottfried web de>
AuthorDate: Thu Jul 24 21:49:32 2014 +
Commit: Jens-Malte Gottfried godefridus de>
CommitDate: Thu Jul 24 21:49:32 2014 +
URL:
http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=eaa505b7
petc-3.5.1 version bump
---
.../petsc/files/petsc-3.5.1-disable-rpath.patch| 16 ++
sci-mathematics/petsc/metadata.xml | 4 +-
sci-mathematics/petsc/petsc-3.5.1.ebuild | 234 +
3 files changed, 251 insertions(+), 3 deletions(-)
diff --git a/sci-mathematics/petsc/files/petsc-3.5.1-disable-rpath.patch
b/sci-mathematics/petsc/files/petsc-3.5.1-disable-rpath.patch
new file mode 100644
index 000..0ccf45d
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.5.1-disable-rpath.patch
@@ -0,0 +1,16 @@
+--- config/BuildSystem/config/setCompilers.py 2013-10-08 19:45:00.581513389
+0200
config/BuildSystem/config/setCompilers.py 2013-05-13 23:35:20.0
+0200
+@@ -1303,12 +1303,7 @@
+ for language in languages:
+ flag = '-L'
+ self.pushLanguage(language)
+- # test '-R' before '-rpath' as sun compilers [c,fortran] don't give
proper errors with wrong options.
+- if not Configure.isDarwin():
+-testFlags = ['-Wl,-rpath,', '-R','-rpath ' , '-Wl,-R,']
+- else:
+-testFlags = []
+- # test '-R' before '-Wl,-rpath' for SUN compilers [as cc on linux
accepts -Wl,-rpath, but f90 & CC do not.
++ testFlags = []
+ if self.isSun(self.framework.getCompiler()):
+ testFlags.insert(0,'-R')
+ for testFlag in testFlags:
diff --git a/sci-mathematics/petsc/metadata.xml
b/sci-mathematics/petsc/metadata.xml
index a22c6dc..fc9f3e8 100644
--- a/sci-mathematics/petsc/metadata.xml
+++ b/sci-mathematics/petsc/metadata.xml
@@ -4,14 +4,12 @@
sci-mathematics
Use Afterstep image library
(media-libs/libafterimage)
+Use boost (dev-libs/boost)
Use HYPRE (sci-mathematics/hypre) and for
preconditioning
Make scalars complex
Use suitesparse (sci-libs/suitesparse) including
cholmod (sci-libs/cholmod) for sparse factorization
Use superlu (sci-libs/superlu) for
preconditioning
PLEASE FIX MY DESCRIPTION
PLEASE FIX MY DESCRIPTION
-
diff --git a/sci-mathematics/petsc/petsc-3.5.1.ebuild
b/sci-mathematics/petsc/petsc-3.5.1.ebuild
new file mode 100644
index 000..e4ea76a
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.5.1.ebuild
@@ -0,0 +1,234 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+inherit eutils flag-o-matic fortran-2 toolchain-funcs versionator
+
+MY_P="${PN}-$(replace_version_separator _ -)"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/";
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz";
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage boost complex-scalars cxx debug doc fftw
+ fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
+# Failed: imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ boost? ( dev-libs/boost )
+ fftw? ( sci-libs/fftw[mpi?] )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# metis? ( sci-libs/parmetis )
+# imagemagick? ( media-gfx/imagemagick )
+
+DEPEND="${RDEPEND}
+ virtual/pkgconfig
+ dev-util/cmake
+"
+# cmake is used for parallel building
+# in some configuration setups, legacy build is used (slow)
+
+#
+# PETSc does not want its Makefiles to be invoked with anything higher than
+# -j1. The underlying build system does automatically invoke a parallel
+# build. This might not be what you want, but *hey* not your choice.
+#
+MAKEOPTS="${MAKEOPTS} -j1"
+
+S="${WORKDIR}/${MY_P}"
+
+src_prepare() {
+ epatch "${FILESDIR}"/${P%_*}-disable-rpath.patch
+}
+
+src_configure() {
+ # petsc uses --with-blah=1 and --with-blah=0 to en/disable options
+ petsc_enable() {
+ use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
+ }
+ # add external library:
+ # petsc_with use_flag libname libdir
+ # pets
