* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2011-03-19 12:05 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2011-03-19 12:05 UTC (permalink / raw
To: gentoo-commits
commit: b45bc396733e374a19e2d6f623bf2ce0730b11a1
Author: Jens-Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Sat Mar 19 12:02:35 2011 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Sat Mar 19 12:02:35 2011 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=b45bc396
added petsc-3.1_p8 ebuild
---
sci-mathematics/petsc/ChangeLog | 6 +
.../petsc/files/petsc-3.1_p8-configure-pic.patch | 11 ++
sci-mathematics/petsc/petsc-3.1_p8.ebuild | 177 ++++++++++++++++++++
3 files changed, 194 insertions(+), 0 deletions(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index 005db5e..5a3533b 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -2,6 +2,12 @@
# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+*petsc-3.1_p8 (19 Mar 2011)
+
+ 19 Mar 2011; Jens-Malte Gottfried <jmgottfried@web.de>
+ +petsc-3.1_p8.ebuild, +files/petsc-3.1_p8-configure-pic.patch:
+ added petsc 3.1-p8 release, fixed configure-pic patch
+
*petsc-3.1_p7 (06 Jan 2011)
06 Jan 2011; Jens-Malte Gottfried <jmgottfried@web.de>
diff --git a/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch b/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch
new file mode 100644
index 0000000..bbfdae1
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch
@@ -0,0 +1,11 @@
+--- config/BuildSystem/config/setCompilers.py.old 2010-09-07 21:41:32.693103846 +0200
++++ config/BuildSystem/config/setCompilers.py 2010-09-07 21:41:45.322093881 +0200
+@@ -875,7 +875,7 @@
+ languages.append('FC')
+ for language in languages:
+ self.pushLanguage(language)
+- for testFlag in ['-PIC', '-fPIC', '-KPIC','-qpic']:
++ for testFlag in ['-fPIC', '-PIC', '-KPIC', '-qpic']:
+ try:
+ self.framework.logPrint('Trying '+language+' compiler flag '+testFlag)
+ if not self.checkLinkerFlag(testFlag):
diff --git a/sci-mathematics/petsc/petsc-3.1_p8.ebuild b/sci-mathematics/petsc/petsc-3.1_p8.ebuild
new file mode 100644
index 0000000..a7566db
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.1_p8.ebuild
@@ -0,0 +1,177 @@
+# Copyright 1999-2011 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=3
+
+inherit flag-o-matic toolchain-funcs
+
+MY_P="${PN}-${PV/_/-}"
+
+DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/petsc-as/"
+SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz"
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="mpi hypre metis hdf5 X cxx debug static-libs fortran doc"
+
+RDEPEND="mpi? ( virtual/mpi[cxx?,fortran?] )
+ X? ( x11-libs/libX11 )
+ virtual/lapack
+ virtual/blas
+ hypre? ( >=sci-mathematics/hypre-2.6.0b[static-libs=] )
+ metis? ( sci-libs/parmetis )
+ hdf5? ( sci-libs/hdf5[!mpi?] )
+"
+
+DEPEND="${RDEPEND}
+ sys-devel/gcc[-nocxx,fortran?]"
+
+S="${WORKDIR}/${MY_P}"
+
+if use hypre; then
+ use cxx || die "hypre needs cxx, please enable cxx or disable hypre use flag"
+ use mpi || die "hypre needs mpi, please enable mpi or disable hypre use flag"
+fi
+
+src_prepare(){
+ epatch "${FILESDIR}/${P}-configure-pic.patch"
+ epatch "${FILESDIR}/${PN}-disable-rpath.patch"
+}
+
+src_configure(){
+ local mylang
+ local myopt
+ local myconf
+
+ use cxx && mylang="cxx" || mylang="c"
+ use debug && myopt="debug" || myopt="opt"
+
+ export PETSC_DIR="${S}" || die
+ export PETSC_ARCH="linux-gnu-${mylang}-${myopt}" || die
+
+ myconf[10]="--with-blas-lapack-lib=$(pkg-config --libs lapack)"
+ myconf[11]="CFLAGS=${CFLAGS}"
+ myconf[12]="CXXFLAGS=${CXXFLAGS}"
+ myconf[13]="LDFLAGS=${LDFLAGS}"
+ myconf[14]="--with-windows-graphics=0"
+ myconf[15]="--with-matlab=0"
+ myconf[16]="--with-python=0"
+ myconf[17]="--with-clanguage=${mylang}"
+ myconf[18]="--with-single-library=1"
+ myconf[19]="--with-petsc-arch=${PETSC_ARCH}"
+ myconf[20]="--with-precision=double"
+ myconf[21]="--with-gnu-compilers=1"
+ use amd64 \
+ && myconf[22]="--with-64-bit-pointers=1" \
+ || myconf[22]="--with-64-bit-pointers=0"
+ use cxx \
+ && myconf[23]="--with-c-support=1"
+ use amd64 \
+ && myconf[24]="--with-64-bit-indices=1" \
+ || myconf[24]="--with-64-bit-indices=0"
+
+ if use mpi; then
+ myconf[30]="--with-cc=/usr/bin/mpicc"
+ myconf[31]="--with-cxx=/usr/bin/mpicxx"
+ use fortran && myconf[32]="--with-fc=/usr/bin/mpif77"
+ myconf[33]="--with-mpi=1"
+ myconf[34]="--with-mpi-compilers=1"
+ else
+ myconf[30]="--with-cc=$(tc-getCC)"
+ myconf[31]="--with-cxx=$(tc-getCXX)"
+ use fortran && myconf[32]="--with-fc=$(tc-getF77)"
+ myconf[33]="--with-mpi=0"
+ fi
+
+ use X \
+ && myconf[40]="--with-X=1" \
+ || myconf[40]="--with-X=0"
+ use static-libs \
+ && myconf[41]="--with-shared=0" \
+ || myconf[41]="--with-shared=1"
+ use fortran \
+ && myconf[43]="--with-fortran=1" \
+ || myconf[43]="--with-fortran=0"
+
+ if use debug; then
+ strip-flags
+ filter-flags -O*
+ myconf[44]="--with-debugging=1"
+ else
+ myconf[44]="--with-debugging=0"
+ fi
+
+ if use hypre; then
+ # hypre cannot handle 64 bit indices, therefore disabled
+ myconf[24]="--with-64-bit-indices=0"
+ myconf[52]="--with-hypre=1"
+ myconf[53]="--with-hypre-include=/usr/include/hypre"
+ use static-libs \
+ && myconf[54]="--with-hypre-lib=/usr/$(get_libdir)/libHYPRE.a" \
+ || myconf[54]="--with-hypre-lib=/usr/$(get_libdir)/libHYPRE.so"
+ else
+ myconf[52]="--with-hypre=0"
+ fi
+
+ if use metis; then
+ myconf[61]="--with-parmetis=1"
+ myconf[62]="--with-parmetis-include=/usr/include/parmetis"
+ myconf[63]="--with-parmetis-lib=/usr/$(get_libdir)/libparmetis.so"
+ else
+ myconf[61]="--with-parmetis=0"
+ fi
+
+ if use hdf5; then
+ myconf[71]="--with-hdf5=1"
+ myconf[72]="--with-hdf5-include=/usr/include"
+ myconf[73]="--with-hdf5-lib=/usr/$(get_libdir)/libhdf5.so"
+ else
+ myconf[71]="--with-hdf5=0"
+ fi
+
+ myconf[81]="--with-scotch=0"
+
+ einfo "Configure options: ${myconf[@]}"
+ python "${S}/config/configure.py" "${myconf[@]}" \
+ || die "PETSc configuration failed"
+}
+
+src_install(){
+ insinto /usr/include/"${PN}"
+ doins "${S}"/include/*.h "${S}"/include/*.hh
+ doins "${S}/${PETSC_ARCH}"/include/*.h
+
+ insinto /usr/include/"${PN}"/private
+ doins "${S}"/include/private/*.h
+
+ # fix paths stored in petscconf.h
+ dosed "s:${S}:/usr:g" /usr/include/"${PN}"/petscconf.h
+ dosed "s:${PETSC_ARCH}/lib:$(get_libdir):g" /usr/include/"${PN}"/petscconf.h \
+
+ if ! use mpi ; then
+ insinto /usr/include/"${PN}"/mpiuni
+ doins "${S}"/include/mpiuni/*.h
+ fi
+
+ if use doc ; then
+ dodoc docs/manual.pdf
+ dohtml -r docs/*.html docs/changes docs/manualpages
+ fi
+
+ use static-libs \
+ && dolib.a "${S}/${PETSC_ARCH}"/lib/*.a \
+ || dolib.so "${S}/${PETSC_ARCH}"/lib/*.so
+}
+
+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"
+ elog "This ebuild is known to have parallel build issues, "
+ elog "hopefully resolved by upstream soon."
+ elog "Another problem is that you can break this package by"
+ elog "switching your mpi implementation without rebuild petsc."
+}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2012-03-01 17:54 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2012-03-01 17:54 UTC (permalink / raw
To: gentoo-commits
commit: 43c2b626dd412374d7cf5d9c0bffe4b438d1139d
Author: Jens-Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Thu Mar 1 17:07:58 2012 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Thu Mar 1 17:07:58 2012 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=43c2b626
added new petsc 3.2-p6 ebuild
---
sci-mathematics/petsc/ChangeLog | 7 +++++
.../petsc/files/petsc-3.1_p8-configure-pic.patch | 11 -------
.../petsc/files/petsc-configure-pic.patch | 4 +-
sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild | 2 +-
...{petsc-3.1_p8-r1.ebuild => petsc-3.2_p6.ebuild} | 29 +++++++++----------
5 files changed, 24 insertions(+), 29 deletions(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index 7826fc6..3a12aab 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -2,6 +2,13 @@
# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+*petsc-3.2_p6 (01 Mar 2012)
+
+ 01 Mar 2012; Jens-Malte Gottfried <jmgottfried@web.de>
+ petsc-3.1_p8-r1.ebuild, -files/petsc-3.1_p8-configure-pic.patch,
+ +petsc-3.2_p6.ebuild, files/petsc-configure-pic.patch:
+ added new petsc 3.2-p6 ebuild
+
23 Jan 2012; Sébastien Fabbro <bicatali@gentoo.org> -petsc-3.1_p4.ebuild,
-petsc-3.1_p5-r2.ebuild, -petsc-3.1_p7.ebuild, -petsc-3.1_p8.ebuild,
petsc-3.1_p8-r1.ebuild:
diff --git a/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch b/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch
deleted file mode 100644
index bbfdae1..0000000
--- a/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- config/BuildSystem/config/setCompilers.py.old 2010-09-07 21:41:32.693103846 +0200
-+++ config/BuildSystem/config/setCompilers.py 2010-09-07 21:41:45.322093881 +0200
-@@ -875,7 +875,7 @@
- languages.append('FC')
- for language in languages:
- self.pushLanguage(language)
-- for testFlag in ['-PIC', '-fPIC', '-KPIC','-qpic']:
-+ for testFlag in ['-fPIC', '-PIC', '-KPIC', '-qpic']:
- try:
- self.framework.logPrint('Trying '+language+' compiler flag '+testFlag)
- if not self.checkLinkerFlag(testFlag):
diff --git a/sci-mathematics/petsc/files/petsc-configure-pic.patch b/sci-mathematics/petsc/files/petsc-configure-pic.patch
index 51e1132..bbfdae1 100644
--- a/sci-mathematics/petsc/files/petsc-configure-pic.patch
+++ b/sci-mathematics/petsc/files/petsc-configure-pic.patch
@@ -4,8 +4,8 @@
languages.append('FC')
for language in languages:
self.pushLanguage(language)
-- for testFlag in ['-PIC', '-fPIC', '-KPIC']:
-+ for testFlag in ['-fPIC', '-PIC', '-KPIC']:
+- for testFlag in ['-PIC', '-fPIC', '-KPIC','-qpic']:
++ for testFlag in ['-fPIC', '-PIC', '-KPIC', '-qpic']:
try:
self.framework.logPrint('Trying '+language+' compiler flag '+testFlag)
if not self.checkLinkerFlag(testFlag):
diff --git a/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild b/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
index ddd7a4c..5de7a82 100644
--- a/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
@@ -37,7 +37,7 @@ if use hypre; then
fi
src_prepare(){
- epatch "${FILESDIR}/${P}-configure-pic.patch"
+ epatch "${FILESDIR}/${PN}-configure-pic.patch"
epatch "${FILESDIR}/${PN}-disable-rpath.patch"
}
diff --git a/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild b/sci-mathematics/petsc/petsc-3.2_p6.ebuild
similarity index 88%
copy from sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
copy to sci-mathematics/petsc/petsc-3.2_p6.ebuild
index ddd7a4c..178b6bc 100644
--- a/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.2_p6.ebuild
@@ -27,7 +27,9 @@ RDEPEND="mpi? ( virtual/mpi[cxx?,fortran?] )
"
DEPEND="${RDEPEND}
- sys-devel/gcc[-nocxx,fortran?]"
+ sys-devel/gcc[-nocxx,fortran?]
+ dev-util/cmake
+"
S="${WORKDIR}/${MY_P}"
@@ -37,7 +39,7 @@ if use hypre; then
fi
src_prepare(){
- epatch "${FILESDIR}/${P}-configure-pic.patch"
+ epatch "${FILESDIR}/${PN}-configure-pic.patch"
epatch "${FILESDIR}/${PN}-disable-rpath.patch"
}
@@ -64,14 +66,15 @@ src_configure(){
myconf[19]="--with-petsc-arch=${PETSC_ARCH}"
myconf[20]="--with-precision=double"
myconf[21]="--with-gnu-compilers=1"
+ myconf[22]="--with-cmake=/usr/bin/cmake"
use amd64 \
- && myconf[22]="--with-64-bit-pointers=1" \
- || myconf[22]="--with-64-bit-pointers=0"
+ && myconf[23]="--with-64-bit-pointers=1" \
+ || myconf[23]="--with-64-bit-pointers=0"
use cxx \
- && myconf[23]="--with-c-support=1"
+ && myconf[24]="--with-c-support=1"
use amd64 \
- && myconf[24]="--with-64-bit-indices=1" \
- || myconf[24]="--with-64-bit-indices=0"
+ && myconf[25]="--with-64-bit-indices=1" \
+ || myconf[25]="--with-64-bit-indices=0"
if use mpi; then
myconf[30]="--with-cc=/usr/bin/mpicc"
@@ -90,8 +93,8 @@ src_configure(){
&& myconf[40]="--with-X=1" \
|| myconf[40]="--with-X=0"
use static-libs \
- && myconf[41]="--with-shared=0" \
- || myconf[41]="--with-shared=1"
+ && myconf[41]="--with-shared-libraries=0" \
+ || myconf[41]="--with-shared-libraries=1"
use fortran \
&& myconf[43]="--with-fortran=1" \
|| myconf[43]="--with-fortran=0"
@@ -106,7 +109,7 @@ src_configure(){
if use hypre; then
# hypre cannot handle 64 bit indices, therefore disabled
- myconf[24]="--with-64-bit-indices=0"
+ myconf[25]="--with-64-bit-indices=0"
myconf[52]="--with-hypre=1"
myconf[53]="--with-hypre-include=/usr/include/hypre"
use static-libs \
@@ -118,7 +121,7 @@ src_configure(){
if use metis; then
# parmetis cannot handle 64 bit indices, therefore disabled
- myconf[24]="--with-64-bit-indices=0"
+ myconf[25]="--with-64-bit-indices=0"
myconf[61]="--with-parmetis=1"
myconf[62]="--with-parmetis-include=/usr/include/parmetis"
myconf[63]="--with-parmetis-lib=/usr/$(get_libdir)/libparmetis.so"
@@ -194,8 +197,4 @@ 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"
- elog "This ebuild is known to have parallel build issues, "
- elog "hopefully resolved by upstream soon."
- elog "Another problem is that you can break this package by"
- elog "switching your mpi implementation without rebuild petsc."
}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2012-03-04 12:38 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2012-03-04 12:38 UTC (permalink / raw
To: gentoo-commits
commit: b1a67c63567b4cfa7aa8680bcfda77125ecb0de8
Author: Jens-Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Sun Mar 4 12:35:34 2012 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Sun Mar 4 12:35:34 2012 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=b1a67c63
fixed undefined reference when using afterimage
Still broken (waiting for upstream):
- imagemagick
- boost
- sparse
---
.../petsc/files/petsc-fix-afterimage.patch | 71 ++++++++++++++++++++
sci-mathematics/petsc/files/petsc-fix-xops.patch | 21 ++++++
sci-mathematics/petsc/petsc-3.2_p6.ebuild | 7 ++-
3 files changed, 98 insertions(+), 1 deletions(-)
diff --git a/sci-mathematics/petsc/files/petsc-fix-afterimage.patch b/sci-mathematics/petsc/files/petsc-fix-afterimage.patch
new file mode 100644
index 0000000..27f4d3b
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-fix-afterimage.patch
@@ -0,0 +1,71 @@
+
+# HG changeset patch
+# User Jed Brown <jed@59A2.org>
+# Date 1330818004 21600
+# Node ID fb79e104b74267c74aa64f125e7eb6a64bce4b14
+# Parent 8242202a123dd2cbfea7a4a2a9a1797951306f8d
+Fixes for libAfterImage compilation, ImageMagick is still just a stub
+
+diff -r 8242202a123d -r fb79e104b742 config/PETSc/packages/afterimage.py
+--- a/config/PETSc/packages/afterimage.py Sat Mar 03 16:05:00 2012 -0600
++++ b/config/PETSc/packages/afterimage.py Sat Mar 03 17:40:04 2012 -0600
+@@ -9,6 +9,7 @@
+ self.includedir = ''
+ self.libdir = '../../lib'
+ self.double = 0
++ self.complex = 1
+
+ def setupDependencies(self, framework):
+ PETSc.package.NewPackage.setupDependencies(self, framework)
+diff -r 8242202a123d -r fb79e104b742 config/PETSc/packages/imagemagick.py
+--- a/config/PETSc/packages/imagemagick.py Sat Mar 03 16:05:00 2012 -0600
++++ b/config/PETSc/packages/imagemagick.py Sat Mar 03 17:40:04 2012 -0600
+@@ -4,8 +4,8 @@
+ def __init__(self, framework):
+ PETSc.package.NewPackage.__init__(self, framework)
+ self.functions = ['IsMagickInstantiated']
+- self.includes = ['MagicCore/MagickCore.h']
+- self.liblist = [['libMagicCore.a']]
++ self.includes = ['magick/MagickCore.h']
++ self.liblist = [['libMagickCore.a']]
+
+
+
+diff -r 8242202a123d -r fb79e104b742 src/sys/draw/impls/x/xinit.c
+--- a/src/sys/draw/impls/x/xinit.c Sat Mar 03 16:05:00 2012 -0600
++++ b/src/sys/draw/impls/x/xinit.c Sat Mar 03 17:40:04 2012 -0600
+@@ -291,7 +291,7 @@
+ #include <afterimage.h>
+ #undef __FUNCT__
+ #define __FUNCT__ "PetscDrawSave_X"
+-PetscErrorCode PetscDrawSave_X(PetscDraw draw,PetscViewer viewer)
++PetscErrorCode PetscDrawSave_X(PetscDraw draw)
+ {
+ PetscDraw_X *drawx = (PetscDraw_X*)draw->data;
+ XImage *image;
+@@ -328,10 +328,10 @@
+ void deflateEnd(void) {;}
+
+ #elif defined(PETSC_HAVE_IMAGEMAGICK)
+-#include <MagicCore/MagickCore.h>
++#include <magick/MagickCore.h>
+ #undef __FUNCT__
+ #define __FUNCT__ "PetscDrawSave_X"
+-PetscErrorCode PetscDrawSave_X(PetscDraw draw,PetscViewer viewer)
++PetscErrorCode PetscDrawSave_X(PetscDraw draw)
+ {
+ PetscDraw_X *drawx = (PetscDraw_X*)draw->data;
+ Image *image;
+diff -r 8242202a123d -r fb79e104b742 src/sys/draw/impls/x/xops.c
+--- a/src/sys/draw/impls/x/xops.c Sat Mar 03 16:05:00 2012 -0600
++++ b/src/sys/draw/impls/x/xops.c Sat Mar 03 17:40:04 2012 -0600
+@@ -551,7 +551,7 @@
+ PetscFunctionReturn(0);
+ }
+
+-PetscErrorCode PetscDrawSave_X(PetscDraw,PetscViewer);
++PetscErrorCode PetscDrawSave_X(PetscDraw);
+ PetscErrorCode PetscDrawSetSave_X(PetscDraw,const char*);
+
+ static struct _PetscDrawOps DvOps = { PetscDrawSetDoubleBuffer_X,
+
diff --git a/sci-mathematics/petsc/files/petsc-fix-xops.patch b/sci-mathematics/petsc/files/petsc-fix-xops.patch
new file mode 100644
index 0000000..cd2edeb
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-fix-xops.patch
@@ -0,0 +1,21 @@
+
+# HG changeset patch
+# User Jed Brown <jed@59A2.org>
+# Date 1330812300 21600
+# Node ID 8242202a123dd2cbfea7a4a2a9a1797951306f8d
+# Parent 759927945bb3cdd30ff4265c043264db5286d263
+Fix declaration of PetscDrawSave_X()
+
+diff -r 759927945bb3 -r 8242202a123d src/sys/draw/impls/x/xops.c
+--- a/src/sys/draw/impls/x/xops.c Fri Mar 02 11:10:34 2012 -0600
++++ b/src/sys/draw/impls/x/xops.c Sat Mar 03 16:05:00 2012 -0600
+@@ -551,7 +551,7 @@
+ PetscFunctionReturn(0);
+ }
+
+-PetscErrorCode PetscDrawSave_X(PetscDraw);
++PetscErrorCode PetscDrawSave_X(PetscDraw,PetscViewer);
+ PetscErrorCode PetscDrawSetSave_X(PetscDraw,const char*);
+
+ static struct _PetscDrawOps DvOps = { PetscDrawSetDoubleBuffer_X,
+
diff --git a/sci-mathematics/petsc/petsc-3.2_p6.ebuild b/sci-mathematics/petsc/petsc-3.2_p6.ebuild
index d3aecb0..0d972ed 100644
--- a/sci-mathematics/petsc/petsc-3.2_p6.ebuild
+++ b/sci-mathematics/petsc/petsc-3.2_p6.ebuild
@@ -16,11 +16,12 @@ LICENSE="petsc"
SLOT="0"
KEYWORDS="~x86 ~amd64"
IUSE="afterimage boost complex-scalars cxx debug doc \
- fortran hdf5 hypre metis mpi sparse threads X"
+ imagemagick fortran hdf5 hypre metis mpi sparse threads X"
REQUIRED_USE="
hypre? ( cxx mpi )
hdf5? ( mpi )
+ imagemagick? ( X )
afterimage? ( X )
"
@@ -33,6 +34,7 @@ RDEPEND="mpi? ( virtual/mpi[cxx?,fortran?] )
hdf5? ( sci-libs/hdf5 )
boost? ( dev-libs/boost )
afterimage? ( media-libs/libafterimage )
+ imagemagick? ( media-gfx/imagemagick )
sparse? ( sci-libs/cholmod )
"
@@ -47,6 +49,8 @@ src_prepare(){
epatch "${FILESDIR}/${PN}-configure-pic.patch"
epatch "${FILESDIR}/${PN}-disable-env-warnings.patch"
epatch "${FILESDIR}/${PN}-disable-rpath.patch"
+ epatch "${FILESDIR}/${PN}-fix-xops.patch"
+ epatch "${FILESDIR}/${PN}-fix-afterimage.patch"
}
src_configure(){
@@ -126,6 +130,7 @@ src_configure(){
$(petsc_with boost) \
$(petsc_with hdf5) \
$(petsc_with hypre hypre /usr/$(get_libdir)/libHYPRE.so /usr/include/hypre) \
+ $(petsc_with imagemagick imagemagick /usr/$(get_libdir)/libMagickCore.so /usr/include/ImageMagick) \
$(petsc_with metis parmetis) \
$(petsc_with X x) \
$(petsc_with X x11) \
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2012-03-05 23:09 Sebastien Fabbro
0 siblings, 0 replies; 19+ messages in thread
From: Sebastien Fabbro @ 2012-03-05 23:09 UTC (permalink / raw
To: gentoo-commits
commit: 89b7dd283efdef57df57685a6482a77551c65333
Author: Sébastien Fabbro <sebfabbro <AT> gmail <DOT> com>
AuthorDate: Mon Mar 5 23:09:44 2012 +0000
Commit: Sebastien Fabbro <bicatali <AT> gentoo <DOT> org>
CommitDate: Mon Mar 5 23:09:44 2012 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=89b7dd28
sci-mathematics/petsc: more cleaning
---
sci-mathematics/petsc/ChangeLog | 12 ++
...-pic.patch => petsc-3.2_p6-configure-pic.patch} | 0
...tch => petsc-3.2_p6-disable-env-warnings.patch} | 0
...path.patch => petsc-3.2_p6-disable-rpath.patch} | 0
...age.patch => petsc-3.2_p6-fix-afterimage.patch} | 0
.../petsc/files/petsc-3.2_p6-fix-imagemagick.patch | 24 ++++
...-fix-xops.patch => petsc-3.2_p6-fix-xops.patch} | 0
sci-mathematics/petsc/petsc-3.2_p6.ebuild | 133 +++++++++++---------
8 files changed, 107 insertions(+), 62 deletions(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index 3a12aab..5d1f4a9 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -2,6 +2,18 @@
# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 05 Mar 2012; Sébastien Fabbro <bicatali@gentoo.org> petsc-3.2_p6.ebuild,
+ +files/petsc-3.2_p6-configure-pic.patch,
+ +files/petsc-3.2_p6-disable-env-warnings.patch,
+ +files/petsc-3.2_p6-disable-rpath.patch,
+ +files/petsc-3.2_p6-fix-afterimage.patch,
+ +files/petsc-3.2_p6-fix-imagemagick.patch,
+ +files/petsc-3.2_p6-fix-xops.patch, -files/petsc-configure-pic.patch,
+ -files/petsc-disable-env-warnings.patch, -files/petsc-disable-rpath.patch,
+ -files/petsc-fix-afterimage.patch, -files/petsc-fix-xops.patch:
+ Added EPREFIX love, remove extra quotes, added imagemagick use flag, more
+ cleaning
+
*petsc-3.2_p6 (01 Mar 2012)
01 Mar 2012; Jens-Malte Gottfried <jmgottfried@web.de>
diff --git a/sci-mathematics/petsc/files/petsc-configure-pic.patch b/sci-mathematics/petsc/files/petsc-3.2_p6-configure-pic.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-configure-pic.patch
rename to sci-mathematics/petsc/files/petsc-3.2_p6-configure-pic.patch
diff --git a/sci-mathematics/petsc/files/petsc-disable-env-warnings.patch b/sci-mathematics/petsc/files/petsc-3.2_p6-disable-env-warnings.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-disable-env-warnings.patch
rename to sci-mathematics/petsc/files/petsc-3.2_p6-disable-env-warnings.patch
diff --git a/sci-mathematics/petsc/files/petsc-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.2_p6-disable-rpath.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-disable-rpath.patch
rename to sci-mathematics/petsc/files/petsc-3.2_p6-disable-rpath.patch
diff --git a/sci-mathematics/petsc/files/petsc-fix-afterimage.patch b/sci-mathematics/petsc/files/petsc-3.2_p6-fix-afterimage.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-fix-afterimage.patch
rename to sci-mathematics/petsc/files/petsc-3.2_p6-fix-afterimage.patch
diff --git a/sci-mathematics/petsc/files/petsc-3.2_p6-fix-imagemagick.patch b/sci-mathematics/petsc/files/petsc-3.2_p6-fix-imagemagick.patch
new file mode 100644
index 0000000..0e17f89
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.2_p6-fix-imagemagick.patch
@@ -0,0 +1,24 @@
+--- config/PETSc/packages/imagemagick.py.orig 2012-01-22 17:25:36.440142627 +0000
++++ config/PETSc/packages/imagemagick.py 2012-01-22 17:26:26.091417306 +0000
+@@ -4,8 +4,8 @@
+ def __init__(self, framework):
+ PETSc.package.NewPackage.__init__(self, framework)
+ self.functions = ['IsMagickInstantiated']
+- self.includes = ['MagicCore/MagickCore.h']
+- self.liblist = [['libMagicCore.a']]
++ self.includes = ['MagickCore/MagickCore.h']
++ self.liblist = [['libMagickCore.a']]
+
+
+
+--- src/sys/draw/impls/x/xinit.c.orig 2012-01-22 17:25:46.230393969 +0000
++++ src/sys/draw/impls/x/xinit.c 2012-01-22 17:26:26.091417306 +0000
+@@ -328,7 +328,7 @@
+ void deflateEnd(void) {;}
+
+ #elif defined(PETSC_HAVE_IMAGEMAGICK)
+-#include <MagicCore/MagickCore.h>
++#include <MagickCore/MagickCore.h>
+ #undef __FUNCT__
+ #define __FUNCT__ "PetscDrawSave_X"
+ PetscErrorCode PetscDrawSave_X(PetscDraw draw,PetscViewer viewer)
diff --git a/sci-mathematics/petsc/files/petsc-fix-xops.patch b/sci-mathematics/petsc/files/petsc-3.2_p6-fix-xops.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-fix-xops.patch
rename to sci-mathematics/petsc/files/petsc-3.2_p6-fix-xops.patch
diff --git a/sci-mathematics/petsc/petsc-3.2_p6.ebuild b/sci-mathematics/petsc/petsc-3.2_p6.ebuild
index 5426f69..51a3559 100644
--- a/sci-mathematics/petsc/petsc-3.2_p6.ebuild
+++ b/sci-mathematics/petsc/petsc-3.2_p6.ebuild
@@ -4,20 +4,20 @@
EAPI=4
-inherit flag-o-matic fortran-2 toolchain-funcs
+inherit eutils flag-o-matic fortran-2 toolchain-funcs versionator
-MY_P="${PN}-${PV/_/-}"
+MY_P="${PN}-$(replace_version_separator _ -)"
DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
-HOMEPAGE="http://www.mcs.anl.gov/petsc/petsc-as/"
+HOMEPAGE="http://www.mcs.anl.gov/petsc/"
SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz"
LICENSE="petsc"
SLOT="0"
KEYWORDS="~x86 ~amd64"
-IUSE="afterimage complex-scalars cxx debug doc \
- fortran hdf5 hypre metis mpi sparse superlu threads X"
-# Failed: boost imagemagick
+IUSE="afterimage complex-scalars cxx debug doc
+ fortran hdf5 hypre imagemagick metis mpi sparse superlu threads X"
+# Failed: boost
# hypre and superlu curretly exclude each other due to missing linking to hypre
# if both are enabled
@@ -25,54 +25,58 @@ REQUIRED_USE="
hypre? ( cxx mpi )
hdf5? ( mpi )
afterimage? ( X )
+ imagemagick? ( X )
^^ ( hypre superlu )
"
-# imagemagick? ( X )
-RDEPEND="mpi? ( virtual/mpi[cxx?,fortran?] )
- X? ( x11-libs/libX11 )
- virtual/lapack
+RDEPEND="
virtual/blas
- hypre? ( sci-libs/hypre )
- metis? ( sci-libs/parmetis )
- hdf5? ( sci-libs/hdf5 )
+ virtual/lapack
afterimage? ( media-libs/libafterimage )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( sci-libs/hypre[mpi?] )
+ imagemagick? ( media-gfx/imagemagick )
+ metis? ( sci-libs/parmetis )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
"
# boost? ( dev-libs/boost )
-# imagemagick? ( media-gfx/imagemagick )
DEPEND="${RDEPEND}
- sys-devel/gcc[-nocxx,fortran?]
- dev-util/cmake
+ virtual/fortran
+ dev-lang/python
+ dev-util/pkgconfig
"
S="${WORKDIR}/${MY_P}"
-src_prepare(){
- epatch "${FILESDIR}/${PN}-configure-pic.patch"
- epatch "${FILESDIR}/${PN}-disable-env-warnings.patch"
- epatch "${FILESDIR}/${PN}-disable-rpath.patch"
- epatch "${FILESDIR}/${PN}-fix-xops.patch"
- epatch "${FILESDIR}/${PN}-fix-afterimage.patch"
+src_prepare() {
+ epatch \
+ "${FILESDIR}"/${P}-configure-pic.patch \
+ "${FILESDIR}"/${P}-disable-env-warnings.patch \
+ "${FILESDIR}"/${P}-disable-rpath.patch \
+ "${FILESDIR}"/${P}-fix-xops.patch \
+ "${FILESDIR}"/${P}-fix-afterimage.patch
}
-src_configure(){
+src_configure() {
# petsc uses --with-blah=1 and --with-blah=0 to en/disable options
- petsc_enable(){
+ petsc_enable() {
use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0"
}
# add external library:
# petsc_with use_flag libname libdir
- # petsc_with use_flag libname lib include
+ # petsc_with use_flag libname include linking_libs
petsc_with() {
local myuse p=${2:-${1}}
if use ${1}; then
myuse="--with-${p}=1"
- if [[ $# == 4 ]]; then
- myuse="${myuse} --with-${p}-lib=\"${3}\""
- myuse="${myuse} --with-${p}-include=${4}"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${3}"
+ shift 3
+ myuse="${myuse} --with-${p}-lib=\"$@\""
else
myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}"
fi
@@ -81,6 +85,7 @@ src_configure(){
fi
echo ${myuse}
}
+
# select between configure options depending on use flag
petsc_select() {
use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4"
@@ -115,71 +120,75 @@ src_configure(){
--with-gnu-compilers \
--with-blas-lapack-lib="$(pkg-config --libs lapack)" \
$(petsc_enable debug debugging) \
+ $(petsc_with imagemagick imagemagick /usr/include/ImageMagick $(pkg-config --libs MagickCore)) \
$(petsc_enable mpi) \
- $(petsc_select mpi cc /usr/bin/mpicc $(tc-getCC)) \
- $(petsc_select mpi cxx /usr/bin/mpicxx $(tc-getCXX)) \
+ $(petsc_select mpi cc mpicc $(tc-getCC)) \
+ $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
$(petsc_enable fortran) \
- $(use fortran && echo "$(petsc_select mpi fc /usr/bin/mpif77 $(tc-getF77))") \
+ $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
$(petsc_enable mpi mpi-compilers) \
$(petsc_enable threads pthread) \
$(petsc_enable threads pthreadclasses) \
$(petsc_select complex-scalars scalar-type complex real) \
--with-windows-graphics=0 \
--with-matlab=0 \
- --with-python=0 \
- --with-cmake=/usr/bin/cmake \
- $(petsc_with afterimage afterimage \
- /usr/$(get_libdir)/libAfterImage.so /usr/include/libAfterImage) \
+ --with-python=0 \ # why not?
+ --with-cmake=cmake \ # what for?
+ $(petsc_with afterimage afterimage /usr/include/libAfterImage -lAfterImage) \
$(petsc_with hdf5) \
- $(petsc_with hypre hypre /usr/$(get_libdir)/libHYPRE.so /usr/include/hypre) \
+ $(petsc_with hypre hypre /usr/include/hypre -lHYPRE) \
$(petsc_with metis parmetis) \
$(petsc_with sparse cholmod) \
- $(petsc_with superlu superlu /usr/$(get_libdir)/libsuperlu.so /usr/include/superlu) \
+ $(petsc_with superlu superlu /usr/include/superlu -lsuperlu) \
$(petsc_with X x) \
$(petsc_with X x11) \
- --with-scotch=0
+ --with-scotch=0 # why not?
# failed dependencies, perhaps fixed in upstream soon:
# $(petsc_with boost) \
-# $(petsc_with imagemagick imagemagick /usr/$(get_libdir)/libMagickCore.so /usr/include/ImageMagick) \
}
-src_install(){
+src_install() {
# petsc install structure is very different from
# installing headers to /usr/include/petsc and lib to /usr/lib
# it also installs many unneeded executables and scripts
# so manual install is easier than cleanup after "emake install"
- insinto /usr/include/"${PN}"
- doins "${S}"/include/*.h "${S}"/include/*.hh
- insinto /usr/include/"${PN}/${PETSC_ARCH}"/include
- doins "${S}/${PETSC_ARCH}"/include/*
+ insinto /usr/include/${PN}
+ doins include/*.h*
+ insinto /usr/include/${PN}/${PETSC_ARCH}/include
+ doins ${PETSC_ARCH}/include/*
if use fortran; then
- insinto /usr/include/"${PN}"/finclude
- doins "${S}"/include/finclude/*.h
+ insinto /usr/include/${PN}/finclude
+ doins include/finclude/*.h
fi
- insinto /usr/include/"${PN}"/conf
- doins "${S}"/conf/{variables,rules,test}
- insinto /usr/include/"${PN}/${PETSC_ARCH}"/conf
- doins "${S}/${PETSC_ARCH}"/conf/{petscrules,petscvariables,RDict.db}
- insinto /usr/include/"${PN}"/private
- doins "${S}"/include/private/*.h
+ insinto /usr/include/${PN}/conf
+ doins conf/{variables,rules,test}
+ insinto /usr/include/${PN}/${PETSC_ARCH}/conf
+ doins ${PETSC_ARCH}/conf/{petscrules,petscvariables,RDict.db}
+ insinto /usr/include/${PN}/private
+ doins include/private/*.h
# fix configuration files: replace ${S} by installed location
- sed -i "s:${S}:/usr:g" ${D}/usr/include/"${PN}/${PETSC_ARCH}"/include/petscconf.h
- sed -i "s:${PETSC_ARCH}/lib:$(get_libdir):g" ${D}/usr/include/"${PN}/${PETSC_ARCH}"/include/petscconf.h
- sed -i "s:INSTALL_DIR =.*:INSTALL_DIR = /usr:" ${D}/usr/include/"${PN}/${PETSC_ARCH}"/conf/petscvariables
+ sed -i \
+ -e "s:${S}::g" \
+ "${ED}"/usr/include/${PN}/${PETSC_ARCH}/include/petscconf.h \
+ "${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
+
# add information about installation directory and
# PETSC_ARCH to environmental variables
- cat >> "${T}"/99petsc <<- EOF
- PETSC_ARCH=${PETSC_ARCH}
- PETSC_DIR=/usr/include/${PN}
+ cat >> 99petsc <<- EOF
+ PETSC_ARCH=${PETSC_ARCH}
+ PETSC_DIR=${EPREFIX}/usr/include/${PN}
EOF
- doenvd "${T}"/99petsc
+ doenvd 99petsc
if ! use mpi ; then
- insinto /usr/include/"${PN}"/mpiuni
- doins "${S}"/include/mpiuni/*.h
+ insinto /usr/include/${PN}/mpiuni
+ doins include/mpiuni/*.h
fi
if use doc ; then
@@ -187,7 +196,7 @@ src_install(){
dohtml -r docs/*.html docs/changes docs/manualpages
fi
- dolib.so "${S}/${PETSC_ARCH}"/lib/*.so
+ dolib.so ${PETSC_ARCH}/lib/*.so
}
pkg_postinst() {
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2012-03-06 23:09 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2012-03-06 23:09 UTC (permalink / raw
To: gentoo-commits
commit: 2b3b883f45078a95cc0fc07f3cd9b2104575e6b5
Author: Jens-Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Tue Mar 6 23:08:49 2012 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Tue Mar 6 23:08:49 2012 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=2b3b883f
fixed petsc 3.1 ebuild (missing patch files)
---
sci-mathematics/petsc/ChangeLog | 5 +++++
.../petsc/files/petsc-3.1_p8-configure-pic.patch | 11 +++++++++++
.../petsc/files/petsc-3.1_p8-disable-rpath.patch | 16 ++++++++++++++++
sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild | 5 +++--
4 files changed, 35 insertions(+), 2 deletions(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index 5d1f4a9..4bc96b9 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -2,6 +2,11 @@
# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 06 Mar 2012; Jens-Malte Gottfried <jmgottfried@web.de>
+ petsc-3.1_p8-r1.ebuild, +files/petsc-3.1_p8-configure-pic.patch,
+ +files/petsc-3.1_p8-disable-rpath.patch:
+ fixed legacy ebuild of petsc 3.1
+
05 Mar 2012; Sébastien Fabbro <bicatali@gentoo.org> petsc-3.2_p6.ebuild,
+files/petsc-3.2_p6-configure-pic.patch,
+files/petsc-3.2_p6-disable-env-warnings.patch,
diff --git a/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch b/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch
new file mode 100644
index 0000000..bbfdae1
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch
@@ -0,0 +1,11 @@
+--- config/BuildSystem/config/setCompilers.py.old 2010-09-07 21:41:32.693103846 +0200
++++ config/BuildSystem/config/setCompilers.py 2010-09-07 21:41:45.322093881 +0200
+@@ -875,7 +875,7 @@
+ languages.append('FC')
+ for language in languages:
+ self.pushLanguage(language)
+- for testFlag in ['-PIC', '-fPIC', '-KPIC','-qpic']:
++ for testFlag in ['-fPIC', '-PIC', '-KPIC', '-qpic']:
+ try:
+ self.framework.logPrint('Trying '+language+' compiler flag '+testFlag)
+ if not self.checkLinkerFlag(testFlag):
diff --git a/sci-mathematics/petsc/files/petsc-3.1_p8-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.1_p8-disable-rpath.patch
new file mode 100644
index 0000000..3c443b2
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.1_p8-disable-rpath.patch
@@ -0,0 +1,16 @@
+--- config/BuildSystem/config/setCompilers.py 2010-11-24 18:01:17.110124425 +0100
++++ config/BuildSystem/config/setCompilers.py 2010-11-24 18:02:28.710104226 +0100
+@@ -1186,12 +1186,7 @@
+ 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/petsc-3.1_p8-r1.ebuild b/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
index 5de7a82..818cff1 100644
--- a/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
@@ -37,8 +37,9 @@ if use hypre; then
fi
src_prepare(){
- epatch "${FILESDIR}/${PN}-configure-pic.patch"
- epatch "${FILESDIR}/${PN}-disable-rpath.patch"
+ epatch \
+ "${FILESDIR}"/${P}-configure-pic.patch \
+ "${FILESDIR}"/${P}-disable-rpath.patch
}
src_configure(){
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2012-06-09 6:16 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2012-06-09 6:16 UTC (permalink / raw
To: gentoo-commits
commit: 1371aba9c0fb3b2e47fe3f91d06c4c92cb5b026a
Author: Jens-Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Sat Jun 9 06:15:51 2012 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Sat Jun 9 06:15:51 2012 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=1371aba9
added petsc-3.3-p0 ebuild
still needs testing
---
.../petsc/files/petsc-3.3_p0-configure-pic.patch | 11 +
.../files/petsc-3.3_p0-disable-env-warnings.patch | 13 ++
.../petsc/files/petsc-3.3_p0-disable-rpath.patch | 16 ++
sci-mathematics/petsc/petsc-3.3_p0.ebuild | 213 ++++++++++++++++++++
4 files changed, 253 insertions(+), 0 deletions(-)
diff --git a/sci-mathematics/petsc/files/petsc-3.3_p0-configure-pic.patch b/sci-mathematics/petsc/files/petsc-3.3_p0-configure-pic.patch
new file mode 100644
index 0000000..bbfdae1
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.3_p0-configure-pic.patch
@@ -0,0 +1,11 @@
+--- config/BuildSystem/config/setCompilers.py.old 2010-09-07 21:41:32.693103846 +0200
++++ config/BuildSystem/config/setCompilers.py 2010-09-07 21:41:45.322093881 +0200
+@@ -875,7 +875,7 @@
+ languages.append('FC')
+ for language in languages:
+ self.pushLanguage(language)
+- for testFlag in ['-PIC', '-fPIC', '-KPIC','-qpic']:
++ for testFlag in ['-fPIC', '-PIC', '-KPIC', '-qpic']:
+ try:
+ self.framework.logPrint('Trying '+language+' compiler flag '+testFlag)
+ if not self.checkLinkerFlag(testFlag):
diff --git a/sci-mathematics/petsc/files/petsc-3.3_p0-disable-env-warnings.patch b/sci-mathematics/petsc/files/petsc-3.3_p0-disable-env-warnings.patch
new file mode 100644
index 0000000..d2ee44e
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.3_p0-disable-env-warnings.patch
@@ -0,0 +1,13 @@
+Index: petsc-3.2-p6/config/BuildSystem/config/setCompilers.py
+===================================================================
+--- petsc-3.2-p6.orig/config/BuildSystem/config/setCompilers.py
++++ petsc-3.2-p6/config/BuildSystem/config/setCompilers.py
+@@ -1463,7 +1463,7 @@ This way - mpi compilers from '''+self.a
+ 'LDFLAGS','LIBS','MPI_DIR']
+ for envVal in ignoreEnv:
+ if envVal in os.environ:
+- self.logPrintBox('***** WARNING: '+envVal+' found in enviornment variables - ignoring ******')
++ #self.logPrintBox('***** WARNING: '+envVal+' found in enviornment variables - ignoring ******')
+ del os.environ[envVal]
+ return
+
diff --git a/sci-mathematics/petsc/files/petsc-3.3_p0-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.3_p0-disable-rpath.patch
new file mode 100644
index 0000000..3c443b2
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.3_p0-disable-rpath.patch
@@ -0,0 +1,16 @@
+--- config/BuildSystem/config/setCompilers.py 2010-11-24 18:01:17.110124425 +0100
++++ config/BuildSystem/config/setCompilers.py 2010-11-24 18:02:28.710104226 +0100
+@@ -1186,12 +1186,7 @@
+ 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/petsc-3.3_p0.ebuild b/sci-mathematics/petsc/petsc-3.3_p0.ebuild
new file mode 100644
index 0000000..285fe6b
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.3_p0.ebuild
@@ -0,0 +1,213 @@
+# Copyright 1999-2012 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=4
+
+inherit base 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/${MY_P}.tar.gz"
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage complex-scalars cxx debug doc
+ fortran hdf5 hypre mpi sparse superlu threads X"
+# Failed: boost imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ hypre? ( cxx mpi )
+ hdf5? ( mpi )
+ afterimage? ( X )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# boost? ( dev-libs/boost )
+# metis? ( sci-libs/parmetis )
+# imagemagick? ( media-gfx/imagemagick )
+
+DEPEND="${RDEPEND}
+ virtual/fortran
+ dev-lang/python
+ dev-util/pkgconfig
+ dev-util/cmake
+"
+# cmake is used for parralel building
+# in some configuration setups, legacy build is used (slow)
+
+S="${WORKDIR}/${MY_P}"
+
+PATCHES=(
+ "${FILESDIR}"/${P}-configure-pic.patch
+ "${FILESDIR}"/${P}-disable-env-warnings.patch
+ "${FILESDIR}"/${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:-$1}=0"
+ }
+ # add external library:
+ # petsc_with use_flag libname libdir
+ # petsc_with use_flag libname include linking_libs
+ petsc_with() {
+ local myuse p=${2:-${1}}
+ if use ${1}; then
+ myuse="--with-${p}=1"
+ if [[ $# -ge 4 ]]; then
+ myuse="${myuse} --with-${p}-include=${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
+
+ # run petsc configure script
+ econf \
+ CFLAGS="${CFLAGS}" \
+ CXXFLAGS="${CXXFLAGS}" \
+ LDFLAGS="${LDFLAGS}" \
+ --with-shared-libraries \
+ --with-single-library \
+ --with-clanguage=${mylang} \
+ $(petsc_enable cxx c-support) \
+ --with-petsc-arch=${PETSC_ARCH} \
+ --with-precision=double \
+ --with-gnu-compilers \
+ --with-blas-lapack-lib="$(pkg-config --libs lapack)" \
+ $(petsc_enable debug debugging) \
+ $(petsc_enable mpi) \
+ $(petsc_select mpi cc mpicc $(tc-getCC)) \
+ $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
+ $(petsc_enable fortran) \
+ $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
+ $(petsc_enable mpi mpi-compilers) \
+ $(petsc_enable threads pthread) \
+ $(petsc_enable threads pthreadclasses) \
+ $(petsc_select complex-scalars scalar-type complex real) \
+ --with-windows-graphics=0 \
+ --with-matlab=0 \
+ --with-cmake=cmake \
+ $(petsc_with afterimage afterimage \
+ /usr/include/libAfterImage -lAfterImage) \
+ $(petsc_with hdf5) \
+ $(petsc_with hypre hypre \
+ /usr/include/hypre -lHYPRE) \
+ $(petsc_with sparse cholmod) \
+ $(petsc_with superlu superlu \
+ /usr/include/superlu -lsuperlu) \
+ $(petsc_with X x) \
+ $(petsc_with X x11) \
+ --with-imagemagick=0 \
+ --with-python=0 \
+ --with-scotch=0
+
+# not yet tested:
+# python bindings, sctotch, netcdf, scalapack
+# non-working:
+# fftw: no mpi-implementaion available in gentoo
+
+# failed dependencies, perhaps fixed in upstream soon:
+# $(petsc_with metis parmetis) \ # needs metis too (>=5.0.2)
+# $(petsc_with boost) \
+# $(petsc_with imagemagick imagemagick \
+# /usr/include/ImageMagick $(pkg-config --libs MagickCore)) \
+}
+
+src_install() {
+ # petsc install structure is very different from
+ # installing headers to /usr/include/petsc and lib to /usr/lib
+ # it also installs many unneeded executables and scripts
+ # so manual install is easier than cleanup after "emake install"
+ insinto /usr/include/${PN}
+ doins include/*.h*
+ insinto /usr/include/${PN}/${PETSC_ARCH}/include
+ doins ${PETSC_ARCH}/include/*
+ if use fortran; then
+ insinto /usr/include/${PN}/finclude
+ doins include/finclude/*.h
+ fi
+ if ! use mpi ; then
+ insinto /usr/include/${PN}/mpiuni
+ doins include/mpiuni/*.h
+ fi
+ insinto /usr/include/${PN}/conf
+ doins conf/{variables,rules,test}
+ insinto /usr/include/${PN}/${PETSC_ARCH}/conf
+ doins ${PETSC_ARCH}/conf/{petscrules,petscvariables,RDict.db}
+
+ # fix configuration files: replace ${S} by installed location
+ sed -i \
+ -e "s:${S}::g" \
+ "${ED}"/usr/include/${PN}/${PETSC_ARCH}/include/petscconf.h \
+ "${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
+
+ # add information about installation directory and
+ # PETSC_ARCH to environmental variables
+ cat >> 99petsc <<- EOF
+ PETSC_ARCH=${PETSC_ARCH}
+ PETSC_DIR=${EPREFIX}/usr/include/${PN}
+ EOF
+ doenvd 99petsc
+
+ dolib.so ${PETSC_ARCH}/lib/*.so
+
+ if use doc ; then
+ einfo "installing documentation (this could take a while)"
+ dodoc docs/manual.pdf
+ 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"
+}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2012-06-28 8:25 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2012-06-28 8:25 UTC (permalink / raw
To: gentoo-commits
commit: 139254cb7db9768fd2ecde18ec6ff464f8c10ab6
Author: Jens-Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Thu Jun 28 08:25:17 2012 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Thu Jun 28 08:25:17 2012 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=139254cb
updated to petsc-3.3_p1
---
...ure-pic.patch => petsc-3.3-configure-pic.patch} | 0
....patch => petsc-3.3-disable-env-warnings.patch} | 0
...e-rpath.patch => petsc-3.3-disable-rpath.patch} | 0
.../{petsc-3.3_p0.ebuild => petsc-3.3_p1.ebuild} | 6 +++---
4 files changed, 3 insertions(+), 3 deletions(-)
diff --git a/sci-mathematics/petsc/files/petsc-3.3_p0-configure-pic.patch b/sci-mathematics/petsc/files/petsc-3.3-configure-pic.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-3.3_p0-configure-pic.patch
rename to sci-mathematics/petsc/files/petsc-3.3-configure-pic.patch
diff --git a/sci-mathematics/petsc/files/petsc-3.3_p0-disable-env-warnings.patch b/sci-mathematics/petsc/files/petsc-3.3-disable-env-warnings.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-3.3_p0-disable-env-warnings.patch
rename to sci-mathematics/petsc/files/petsc-3.3-disable-env-warnings.patch
diff --git a/sci-mathematics/petsc/files/petsc-3.3_p0-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.3-disable-rpath.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-3.3_p0-disable-rpath.patch
rename to sci-mathematics/petsc/files/petsc-3.3-disable-rpath.patch
diff --git a/sci-mathematics/petsc/petsc-3.3_p0.ebuild b/sci-mathematics/petsc/petsc-3.3_p1.ebuild
similarity index 97%
rename from sci-mathematics/petsc/petsc-3.3_p0.ebuild
rename to sci-mathematics/petsc/petsc-3.3_p1.ebuild
index defd77c..36e2d7a 100644
--- a/sci-mathematics/petsc/petsc-3.3_p0.ebuild
+++ b/sci-mathematics/petsc/petsc-3.3_p1.ebuild
@@ -56,9 +56,9 @@ DEPEND="${RDEPEND}
S="${WORKDIR}/${MY_P}"
PATCHES=(
- "${FILESDIR}"/${P}-configure-pic.patch
- "${FILESDIR}"/${P}-disable-env-warnings.patch
- "${FILESDIR}"/${P}-disable-rpath.patch
+ "${FILESDIR}"/${P%_*}-configure-pic.patch
+ "${FILESDIR}"/${P%_*}-disable-env-warnings.patch
+ "${FILESDIR}"/${P%_*}-disable-rpath.patch
)
src_configure() {
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2013-01-07 21:58 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2013-01-07 21:58 UTC (permalink / raw
To: gentoo-commits
commit: f58075816ea2ebed8674666d655f46a3f2bb23b3
Author: Jens-Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Mon Jan 7 21:57:54 2013 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Mon Jan 7 21:57:54 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=f5807581
updated to latest petsc 3.2 release
---
.../petsc/files/petsc-3.2_p6-fix-afterimage.patch | 71 --------------------
.../petsc/files/petsc-3.2_p6-fix-imagemagick.patch | 24 -------
.../petsc/files/petsc-3.2_p6-fix-xops.patch | 21 ------
...-pic.patch => petsc-3.2_p7-configure-pic.patch} | 0
...tch => petsc-3.2_p7-disable-env-warnings.patch} | 0
...path.patch => petsc-3.2_p7-disable-rpath.patch} | 0
.../{petsc-3.2_p6.ebuild => petsc-3.2_p7.ebuild} | 2 -
7 files changed, 0 insertions(+), 118 deletions(-)
diff --git a/sci-mathematics/petsc/files/petsc-3.2_p6-fix-afterimage.patch b/sci-mathematics/petsc/files/petsc-3.2_p6-fix-afterimage.patch
deleted file mode 100644
index 27f4d3b..0000000
--- a/sci-mathematics/petsc/files/petsc-3.2_p6-fix-afterimage.patch
+++ /dev/null
@@ -1,71 +0,0 @@
-
-# HG changeset patch
-# User Jed Brown <jed@59A2.org>
-# Date 1330818004 21600
-# Node ID fb79e104b74267c74aa64f125e7eb6a64bce4b14
-# Parent 8242202a123dd2cbfea7a4a2a9a1797951306f8d
-Fixes for libAfterImage compilation, ImageMagick is still just a stub
-
-diff -r 8242202a123d -r fb79e104b742 config/PETSc/packages/afterimage.py
---- a/config/PETSc/packages/afterimage.py Sat Mar 03 16:05:00 2012 -0600
-+++ b/config/PETSc/packages/afterimage.py Sat Mar 03 17:40:04 2012 -0600
-@@ -9,6 +9,7 @@
- self.includedir = ''
- self.libdir = '../../lib'
- self.double = 0
-+ self.complex = 1
-
- def setupDependencies(self, framework):
- PETSc.package.NewPackage.setupDependencies(self, framework)
-diff -r 8242202a123d -r fb79e104b742 config/PETSc/packages/imagemagick.py
---- a/config/PETSc/packages/imagemagick.py Sat Mar 03 16:05:00 2012 -0600
-+++ b/config/PETSc/packages/imagemagick.py Sat Mar 03 17:40:04 2012 -0600
-@@ -4,8 +4,8 @@
- def __init__(self, framework):
- PETSc.package.NewPackage.__init__(self, framework)
- self.functions = ['IsMagickInstantiated']
-- self.includes = ['MagicCore/MagickCore.h']
-- self.liblist = [['libMagicCore.a']]
-+ self.includes = ['magick/MagickCore.h']
-+ self.liblist = [['libMagickCore.a']]
-
-
-
-diff -r 8242202a123d -r fb79e104b742 src/sys/draw/impls/x/xinit.c
---- a/src/sys/draw/impls/x/xinit.c Sat Mar 03 16:05:00 2012 -0600
-+++ b/src/sys/draw/impls/x/xinit.c Sat Mar 03 17:40:04 2012 -0600
-@@ -291,7 +291,7 @@
- #include <afterimage.h>
- #undef __FUNCT__
- #define __FUNCT__ "PetscDrawSave_X"
--PetscErrorCode PetscDrawSave_X(PetscDraw draw,PetscViewer viewer)
-+PetscErrorCode PetscDrawSave_X(PetscDraw draw)
- {
- PetscDraw_X *drawx = (PetscDraw_X*)draw->data;
- XImage *image;
-@@ -328,10 +328,10 @@
- void deflateEnd(void) {;}
-
- #elif defined(PETSC_HAVE_IMAGEMAGICK)
--#include <MagicCore/MagickCore.h>
-+#include <magick/MagickCore.h>
- #undef __FUNCT__
- #define __FUNCT__ "PetscDrawSave_X"
--PetscErrorCode PetscDrawSave_X(PetscDraw draw,PetscViewer viewer)
-+PetscErrorCode PetscDrawSave_X(PetscDraw draw)
- {
- PetscDraw_X *drawx = (PetscDraw_X*)draw->data;
- Image *image;
-diff -r 8242202a123d -r fb79e104b742 src/sys/draw/impls/x/xops.c
---- a/src/sys/draw/impls/x/xops.c Sat Mar 03 16:05:00 2012 -0600
-+++ b/src/sys/draw/impls/x/xops.c Sat Mar 03 17:40:04 2012 -0600
-@@ -551,7 +551,7 @@
- PetscFunctionReturn(0);
- }
-
--PetscErrorCode PetscDrawSave_X(PetscDraw,PetscViewer);
-+PetscErrorCode PetscDrawSave_X(PetscDraw);
- PetscErrorCode PetscDrawSetSave_X(PetscDraw,const char*);
-
- static struct _PetscDrawOps DvOps = { PetscDrawSetDoubleBuffer_X,
-
diff --git a/sci-mathematics/petsc/files/petsc-3.2_p6-fix-imagemagick.patch b/sci-mathematics/petsc/files/petsc-3.2_p6-fix-imagemagick.patch
deleted file mode 100644
index 0e17f89..0000000
--- a/sci-mathematics/petsc/files/petsc-3.2_p6-fix-imagemagick.patch
+++ /dev/null
@@ -1,24 +0,0 @@
---- config/PETSc/packages/imagemagick.py.orig 2012-01-22 17:25:36.440142627 +0000
-+++ config/PETSc/packages/imagemagick.py 2012-01-22 17:26:26.091417306 +0000
-@@ -4,8 +4,8 @@
- def __init__(self, framework):
- PETSc.package.NewPackage.__init__(self, framework)
- self.functions = ['IsMagickInstantiated']
-- self.includes = ['MagicCore/MagickCore.h']
-- self.liblist = [['libMagicCore.a']]
-+ self.includes = ['MagickCore/MagickCore.h']
-+ self.liblist = [['libMagickCore.a']]
-
-
-
---- src/sys/draw/impls/x/xinit.c.orig 2012-01-22 17:25:46.230393969 +0000
-+++ src/sys/draw/impls/x/xinit.c 2012-01-22 17:26:26.091417306 +0000
-@@ -328,7 +328,7 @@
- void deflateEnd(void) {;}
-
- #elif defined(PETSC_HAVE_IMAGEMAGICK)
--#include <MagicCore/MagickCore.h>
-+#include <MagickCore/MagickCore.h>
- #undef __FUNCT__
- #define __FUNCT__ "PetscDrawSave_X"
- PetscErrorCode PetscDrawSave_X(PetscDraw draw,PetscViewer viewer)
diff --git a/sci-mathematics/petsc/files/petsc-3.2_p6-fix-xops.patch b/sci-mathematics/petsc/files/petsc-3.2_p6-fix-xops.patch
deleted file mode 100644
index cd2edeb..0000000
--- a/sci-mathematics/petsc/files/petsc-3.2_p6-fix-xops.patch
+++ /dev/null
@@ -1,21 +0,0 @@
-
-# HG changeset patch
-# User Jed Brown <jed@59A2.org>
-# Date 1330812300 21600
-# Node ID 8242202a123dd2cbfea7a4a2a9a1797951306f8d
-# Parent 759927945bb3cdd30ff4265c043264db5286d263
-Fix declaration of PetscDrawSave_X()
-
-diff -r 759927945bb3 -r 8242202a123d src/sys/draw/impls/x/xops.c
---- a/src/sys/draw/impls/x/xops.c Fri Mar 02 11:10:34 2012 -0600
-+++ b/src/sys/draw/impls/x/xops.c Sat Mar 03 16:05:00 2012 -0600
-@@ -551,7 +551,7 @@
- PetscFunctionReturn(0);
- }
-
--PetscErrorCode PetscDrawSave_X(PetscDraw);
-+PetscErrorCode PetscDrawSave_X(PetscDraw,PetscViewer);
- PetscErrorCode PetscDrawSetSave_X(PetscDraw,const char*);
-
- static struct _PetscDrawOps DvOps = { PetscDrawSetDoubleBuffer_X,
-
diff --git a/sci-mathematics/petsc/files/petsc-3.2_p6-configure-pic.patch b/sci-mathematics/petsc/files/petsc-3.2_p7-configure-pic.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-3.2_p6-configure-pic.patch
rename to sci-mathematics/petsc/files/petsc-3.2_p7-configure-pic.patch
diff --git a/sci-mathematics/petsc/files/petsc-3.2_p6-disable-env-warnings.patch b/sci-mathematics/petsc/files/petsc-3.2_p7-disable-env-warnings.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-3.2_p6-disable-env-warnings.patch
rename to sci-mathematics/petsc/files/petsc-3.2_p7-disable-env-warnings.patch
diff --git a/sci-mathematics/petsc/files/petsc-3.2_p6-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.2_p7-disable-rpath.patch
similarity index 100%
rename from sci-mathematics/petsc/files/petsc-3.2_p6-disable-rpath.patch
rename to sci-mathematics/petsc/files/petsc-3.2_p7-disable-rpath.patch
diff --git a/sci-mathematics/petsc/petsc-3.2_p6.ebuild b/sci-mathematics/petsc/petsc-3.2_p7.ebuild
similarity index 98%
rename from sci-mathematics/petsc/petsc-3.2_p6.ebuild
rename to sci-mathematics/petsc/petsc-3.2_p7.ebuild
index a0b84e0..5c8f5b5 100644
--- a/sci-mathematics/petsc/petsc-3.2_p6.ebuild
+++ b/sci-mathematics/petsc/petsc-3.2_p7.ebuild
@@ -59,8 +59,6 @@ PATCHES=(
"${FILESDIR}"/${P}-configure-pic.patch
"${FILESDIR}"/${P}-disable-env-warnings.patch
"${FILESDIR}"/${P}-disable-rpath.patch
- "${FILESDIR}"/${P}-fix-xops.patch
- "${FILESDIR}"/${P}-fix-afterimage.patch
)
src_configure() {
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2013-01-07 22:06 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2013-01-07 22:06 UTC (permalink / raw
To: gentoo-commits
commit: d5769ccb66c8c5e8f7f0ba923dcb8247756e8f74
Author: Jens-Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Mon Jan 7 22:05:22 2013 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Mon Jan 7 22:05:22 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=d5769ccb
upated to latest petsc 3.3 release
env warnings no longer present, removing patch
---
.../files/petsc-3.3-disable-env-warnings.patch | 13 -------------
.../{petsc-3.3_p1.ebuild => petsc-3.3_p5.ebuild} | 1 -
2 files changed, 0 insertions(+), 14 deletions(-)
diff --git a/sci-mathematics/petsc/files/petsc-3.3-disable-env-warnings.patch b/sci-mathematics/petsc/files/petsc-3.3-disable-env-warnings.patch
deleted file mode 100644
index d2ee44e..0000000
--- a/sci-mathematics/petsc/files/petsc-3.3-disable-env-warnings.patch
+++ /dev/null
@@ -1,13 +0,0 @@
-Index: petsc-3.2-p6/config/BuildSystem/config/setCompilers.py
-===================================================================
---- petsc-3.2-p6.orig/config/BuildSystem/config/setCompilers.py
-+++ petsc-3.2-p6/config/BuildSystem/config/setCompilers.py
-@@ -1463,7 +1463,7 @@ This way - mpi compilers from '''+self.a
- 'LDFLAGS','LIBS','MPI_DIR']
- for envVal in ignoreEnv:
- if envVal in os.environ:
-- self.logPrintBox('***** WARNING: '+envVal+' found in enviornment variables - ignoring ******')
-+ #self.logPrintBox('***** WARNING: '+envVal+' found in enviornment variables - ignoring ******')
- del os.environ[envVal]
- return
-
diff --git a/sci-mathematics/petsc/petsc-3.3_p1.ebuild b/sci-mathematics/petsc/petsc-3.3_p5.ebuild
similarity index 99%
rename from sci-mathematics/petsc/petsc-3.3_p1.ebuild
rename to sci-mathematics/petsc/petsc-3.3_p5.ebuild
index 0490a56..de5dd8f 100644
--- a/sci-mathematics/petsc/petsc-3.3_p1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.3_p5.ebuild
@@ -57,7 +57,6 @@ S="${WORKDIR}/${MY_P}"
PATCHES=(
"${FILESDIR}"/${P%_*}-configure-pic.patch
- "${FILESDIR}"/${P%_*}-disable-env-warnings.patch
"${FILESDIR}"/${P%_*}-disable-rpath.patch
)
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2013-02-09 18:30 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2013-02-09 18:30 UTC (permalink / raw
To: gentoo-commits
commit: 31219f323374fc447f697e497e654982bf66e791
Author: Jens-Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Sat Feb 9 18:28:15 2013 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Sat Feb 9 18:28:15 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=31219f32
fixed petsc compile issue reported by disperato
reported at github:
https://github.com/gentoo-science/sci/issues/47
for more info, see patch comments
issue also reported to upstream maintainers
---
.../files/petsc-3.3-fix-complex-threads.patch | 62 ++++++++++++++++++++
sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild | 4 +-
sci-mathematics/petsc/petsc-3.3_p5.ebuild | 9 +++-
3 files changed, 72 insertions(+), 3 deletions(-)
diff --git a/sci-mathematics/petsc/files/petsc-3.3-fix-complex-threads.patch b/sci-mathematics/petsc/files/petsc-3.3-fix-complex-threads.patch
new file mode 100644
index 0000000..ae41bab
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.3-fix-complex-threads.patch
@@ -0,0 +1,62 @@
+As reported by disperato
+at https://github.com/gentoo-science/sci/issues/47
+compilation fails if complex scalars are used together with
+threads support.
+This fix to VecNorm_SeqPThread(...) was inspired by the
+implementation of VecNorm_Seq(...) in src/vec/vec/impls/seq/bvec2.c
+
+Index: petsc-3.3-p5/src/vec/vec/impls/seq/seqpthread/vecpthread.c
+===================================================================
+--- a/src/vec/vec/impls/seq/seqpthread/vecpthread.c
++++ b/src/vec/vec/impls/seq/seqpthread/vecpthread.c
+@@ -589,17 +589,33 @@ PetscErrorCode VecNorm_SeqPThread(...)
+ }
+ ierr = PetscThreadsRunKernel(VecNorm_Kernel,(void**)vec_pdata,tmap->nthreads,tmap->affinity);
+ /* collect results */
+- *z = (PetscReal)vec_kerneldatap[0].result;
++#if defined(PETSC_USE_COMPLEX)
++ *z = PetscRealPart(vec_kerneldatap[0].result);
++#else
++ *z = (PetscReal)vec_kerneldatap[0].result;
++#endif
+ if(type == NORM_1) {
+ for(i=1; i<tmap->nthreads; i++) {
+- *z += (PetscReal)vec_kerneldatap[i].result;
++#if defined(PETSC_USE_COMPLEX)
++ *z += PetscRealPart(vec_kerneldatap[i].result);
++#else
++ *z += (PetscReal)vec_kerneldatap[i].result;
++#endif
+ }
+ ierr = PetscLogFlops(PetscMax(xin->map->n-1.0+tmap->nthreads-1,0.0));CHKERRQ(ierr);
+ }
+ else if(type == NORM_2 || type == NORM_FROBENIUS) {
+- *z = (PetscReal)vec_kerneldatap[0].result;
++#if defined(PETSC_USE_COMPLEX)
++ *z = PetscRealPart(vec_kerneldatap[0].result);
++#else
++ *z = (PetscReal)vec_kerneldatap[0].result;
++#endif
+ for(i=1; i<tmap->nthreads; i++) {
+- *z += (PetscReal)vec_kerneldatap[i].result;
++#if defined(PETSC_USE_COMPLEX)
++ *z += PetscRealPart(vec_kerneldatap[i].result);
++#else
++ *z += (PetscReal)vec_kerneldatap[i].result;
++#endif
+ }
+ *z = PetscSqrtReal(*z);
+ ierr = PetscLogFlops(PetscMax(2.0*xin->map->n-1+tmap->nthreads-1,0.0));CHKERRQ(ierr);
+@@ -607,7 +623,11 @@
+ else {
+ PetscReal maxv = 0.0,tmp;
+ for(i=0; i<tmap->nthreads; i++) {
+- tmp = (PetscReal)vec_kerneldatap[i].result;
++#if defined(PETSC_USE_COMPLEX)
++ tmp = PetscRealPart(vec_kerneldatap[i].result);
++#else
++ tmp = (PetscReal)vec_kerneldatap[i].result;
++#endif
+ if(tmp>maxv) {
+ maxv = tmp;
+ }
diff --git a/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild b/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
index b5cc3ce..4185075 100644
--- a/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
+++ b/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2012 Gentoo Foundation
+# Copyright 1999-2013 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: $
@@ -27,7 +27,7 @@ RDEPEND="mpi? ( virtual/mpi[cxx?,fortran?] )
"
DEPEND="${RDEPEND}
- sys-devel/gcc[-nocxx,fortran?]"
+ sys-devel/gcc[fortran?]"
S="${WORKDIR}/${MY_P}"
diff --git a/sci-mathematics/petsc/petsc-3.3_p5.ebuild b/sci-mathematics/petsc/petsc-3.3_p5.ebuild
index 42ed2a2..6f0acd7 100644
--- a/sci-mathematics/petsc/petsc-3.3_p5.ebuild
+++ b/sci-mathematics/petsc/petsc-3.3_p5.ebuild
@@ -58,6 +58,7 @@ S="${WORKDIR}/${MY_P}"
PATCHES=(
"${FILESDIR}"/${P%_*}-configure-pic.patch
"${FILESDIR}"/${P%_*}-disable-rpath.patch
+ "${FILESDIR}"/${P%_*}-fix-complex-threads.patch
)
src_configure() {
@@ -105,6 +106,12 @@ src_configure() {
filter-flags -O*
fi
+ # enable C Support on Cxx build if possible
+ local petscCSupp
+ if use cxx && ! use complex-scalars; then
+ petscCSupp="--with-c-support=1"
+ fi
+
# run petsc configure script
econf \
CFLAGS="${CFLAGS}" \
@@ -113,7 +120,7 @@ src_configure() {
--with-shared-libraries \
--with-single-library \
--with-clanguage=${mylang} \
- $(petsc_enable cxx c-support) \
+ $petscCSupp \
--with-petsc-arch=${PETSC_ARCH} \
--with-precision=double \
--with-gnu-compilers \
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2013-02-22 10:15 Justin Lecher
0 siblings, 0 replies; 19+ messages in thread
From: Justin Lecher @ 2013-02-22 10:15 UTC (permalink / raw
To: gentoo-commits
commit: 5cc1b725f0d81b13573c72be6d1414f0337b0205
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Fri Feb 22 09:31:07 2013 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Fri Feb 22 09:31:07 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=5cc1b725
sci-mathematics/petsc: Use tc-getPKG_CONFIG from toolchain-funcs.eclass instead of plain pkg-config; drop old
Package-Manager: portage-2.2.0_alpha163
---
sci-mathematics/petsc/ChangeLog | 11 +-
.../petsc/files/petsc-3.1_p8-configure-pic.patch | 11 -
.../petsc/files/petsc-3.1_p8-disable-rpath.patch | 16 --
.../petsc/files/petsc-3.2_p7-configure-pic.patch | 11 -
.../files/petsc-3.2_p7-disable-env-warnings.patch | 13 --
.../petsc/files/petsc-3.2_p7-disable-rpath.patch | 16 --
sci-mathematics/petsc/metadata.xml | 20 +-
sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild | 202 ------------------
sci-mathematics/petsc/petsc-3.2_p7.ebuild | 215 --------------------
sci-mathematics/petsc/petsc-3.3_p5.ebuild | 6 +-
10 files changed, 22 insertions(+), 499 deletions(-)
diff --git a/sci-mathematics/petsc/ChangeLog b/sci-mathematics/petsc/ChangeLog
index 4bc96b9..fc4e7d4 100644
--- a/sci-mathematics/petsc/ChangeLog
+++ b/sci-mathematics/petsc/ChangeLog
@@ -1,7 +1,16 @@
# ChangeLog for sci-mathematics/petsc
-# Copyright 1999-2012 Gentoo Foundation; Distributed under the GPL v2
+# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
# $Header: $
+ 22 Feb 2013; Justin Lecher <jlec@gentoo.org> -petsc-3.1_p8-r1.ebuild,
+ -files/petsc-3.1_p8-configure-pic.patch,
+ -files/petsc-3.1_p8-disable-rpath.patch, -petsc-3.2_p7.ebuild,
+ -files/petsc-3.2_p7-configure-pic.patch,
+ -files/petsc-3.2_p7-disable-env-warnings.patch,
+ -files/petsc-3.2_p7-disable-rpath.patch, petsc-3.3_p5.ebuild, metadata.xml:
+ Use tc-getPKG_CONFIG from toolchain-funcs.eclass instead of plain pkg-config;
+ drop old
+
06 Mar 2012; Jens-Malte Gottfried <jmgottfried@web.de>
petsc-3.1_p8-r1.ebuild, +files/petsc-3.1_p8-configure-pic.patch,
+files/petsc-3.1_p8-disable-rpath.patch:
diff --git a/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch b/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch
deleted file mode 100644
index bbfdae1..0000000
--- a/sci-mathematics/petsc/files/petsc-3.1_p8-configure-pic.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- config/BuildSystem/config/setCompilers.py.old 2010-09-07 21:41:32.693103846 +0200
-+++ config/BuildSystem/config/setCompilers.py 2010-09-07 21:41:45.322093881 +0200
-@@ -875,7 +875,7 @@
- languages.append('FC')
- for language in languages:
- self.pushLanguage(language)
-- for testFlag in ['-PIC', '-fPIC', '-KPIC','-qpic']:
-+ for testFlag in ['-fPIC', '-PIC', '-KPIC', '-qpic']:
- try:
- self.framework.logPrint('Trying '+language+' compiler flag '+testFlag)
- if not self.checkLinkerFlag(testFlag):
diff --git a/sci-mathematics/petsc/files/petsc-3.1_p8-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.1_p8-disable-rpath.patch
deleted file mode 100644
index 3c443b2..0000000
--- a/sci-mathematics/petsc/files/petsc-3.1_p8-disable-rpath.patch
+++ /dev/null
@@ -1,16 +0,0 @@
---- config/BuildSystem/config/setCompilers.py 2010-11-24 18:01:17.110124425 +0100
-+++ config/BuildSystem/config/setCompilers.py 2010-11-24 18:02:28.710104226 +0100
-@@ -1186,12 +1186,7 @@
- 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/files/petsc-3.2_p7-configure-pic.patch b/sci-mathematics/petsc/files/petsc-3.2_p7-configure-pic.patch
deleted file mode 100644
index bbfdae1..0000000
--- a/sci-mathematics/petsc/files/petsc-3.2_p7-configure-pic.patch
+++ /dev/null
@@ -1,11 +0,0 @@
---- config/BuildSystem/config/setCompilers.py.old 2010-09-07 21:41:32.693103846 +0200
-+++ config/BuildSystem/config/setCompilers.py 2010-09-07 21:41:45.322093881 +0200
-@@ -875,7 +875,7 @@
- languages.append('FC')
- for language in languages:
- self.pushLanguage(language)
-- for testFlag in ['-PIC', '-fPIC', '-KPIC','-qpic']:
-+ for testFlag in ['-fPIC', '-PIC', '-KPIC', '-qpic']:
- try:
- self.framework.logPrint('Trying '+language+' compiler flag '+testFlag)
- if not self.checkLinkerFlag(testFlag):
diff --git a/sci-mathematics/petsc/files/petsc-3.2_p7-disable-env-warnings.patch b/sci-mathematics/petsc/files/petsc-3.2_p7-disable-env-warnings.patch
deleted file mode 100644
index d2ee44e..0000000
--- a/sci-mathematics/petsc/files/petsc-3.2_p7-disable-env-warnings.patch
+++ /dev/null
@@ -1,13 +0,0 @@
-Index: petsc-3.2-p6/config/BuildSystem/config/setCompilers.py
-===================================================================
---- petsc-3.2-p6.orig/config/BuildSystem/config/setCompilers.py
-+++ petsc-3.2-p6/config/BuildSystem/config/setCompilers.py
-@@ -1463,7 +1463,7 @@ This way - mpi compilers from '''+self.a
- 'LDFLAGS','LIBS','MPI_DIR']
- for envVal in ignoreEnv:
- if envVal in os.environ:
-- self.logPrintBox('***** WARNING: '+envVal+' found in enviornment variables - ignoring ******')
-+ #self.logPrintBox('***** WARNING: '+envVal+' found in enviornment variables - ignoring ******')
- del os.environ[envVal]
- return
-
diff --git a/sci-mathematics/petsc/files/petsc-3.2_p7-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.2_p7-disable-rpath.patch
deleted file mode 100644
index 3c443b2..0000000
--- a/sci-mathematics/petsc/files/petsc-3.2_p7-disable-rpath.patch
+++ /dev/null
@@ -1,16 +0,0 @@
---- config/BuildSystem/config/setCompilers.py 2010-11-24 18:01:17.110124425 +0100
-+++ config/BuildSystem/config/setCompilers.py 2010-11-24 18:02:28.710104226 +0100
-@@ -1186,12 +1186,7 @@
- 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 f0f9f18..2e5b489 100644
--- a/sci-mathematics/petsc/metadata.xml
+++ b/sci-mathematics/petsc/metadata.xml
@@ -1,16 +1,16 @@
<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
-<herd>sci-mathematics</herd>
-<use>
- <flag name="afterimage">Use Afterstep image library (media-libs/libafterimage)</flag>
- <flag name="hypre">Use HYPRE (sci-mathematics/hypre) and for preconditioning</flag>
- <flag name="metis">Use METIS (sci-libs/parmetis) for partitioning</flag>
- <flag name="complex-scalars">Make scalars complex</flag>
- <flag name="sparse">Use suitesparse (sci-libs/suitesparse) including cholmod (sci-libs/cholmod) for sparse factorization</flag>
- <flag name="superlu">Use superlu (sci-libs/superlu) for preconditioning</flag>
- <!-- Disabled:
+ <herd>sci-mathematics</herd>
+ <use>
+ <flag name="afterimage">Use Afterstep image library (media-libs/libafterimage)</flag>
+ <flag name="hypre">Use HYPRE (sci-mathematics/hypre) and for preconditioning</flag>
+ <flag name="metis">Use METIS (sci-libs/parmetis) for partitioning</flag>
+ <flag name="complex-scalars">Make scalars complex</flag>
+ <flag name="sparse">Use suitesparse (sci-libs/suitesparse) including cholmod (sci-libs/cholmod) for sparse factorization</flag>
+ <flag name="superlu">Use superlu (sci-libs/superlu) for preconditioning</flag>
+ <!-- Disabled:
<flag name="boost">Use boost (dev-libs/boost)</flag>
-->
-</use>
+ </use>
</pkgmetadata>
diff --git a/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild b/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
deleted file mode 100644
index 4185075..0000000
--- a/sci-mathematics/petsc/petsc-3.1_p8-r1.ebuild
+++ /dev/null
@@ -1,202 +0,0 @@
-# Copyright 1999-2013 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: $
-
-EAPI=3
-
-inherit flag-o-matic fortran-2 toolchain-funcs eutils
-
-MY_P="${PN}-${PV/_/-}"
-
-DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation"
-HOMEPAGE="http://www.mcs.anl.gov/petsc/petsc-as/"
-SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${MY_P}.tar.gz"
-
-LICENSE="petsc"
-SLOT="0"
-KEYWORDS="~x86 ~amd64"
-IUSE="complex-scalars cxx debug doc fortran hdf5 hypre metis mpi static-libs X"
-
-RDEPEND="mpi? ( virtual/mpi[cxx?,fortran?] )
- X? ( x11-libs/libX11 )
- virtual/lapack
- virtual/blas
- hypre? ( sci-libs/hypre )
- metis? ( sci-libs/parmetis )
- hdf5? ( sci-libs/hdf5[!mpi?] )
-"
-
-DEPEND="${RDEPEND}
- sys-devel/gcc[fortran?]"
-
-S="${WORKDIR}/${MY_P}"
-
-if use hypre; then
- use cxx || die "hypre needs cxx, please enable cxx or disable hypre use flag"
- use mpi || die "hypre needs mpi, please enable mpi or disable hypre use flag"
-fi
-
-src_prepare(){
- epatch \
- "${FILESDIR}"/${P}-configure-pic.patch \
- "${FILESDIR}"/${P}-disable-rpath.patch
-}
-
-src_configure(){
- local mylang
- local myopt
- local myconf
-
- use cxx && mylang="cxx" || mylang="c"
- use debug && myopt="debug" || myopt="opt"
-
- export PETSC_DIR="${S}" || die
- export PETSC_ARCH="linux-gnu-${mylang}-${myopt}" || die
-
- myconf[10]="--with-blas-lapack-lib=$(pkg-config --libs lapack)"
- myconf[11]="CFLAGS=${CFLAGS}"
- myconf[12]="CXXFLAGS=${CXXFLAGS}"
- myconf[13]="LDFLAGS=${LDFLAGS}"
- myconf[14]="--with-windows-graphics=0"
- myconf[15]="--with-matlab=0"
- myconf[16]="--with-python=0"
- myconf[17]="--with-clanguage=${mylang}"
- myconf[18]="--with-single-library=1"
- myconf[19]="--with-petsc-arch=${PETSC_ARCH}"
- myconf[20]="--with-precision=double"
- myconf[21]="--with-gnu-compilers=1"
- use amd64 \
- && myconf[22]="--with-64-bit-pointers=1" \
- || myconf[22]="--with-64-bit-pointers=0"
- use cxx \
- && myconf[23]="--with-c-support=1"
- use amd64 \
- && myconf[24]="--with-64-bit-indices=1" \
- || myconf[24]="--with-64-bit-indices=0"
-
- if use mpi; then
- myconf[30]="--with-cc=/usr/bin/mpicc"
- myconf[31]="--with-cxx=/usr/bin/mpicxx"
- use fortran && myconf[32]="--with-fc=/usr/bin/mpif77"
- myconf[33]="--with-mpi=1"
- myconf[34]="--with-mpi-compilers=1"
- else
- myconf[30]="--with-cc=$(tc-getCC)"
- myconf[31]="--with-cxx=$(tc-getCXX)"
- use fortran && myconf[32]="--with-fc=$(tc-getF77)"
- myconf[33]="--with-mpi=0"
- fi
-
- use X \
- && myconf[40]="--with-X=1" \
- || myconf[40]="--with-X=0"
- use static-libs \
- && myconf[41]="--with-shared=0" \
- || myconf[41]="--with-shared=1"
- use fortran \
- && myconf[43]="--with-fortran=1" \
- || myconf[43]="--with-fortran=0"
-
- if use debug; then
- strip-flags
- filter-flags -O*
- myconf[44]="--with-debugging=1"
- else
- myconf[44]="--with-debugging=0"
- fi
-
- if use hypre; then
- # hypre cannot handle 64 bit indices, therefore disabled
- myconf[24]="--with-64-bit-indices=0"
- myconf[52]="--with-hypre=1"
- myconf[53]="--with-hypre-include=/usr/include/hypre"
- use static-libs \
- && myconf[54]="--with-hypre-lib=/usr/$(get_libdir)/libHYPRE.a" \
- || myconf[54]="--with-hypre-lib=/usr/$(get_libdir)/libHYPRE.so"
- else
- myconf[52]="--with-hypre=0"
- fi
-
- if use metis; then
- # parmetis cannot handle 64 bit indices, therefore disabled
- myconf[24]="--with-64-bit-indices=0"
- myconf[61]="--with-parmetis=1"
- myconf[62]="--with-parmetis-include=/usr/include/parmetis"
- myconf[63]="--with-parmetis-lib=/usr/$(get_libdir)/libparmetis.so"
- else
- myconf[61]="--with-parmetis=0"
- fi
-
- if use hdf5; then
- myconf[71]="--with-hdf5=1"
- myconf[72]="--with-hdf5-include=/usr/include"
- myconf[73]="--with-hdf5-lib=/usr/$(get_libdir)/libhdf5.so"
- else
- myconf[71]="--with-hdf5=0"
- fi
-
- myconf[81]="--with-scotch=0"
-
- if use complex-scalars; then
- # cannot enable C support with complex scalars
- # (cannot even set configure option to zero!)
- myconf[23]=""
- myconf[82]="--with-scalar-type=complex"
- fi
-
- einfo "Configure options: ${myconf[@]}"
- python "${S}/config/configure.py" "${myconf[@]}" \
- || die "PETSc configuration failed"
-}
-
-src_install(){
- insinto /usr/include/"${PN}"
- doins "${S}"/include/*.h "${S}"/include/*.hh
- insinto /usr/include/"${PN}/${PETSC_ARCH}"/include
- doins "${S}/${PETSC_ARCH}"/include/*
- if use fortran; then
- insinto /usr/include/"${PN}"/finclude
- doins "${S}"/include/finclude/*.h
- fi
- insinto /usr/include/"${PN}"/conf
- doins "${S}"/conf/{variables,rules,test}
- insinto /usr/include/"${PN}/${PETSC_ARCH}"/conf
- doins "${S}/${PETSC_ARCH}"/conf/{petscrules,petscvariables,RDict.db}
-
- insinto /usr/include/"${PN}"/private
- doins "${S}"/include/private/*.h
-
- dosed "s:${S}:/usr:g" /usr/include/"${PN}/${PETSC_ARCH}"/include/petscconf.h
- dosed "s:${PETSC_ARCH}/lib:$(get_libdir):g" /usr/include/"${PN}/${PETSC_ARCH}"/include/petscconf.h
- dosed "s:INSTALL_DIR =.*:INSTALL_DIR = /usr:" /usr/include/"${PN}/${PETSC_ARCH}"/conf/petscvariables
-
- cat >> "${T}"/99petsc <<- EOF
- PETSC_ARCH=${PETSC_ARCH}
- PETSC_DIR=/usr/include/${PN}
- EOF
- doenvd "${T}"/99petsc
-
- if ! use mpi ; then
- insinto /usr/include/"${PN}"/mpiuni
- doins "${S}"/include/mpiuni/*.h
- fi
-
- if use doc ; then
- dodoc docs/manual.pdf
- dohtml -r docs/*.html docs/changes docs/manualpages
- fi
-
- use static-libs \
- && dolib.a "${S}/${PETSC_ARCH}"/lib/*.a \
- || dolib.so "${S}/${PETSC_ARCH}"/lib/*.so
-}
-
-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"
- elog "This ebuild is known to have parallel build issues, "
- elog "hopefully resolved by upstream soon."
- elog "Another problem is that you can break this package by"
- elog "switching your mpi implementation without rebuild petsc."
-}
diff --git a/sci-mathematics/petsc/petsc-3.2_p7.ebuild b/sci-mathematics/petsc/petsc-3.2_p7.ebuild
deleted file mode 100644
index 6bd5bc4..0000000
--- a/sci-mathematics/petsc/petsc-3.2_p7.ebuild
+++ /dev/null
@@ -1,215 +0,0 @@
-# Copyright 1999-2013 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: $
-
-EAPI=4
-
-inherit base 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/${MY_P}.tar.gz"
-
-LICENSE="petsc"
-SLOT="0"
-KEYWORDS="~x86 ~amd64"
-IUSE="afterimage complex-scalars cxx debug doc
- fortran hdf5 hypre metis mpi sparse superlu threads X"
-# Failed: boost imagemagick
-
-# hypre and superlu curretly exclude each other due to missing linking to hypre
-# if both are enabled
-REQUIRED_USE="
- hypre? ( cxx mpi )
- hdf5? ( mpi )
- afterimage? ( X )
- ^^ ( hypre superlu )
-"
-# imagemagick? ( X )
-
-RDEPEND="
- virtual/blas
- virtual/lapack
- afterimage? ( media-libs/libafterimage )
- hdf5? ( sci-libs/hdf5[mpi?] )
- hypre? ( sci-libs/hypre[mpi?] )
- metis? ( sci-libs/parmetis )
- mpi? ( virtual/mpi[cxx?,fortran?] )
- sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
- superlu? ( sci-libs/superlu )
- X? ( x11-libs/libX11 )
-"
-# boost? ( dev-libs/boost )
-# imagemagick? ( media-gfx/imagemagick )
-
-DEPEND="${RDEPEND}
- virtual/fortran
- virtual/pkgconfig
- dev-lang/python
- dev-util/cmake
-"
-# cmake is used for parralel building
-# in some configuration setups, legacy build is used (slow)
-
-S="${WORKDIR}/${MY_P}"
-
-PATCHES=(
- "${FILESDIR}"/${P}-configure-pic.patch
- "${FILESDIR}"/${P}-disable-env-warnings.patch
- "${FILESDIR}"/${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:-$1}=0"
- }
- # add external library:
- # petsc_with use_flag libname libdir
- # petsc_with use_flag libname include linking_libs
- petsc_with() {
- local myuse p=${2:-${1}}
- if use ${1}; then
- myuse="--with-${p}=1"
- if [[ $# -ge 4 ]]; then
- myuse="${myuse} --with-${p}-include=${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
-
- # run petsc configure script
- econf \
- CFLAGS="${CFLAGS}" \
- CXXFLAGS="${CXXFLAGS}" \
- LDFLAGS="${LDFLAGS}" \
- --with-shared-libraries \
- --with-single-library \
- --with-clanguage=${mylang} \
- $(petsc_enable cxx c-support) \
- --with-petsc-arch=${PETSC_ARCH} \
- --with-precision=double \
- --with-gnu-compilers \
- --with-blas-lapack-lib="$(pkg-config --libs lapack)" \
- $(petsc_enable debug debugging) \
- $(petsc_enable mpi) \
- $(petsc_select mpi cc mpicc $(tc-getCC)) \
- $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
- $(petsc_enable fortran) \
- $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
- $(petsc_enable mpi mpi-compilers) \
- $(petsc_enable threads pthread) \
- $(petsc_enable threads pthreadclasses) \
- $(petsc_select complex-scalars scalar-type complex real) \
- --with-windows-graphics=0 \
- --with-matlab=0 \
- --with-cmake=cmake \
- $(petsc_with afterimage afterimage \
- /usr/include/libAfterImage -lAfterImage) \
- $(petsc_with hdf5) \
- $(petsc_with hypre hypre \
- /usr/include/hypre -lHYPRE) \
- $(petsc_with metis parmetis) \
- $(petsc_with sparse cholmod) \
- $(petsc_with superlu superlu \
- /usr/include/superlu -lsuperlu) \
- $(petsc_with X x) \
- $(petsc_with X x11) \
- --with-imagemagick=0 \
- --with-python=0 \
- --with-scotch=0
-
-# not yet tested:
-# python bindings, sctotch, netcdf, scalapack
-# non-working:
-# fftw: no mpi-implementaion available in gentoo
-
-# failed dependencies, perhaps fixed in upstream soon:
-# $(petsc_with boost) \
-# $(petsc_with imagemagick imagemagick \
-# /usr/include/ImageMagick $(pkg-config --libs MagickCore)) \
-}
-
-src_install() {
- # petsc install structure is very different from
- # installing headers to /usr/include/petsc and lib to /usr/lib
- # it also installs many unneeded executables and scripts
- # so manual install is easier than cleanup after "emake install"
- insinto /usr/include/${PN}
- doins include/*.h*
- insinto /usr/include/${PN}/${PETSC_ARCH}/include
- doins ${PETSC_ARCH}/include/*
- if use fortran; then
- insinto /usr/include/${PN}/finclude
- doins include/finclude/*.h
- fi
- insinto /usr/include/${PN}/conf
- doins conf/{variables,rules,test}
- insinto /usr/include/${PN}/${PETSC_ARCH}/conf
- doins ${PETSC_ARCH}/conf/{petscrules,petscvariables,RDict.db}
- insinto /usr/include/${PN}/private
- doins include/private/*.h
-
- # fix configuration files: replace ${S} by installed location
- sed -i \
- -e "s:${S}::g" \
- "${ED}"/usr/include/${PN}/${PETSC_ARCH}/include/petscconf.h \
- "${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
-
- # add information about installation directory and
- # PETSC_ARCH to environmental variables
- cat >> 99petsc <<- EOF
- PETSC_ARCH=${PETSC_ARCH}
- PETSC_DIR=${EPREFIX}/usr/include/${PN}
- EOF
- doenvd 99petsc
-
- if ! use mpi ; then
- insinto /usr/include/${PN}/mpiuni
- doins include/mpiuni/*.h
- fi
-
- if use doc ; then
- dodoc docs/manual.pdf
- dohtml -r docs/*.html docs/changes docs/manualpages
- fi
-
- dolib.so ${PETSC_ARCH}/lib/*.so
-}
-
-pkg_postinst() {
- elog "The petsc ebuild is still under development."
- elog "Help us improve the ebuild in:"
- elog "http://bugs.gentoo.org/show_bug.cgi?id=53386"
-}
diff --git a/sci-mathematics/petsc/petsc-3.3_p5.ebuild b/sci-mathematics/petsc/petsc-3.3_p5.ebuild
index 81de267..e0a1340 100644
--- a/sci-mathematics/petsc/petsc-3.3_p5.ebuild
+++ b/sci-mathematics/petsc/petsc-3.3_p5.ebuild
@@ -45,9 +45,7 @@ RDEPEND="
# imagemagick? ( media-gfx/imagemagick )
DEPEND="${RDEPEND}
- virtual/fortran
virtual/pkgconfig
- dev-lang/python
dev-util/cmake
"
# cmake is used for parralel building
@@ -128,7 +126,7 @@ src_configure() {
--with-petsc-arch=${PETSC_ARCH} \
--with-precision=double \
--with-gnu-compilers \
- --with-blas-lapack-lib="$(pkg-config --libs lapack)" \
+ --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
$(petsc_enable debug debugging) \
$(petsc_enable mpi) \
$(petsc_select mpi cc mpicc $(tc-getCC)) \
@@ -165,7 +163,7 @@ src_configure() {
# $(petsc_with metis parmetis) \ # needs metis too (>=5.0.2)
# $(petsc_with boost) \
# $(petsc_with imagemagick imagemagick \
-# /usr/include/ImageMagick $(pkg-config --libs MagickCore)) \
+# /usr/include/ImageMagick $($(tc-getPKG_CONFIG) --libs MagickCore)) \
}
src_install() {
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2013-10-18 16:19 Christoph Junghans
0 siblings, 0 replies; 19+ messages in thread
From: Christoph Junghans @ 2013-10-18 16:19 UTC (permalink / raw
To: gentoo-commits
commit: 5e56502a0222f00f69f25fb41855a7e33d3aeac3
Author: layman <layman <AT> localhost>
AuthorDate: Tue Oct 8 19:04:48 2013 +0000
Commit: Christoph Junghans <ottxor <AT> gentoo <DOT> org>
CommitDate: Tue Oct 8 19:18:43 2013 +0000
URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=5e56502a
Bump petsc to 3.4.2, include support for scotch and mumps
Bump PETSc to version 3.4.2. This commit also includes use flags for scotch
and mumps support
---
.../petsc/files/petsc-3.4.2-disable-rpath.patch | 16 ++
sci-mathematics/petsc/petsc-3.4.2.ebuild | 239 +++++++++++++++++++++
2 files changed, 255 insertions(+)
diff --git a/sci-mathematics/petsc/files/petsc-3.4.2-disable-rpath.patch b/sci-mathematics/petsc/files/petsc-3.4.2-disable-rpath.patch
new file mode 100644
index 0000000..0ccf45d
--- /dev/null
+++ b/sci-mathematics/petsc/files/petsc-3.4.2-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 23:35:20.000000000 +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/petsc-3.4.2.ebuild b/sci-mathematics/petsc/petsc-3.4.2.ebuild
new file mode 100644
index 0000000..1d8462f
--- /dev/null
+++ b/sci-mathematics/petsc/petsc-3.4.2.ebuild
@@ -0,0 +1,239 @@
+# Copyright 1999-2013 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+EAPI=5
+
+inherit base 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/${MY_P}.tar.gz"
+
+LICENSE="petsc"
+SLOT="0"
+KEYWORDS="~x86 ~amd64"
+IUSE="afterimage complex-scalars cxx debug doc
+ fortran hdf5 hypre mpi mumps scotch sparse superlu threads X"
+# Failed: boost imagemagick metis
+
+# hypre and superlu curretly exclude each other due to missing linking to hypre
+# if both are enabled
+REQUIRED_USE="
+ afterimage? ( X )
+ hdf5? ( mpi )
+ hypre? ( cxx mpi )
+ mumps? ( mpi scotch )
+ scotch? ( mpi )
+ ^^ ( hypre superlu )
+"
+# imagemagick? ( X )
+
+RDEPEND="
+ virtual/blas
+ virtual/lapack
+ afterimage? ( media-libs/libafterimage )
+ hdf5? ( sci-libs/hdf5[mpi?] )
+ hypre? ( >=sci-libs/hypre-2.8.0b[mpi?] )
+ mpi? ( virtual/mpi[cxx?,fortran?] )
+ mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack )
+ scotch? ( sci-libs/scotch[mpi?] )
+ sparse? ( sci-libs/suitesparse >=sci-libs/cholmod-1.7.0 )
+ superlu? ( sci-libs/superlu )
+ X? ( x11-libs/libX11 )
+"
+# boost? ( dev-libs/boost )
+# metis? ( sci-libs/parmetis )
+# imagemagick? ( media-gfx/imagemagick )
+
+DEPEND="${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}/${MY_P}"
+
+PATCHES=(
+ "${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:-$1}=0"
+ }
+ # add external library:
+ # petsc_with use_flag libname libdir
+ # petsc_with use_flag libname include linking_libs
+ petsc_with() {
+ local myuse p=${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
+
+ # 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)
+
+ if use threads; then
+ ewarn "Threads support may be incomplete on $PN-3.3 release and is not officially supported."
+ ewarn "Upstream recommends not to enable threads support for production runs."
+ fi
+
+ # run petsc configure script
+ econf \
+ scrollOutput=1 \
+ CFLAGS="${CFLAGS}" \
+ CXXFLAGS="${CXXFLAGS}" \
+ LDFLAGS="${LDFLAGS}" \
+ --with-shared-libraries \
+ --with-single-library \
+ --with-clanguage=${mylang} \
+ $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
+ --with-petsc-arch=${PETSC_ARCH} \
+ --with-precision=double \
+ --with-gnu-compilers \
+ --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
+ $(petsc_enable debug debugging) \
+ $(petsc_enable mpi) \
+ $(petsc_select mpi cc mpicc $(tc-getCC)) \
+ $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
+ $(petsc_enable fortran) \
+ $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
+ $(petsc_enable mpi mpi-compilers) \
+ $(petsc_enable threads pthread) \
+ $(petsc_enable threads pthreadclasses) \
+ $(petsc_select complex-scalars scalar-type complex real) \
+ --with-windows-graphics=0 \
+ --with-matlab=0 \
+ --with-cmake=cmake \
+ $(petsc_with afterimage afterimage \
+ /usr/include/libAfterImage -lAfterImage) \
+ $(petsc_with hdf5) \
+ $(petsc_with hypre hypre \
+ /usr/include/hypre -lHYPRE) \
+ $(petsc_with sparse cholmod) \
+ $(petsc_with superlu superlu \
+ /usr/include/superlu -lsuperlu) \
+ $(petsc_with X x) \
+ $(petsc_with X x11) \
+ $(petsc_with scotch ptscotch \
+ /usr/include/scotch \
+ [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
+ $(petsc_with mumps scalapack \
+ /usr/include/scalapack -lscalapack) \
+ $(petsc_with mumps mumps \
+ /usr/include \
+ [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
+ --with-imagemagick=0 \
+ --with-python=0 \
+
+# not yet tested:
+# python bindings, netcdf
+# non-working:
+# fftw: no mpi-implementaion available in gentoo
+
+# failed dependencies, perhaps fixed in upstream soon:
+# $(petsc_with metis parmetis) \ # needs metis too (>=5.0.2)
+# $(petsc_with boost) \
+# $(petsc_with imagemagick imagemagick \
+# /usr/include/ImageMagick $($(tc-getPKG_CONFIG) --libs MagickCore)) \
+}
+
+src_install() {
+ # petsc install structure is very different from
+ # installing headers to /usr/include/petsc and lib to /usr/lib
+ # it also installs many unneeded executables and scripts
+ # so manual install is easier than cleanup after "emake install"
+ insinto /usr/include/${PN}
+ doins include/*.h*
+ insinto /usr/include/${PN}/${PETSC_ARCH}/include
+ doins ${PETSC_ARCH}/include/*
+ if use fortran; then
+ insinto /usr/include/${PN}/finclude
+ doins include/finclude/*.h
+ fi
+ if ! use mpi ; then
+ insinto /usr/include/${PN}/mpiuni
+ doins include/mpiuni/*.h
+ fi
+ insinto /usr/include/${PN}/conf
+ doins conf/{variables,rules,test}
+ insinto /usr/include/${PN}/${PETSC_ARCH}/conf
+ doins ${PETSC_ARCH}/conf/{petscrules,petscvariables,RDict.db}
+ insinto /usr/include/${PN}/petsc-private
+ doins include/petsc-private/*.h
+
+ # fix configuration files: replace ${S} by installed location
+ sed -i \
+ -e "s:${S}::g" \
+ "${ED}"/usr/include/${PN}/${PETSC_ARCH}/include/petscconf.h \
+ "${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
+
+ # add information about installation directory and
+ # PETSC_ARCH to environmental variables
+ cat >> 99petsc <<- EOF
+ PETSC_ARCH=${PETSC_ARCH}
+ PETSC_DIR=${EPREFIX}/usr/include/${PN}
+ EOF
+ doenvd 99petsc
+
+ dolib.so ${PETSC_ARCH}/lib/*.so
+
+ if use doc ; then
+ einfo "installing documentation (this could take a while)"
+ dodoc docs/manual.pdf
+ 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"
+}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2014-07-24 21:50 Jens-Malte Gottfried
0 siblings, 0 replies; 19+ messages in thread
From: Jens-Malte Gottfried @ 2014-07-24 21:50 UTC (permalink / raw
To: gentoo-commits
commit: eaa505b7fe3ae5a00cc9d99e1d8f4ab960e66610
Author: Jens Malte Gottfried <jmgottfried <AT> web <DOT> de>
AuthorDate: Thu Jul 24 21:49:32 2014 +0000
Commit: Jens-Malte Gottfried <jmg <AT> godefridus <DOT> de>
CommitDate: Thu Jul 24 21:49:32 2014 +0000
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 0000000..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 23:35:20.000000000 +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 @@
<herd>sci-mathematics</herd>
<use>
<flag name="afterimage">Use Afterstep image library (media-libs/libafterimage)</flag>
+ <flag name="boost">Use boost (dev-libs/boost)</flag>
<flag name="hypre">Use HYPRE (sci-mathematics/hypre) and for preconditioning</flag>
<flag name="complex-scalars">Make scalars complex</flag>
<flag name="sparse">Use suitesparse (sci-libs/suitesparse) including cholmod (sci-libs/cholmod) for sparse factorization</flag>
<flag name="superlu">Use superlu (sci-libs/superlu) for preconditioning</flag>
<flag name="mumps">PLEASE FIX MY DESCRIPTION</flag>
<flag name="scotch">PLEASE FIX MY DESCRIPTION</flag>
- <!-- Disabled:
- <flag name="boost">Use boost (dev-libs/boost)</flag>
- -->
</use>
</pkgmetadata>
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 0000000..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:-$1}=0"
+ }
+ # add external library:
+ # petsc_with use_flag libname libdir
+ # petsc_with use_flag libname include linking_libs
+ petsc_with() {
+ local myuse p=${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
+
+ # 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)
+
+ # run petsc configure script
+ econf \
+ scrollOutput=1 \
+ CFLAGS="${CFLAGS}" \
+ CXXFLAGS="${CXXFLAGS}" \
+ LDFLAGS="${LDFLAGS}" \
+ --with-shared-libraries \
+ --with-single-library \
+ --with-clanguage=${mylang} \
+ $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
+ --with-petsc-arch=${PETSC_ARCH} \
+ --with-precision=double \
+ --with-gnu-compilers \
+ --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
+ $(petsc_enable debug debugging) \
+ $(petsc_enable mpi) \
+ $(petsc_select mpi cc mpicc $(tc-getCC)) \
+ $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
+ $(petsc_enable fortran) \
+ $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
+ $(petsc_enable mpi mpi-compilers) \
+ $(petsc_select complex-scalars scalar-type complex real) \
+ --with-windows-graphics=0 \
+ --with-matlab=0 \
+ --with-cmake=cmake \
+ $(petsc_enable threads pthread) \
+ $(petsc_with afterimage afterimage \
+ /usr/include/libAfterImage -lAfterImage) \
+ $(petsc_with hdf5) \
+ $(petsc_with hypre hypre \
+ /usr/include/hypre -lHYPRE) \
+ $(petsc_with sparse suitesparse) \
+ $(petsc_with superlu superlu \
+ /usr/include/superlu -lsuperlu) \
+ $(petsc_with X x) \
+ $(petsc_with X x11) \
+ $(petsc_with scotch ptscotch \
+ /usr/include/scotch \
+ [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
+ $(petsc_with mumps scalapack \
+ /usr/include/scalapack -lscalapack) \
+ $(petsc_with mumps mumps \
+ /usr/include \
+ [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
+ --with-imagemagick=0 \
+ --with-python=0 \
+ $(petsc_with boost) \
+ $(petsc_with fftw) \
+
+# not yet tested:
+# python bindings, netcdf, fftw
+
+# failed dependencies, perhaps fixed in upstream soon:
+# $(petsc_with metis parmetis) \ # needs metis too (>=5.0.2)
+# $(petsc_with imagemagick imagemagick \
+# /usr/include/ImageMagick $($(tc-getPKG_CONFIG) --libs MagickCore)) \
+# $(petsc_enable threads pthreadclasses) \
+}
+
+src_install() {
+ # petsc install structure is very different from
+ # installing headers to /usr/include/petsc and lib to /usr/lib
+ # it also installs many unneeded executables and scripts
+ # so manual install is easier than cleanup after "emake install"
+ insinto /usr/include/${PN}
+ doins include/*.h*
+ insinto /usr/include/${PN}/${PETSC_ARCH}/include
+ doins ${PETSC_ARCH}/include/*
+ if use fortran; then
+ insinto /usr/include/${PN}/finclude
+ doins include/finclude/*.h
+ fi
+ if ! use mpi ; then
+ insinto /usr/include/${PN}/mpiuni
+ doins include/mpiuni/*.h
+ fi
+ insinto /usr/include/${PN}/conf
+ doins conf/{variables,rules,test}
+ insinto /usr/include/${PN}/${PETSC_ARCH}/conf
+ doins ${PETSC_ARCH}/conf/{petscrules,petscvariables,RDict.db}
+ insinto /usr/include/${PN}/petsc-private
+ doins include/petsc-private/*.h
+
+ # fix configuration files: replace "${S}" by installed location
+ sed -i \
+ -e "s:"${S}"::g" \
+ "${ED}"/usr/include/${PN}/${PETSC_ARCH}/include/petscconf.h \
+ "${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
+
+ # add information about installation directory and
+ # PETSC_ARCH to environmental variables
+ cat >> 99petsc <<- EOF
+ PETSC_ARCH=${PETSC_ARCH}
+ PETSC_DIR=${EPREFIX}/usr/include/${PN}
+ EOF
+ doenvd 99petsc
+
+ dolib.so ${PETSC_ARCH}/lib/*.so
+
+ if use doc ; then
+ einfo "installing documentation (this could take a while)"
+ dodoc docs/manual.pdf
+ 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"
+}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2015-03-14 8:21 Justin Lecher
0 siblings, 0 replies; 19+ messages in thread
From: Justin Lecher @ 2015-03-14 8:21 UTC (permalink / raw
To: gentoo-commits
commit: e5b32727b4eb32e49f03c780c8c6005ee42a2843
Author: Matthias Maier <tamiko <AT> gentoo <DOT> org>
AuthorDate: Fri Mar 13 13:19:23 2015 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Sat Mar 14 08:21:00 2015 +0000
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 <tamiko@gentoo.org>
+ +files/petsc-3.5.3-disable-rpath.patch, +petsc-3.5.3.ebuild:
+ version bump
+
16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> 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 0000000..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 0000000..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
+ 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
+
+ # 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)
+
+ # run petsc configure script
+ econf \
+ scrollOutput=1 \
+ CFLAGS="${CFLAGS}" \
+ CXXFLAGS="${CXXFLAGS}" \
+ LDFLAGS="${LDFLAGS}" \
+ --with-shared-libraries \
+ --with-single-library \
+ --with-clanguage=${mylang} \
+ $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
+ --with-petsc-arch=${PETSC_ARCH} \
+ --with-precision=double \
+ --with-gnu-compilers \
+ --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
+ $(petsc_enable debug debugging) \
+ $(petsc_enable mpi) \
+ $(petsc_select mpi cc mpicc $(tc-getCC)) \
+ $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
+ $(petsc_enable fortran) \
+ $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
+ $(petsc_enable mpi mpi-compilers) \
+ $(petsc_select complex-scalars scalar-type complex real) \
+ --with-windows-graphics=0 \
+ --with-matlab=0 \
+ --with-cmake=cmake \
+ $(petsc_enable threads pthread) \
+ $(petsc_with afterimage afterimage \
+ /usr/include/libAfterImage -lAfterImage) \
+ $(petsc_with hdf5) \
+ $(petsc_with hypre hypre \
+ /usr/include/hypre -lHYPRE) \
+ $(petsc_with sparse suitesparse) \
+ $(petsc_with superlu superlu \
+ /usr/include/superlu -lsuperlu) \
+ $(petsc_with X x) \
+ $(petsc_with X x11) \
+ $(petsc_with scotch ptscotch \
+ /usr/include/scotch \
+ [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
+ $(petsc_with mumps scalapack \
+ /usr/include/scalapack -lscalapack) \
+ $(petsc_with mumps mumps \
+ /usr/include \
+ [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
+ --with-imagemagick=0 \
+ --with-python=0 \
+ $(petsc_with boost) \
+ $(petsc_with fftw)
+
+# not yet tested:
+# python bindings, netcdf, fftw
+
+# failed dependencies, perhaps fixed in upstream soon:
+# $(petsc_with metis parmetis) \ # needs metis too (>=5.0.2)
+# $(petsc_with imagemagick imagemagick \
+# /usr/include/ImageMagick $($(tc-getPKG_CONFIG) --libs MagickCore)) \
+# $(petsc_enable threads pthreadclasses) \
+}
+
+src_install() {
+ # petsc install structure is very different from
+ # installing headers to /usr/include/petsc and lib to /usr/lib
+ # it also installs many unneeded executables and scripts
+ # so manual install is easier than cleanup after "emake install"
+ insinto /usr/include/${PN}
+ doins include/*.h*
+ insinto /usr/include/${PN}/${PETSC_ARCH}/include
+ doins ${PETSC_ARCH}/include/*
+ if use fortran; then
+ insinto /usr/include/${PN}/finclude
+ doins -r include/finclude/*
+ fi
+ if ! use mpi ; then
+ insinto /usr/include/${PN}/mpiuni
+ doins include/mpiuni/*.h
+ fi
+ insinto /usr/include/${PN}/conf
+ doins conf/{variables,rules,test}
+ insinto /usr/include/${PN}/${PETSC_ARCH}/conf
+ doins ${PETSC_ARCH}/conf/{petscrules,petscvariables,RDict.db}
+ insinto /usr/include/${PN}/petsc-private
+ doins include/petsc-private/*.h
+
+ # fix configuration files: replace "${S}" by installed location
+ sed -i \
+ -e "s:"${S}"::g" \
+ "${ED}"/usr/include/${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
+
+ # add information about installation directory and
+ # PETSC_ARCH to environmental variables
+ cat >> 99petsc <<- EOF
+ PETSC_ARCH=${PETSC_ARCH}
+ PETSC_DIR=${EPREFIX}/usr/include/${PN}
+ EOF
+ 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)"
+ dodoc docs/manual.pdf
+ 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"
+}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2015-03-14 8:21 Justin Lecher
0 siblings, 0 replies; 19+ messages in thread
From: Justin Lecher @ 2015-03-14 8:21 UTC (permalink / raw
To: gentoo-commits
commit: ccf847720716a390cbe79d4b06b60113d9748774
Author: Matthias Maier <tamiko <AT> gentoo <DOT> org>
AuthorDate: Fri Mar 13 13:19:23 2015 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Fri Mar 13 13:19:23 2015 +0000
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 <tamiko@gentoo.org>
+ +files/petsc-3.5.3-disable-rpath.patch, +petsc-3.5.3.ebuild:
+ version bump
+
16 Sep 2014; Christoph Junghans <ottxor@gentoo.org> 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 0000000..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 0000000..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
+ 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
+
+ # 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)
+
+ # run petsc configure script
+ econf \
+ scrollOutput=1 \
+ CFLAGS="${CFLAGS}" \
+ CXXFLAGS="${CXXFLAGS}" \
+ LDFLAGS="${LDFLAGS}" \
+ --with-shared-libraries \
+ --with-single-library \
+ --with-clanguage=${mylang} \
+ $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
+ --with-petsc-arch=${PETSC_ARCH} \
+ --with-precision=double \
+ --with-gnu-compilers \
+ --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
+ $(petsc_enable debug debugging) \
+ $(petsc_enable mpi) \
+ $(petsc_select mpi cc mpicc $(tc-getCC)) \
+ $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
+ $(petsc_enable fortran) \
+ $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
+ $(petsc_enable mpi mpi-compilers) \
+ $(petsc_select complex-scalars scalar-type complex real) \
+ --with-windows-graphics=0 \
+ --with-matlab=0 \
+ --with-cmake=cmake \
+ $(petsc_enable threads pthread) \
+ $(petsc_with afterimage afterimage \
+ /usr/include/libAfterImage -lAfterImage) \
+ $(petsc_with hdf5) \
+ $(petsc_with hypre hypre \
+ /usr/include/hypre -lHYPRE) \
+ $(petsc_with sparse suitesparse) \
+ $(petsc_with superlu superlu \
+ /usr/include/superlu -lsuperlu) \
+ $(petsc_with X x) \
+ $(petsc_with X x11) \
+ $(petsc_with scotch ptscotch \
+ /usr/include/scotch \
+ [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
+ $(petsc_with mumps scalapack \
+ /usr/include/scalapack -lscalapack) \
+ $(petsc_with mumps mumps \
+ /usr/include \
+ [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
+ --with-imagemagick=0 \
+ --with-python=0 \
+ $(petsc_with boost) \
+ $(petsc_with fftw)
+
+# not yet tested:
+# python bindings, netcdf, fftw
+
+# failed dependencies, perhaps fixed in upstream soon:
+# $(petsc_with metis parmetis) \ # needs metis too (>=5.0.2)
+# $(petsc_with imagemagick imagemagick \
+# /usr/include/ImageMagick $($(tc-getPKG_CONFIG) --libs MagickCore)) \
+# $(petsc_enable threads pthreadclasses) \
+}
+
+src_install() {
+ # petsc install structure is very different from
+ # installing headers to /usr/include/petsc and lib to /usr/lib
+ # it also installs many unneeded executables and scripts
+ # so manual install is easier than cleanup after "emake install"
+ insinto /usr/include/${PN}
+ doins include/*.h*
+ insinto /usr/include/${PN}/${PETSC_ARCH}/include
+ doins ${PETSC_ARCH}/include/*
+ if use fortran; then
+ insinto /usr/include/${PN}/finclude
+ doins -r include/finclude/*
+ fi
+ if ! use mpi ; then
+ insinto /usr/include/${PN}/mpiuni
+ doins include/mpiuni/*.h
+ fi
+ insinto /usr/include/${PN}/conf
+ doins conf/{variables,rules,test}
+ insinto /usr/include/${PN}/${PETSC_ARCH}/conf
+ doins ${PETSC_ARCH}/conf/{petscrules,petscvariables,RDict.db}
+ insinto /usr/include/${PN}/petsc-private
+ doins include/petsc-private/*.h
+
+ # fix configuration files: replace "${S}" by installed location
+ sed -i \
+ -e "s:"${S}"::g" \
+ "${ED}"/usr/include/${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
+
+ # add information about installation directory and
+ # PETSC_ARCH to environmental variables
+ cat >> 99petsc <<- EOF
+ PETSC_ARCH=${PETSC_ARCH}
+ PETSC_DIR=${EPREFIX}/usr/include/${PN}
+ EOF
+ 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)"
+ dodoc docs/manual.pdf
+ 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"
+}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2018-04-23 1:21 Matthias Maier
0 siblings, 0 replies; 19+ messages in thread
From: Matthias Maier @ 2018-04-23 1:21 UTC (permalink / raw
To: gentoo-commits
commit: 5cef376ca642f43faa2462e0553b0d6e0384de9e
Author: Matthias Maier <tamiko <AT> gentoo <DOT> org>
AuthorDate: Mon Apr 23 00:30:26 2018 +0000
Commit: Matthias Maier <tamiko <AT> gentoo <DOT> org>
CommitDate: Mon Apr 23 00:30:26 2018 +0000
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 000000000..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 000000000..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="${myuse} --with-${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="${EPREFIX}/usr/$(get_libdir)/petsc" \
+ --with-shared-libraries \
+ --with-single-library \
+ --with-clanguage=${mylang} \
+ $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
+ --with-petsc-arch=${PETSC_ARCH} \
+ --with-precision=double \
+ --with-gnu-compilers \
+ --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
+ $(petsc_enable debug debugging) \
+ $(petsc_enable mpi) \
+ $(petsc_select mpi cc mpicc $(tc-getCC)) \
+ $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
+ $(petsc_enable fortran) \
+ $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
+ $(petsc_enable mpi mpi-compilers) \
+ $(petsc_select complex-scalars scalar-type complex real) \
+ --with-windows-graphics=0 \
+ --with-matlab=0 \
+ --with-cmake=cmake \
+ $(petsc_enable threads pthread) \
+ $(petsc_with afterimage afterimage \
+ /usr/include/libAfterImage -lAfterImage) \
+ $(petsc_with hdf5) \
+ $(petsc_with hypre hypre \
+ /usr/include/hypre -lHYPRE) \
+ $(petsc_with sparse suitesparse) \
+ $(petsc_with superlu superlu \
+ /usr/include/superlu -lsuperlu) \
+ $(petsc_with X x) \
+ $(petsc_with X x11) \
+ $(petsc_with scotch ptscotch \
+ /usr/include/scotch \
+ [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
+ $(petsc_with mumps scalapack \
+ /usr/include/scalapack -lscalapack) \
+ $(petsc_with mumps mumps \
+ /usr/include \
+ [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
+ --with-imagemagick=0 \
+ --with-python=0 \
+ $(petsc_with boost) \
+ $(petsc_with fftw)
+}
+
+src_install() {
+ emake DESTDIR="${D}/usr/$(get_libdir)/petsc" install
+
+ # add PETSC_DIR to environmental variables
+ cat >> 99petsc <<- EOF
+ PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petsc
+ EOF
+ doenvd 99petsc
+
+ if use doc ; then
+ dodoc docs/developers.pdf docs/manual.pdf
+ dohtml -r docs/*.html docs/changes docs/manualpages
+ fi
+}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2018-08-31 15:39 Matthias Maier
0 siblings, 0 replies; 19+ messages in thread
From: Matthias Maier @ 2018-08-31 15:39 UTC (permalink / raw
To: gentoo-commits
commit: 7942c05fe297d82b7f4a1e81282aaa9b3bfb406a
Author: Matthias Maier <tamiko <AT> gentoo <DOT> org>
AuthorDate: Fri Aug 31 03:25:26 2018 +0000
Commit: Matthias Maier <tamiko <AT> gentoo <DOT> org>
CommitDate: Fri Aug 31 03:25:26 2018 +0000
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..000000000
--- 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..000000000
--- 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..000000000
--- a/sci-mathematics/petsc/files/petsc-3.6.0-fix_sandbox_violation.patch
+++ /dev/null
@@ -1,15 +0,0 @@
---- config/PETSc/options/installDir.py.orig 2015-06-23 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..000000000
--- 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.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-3.7.7-r1.ebuild b/sci-mathematics/petsc/petsc-3.7.7-r1.ebuild
deleted file mode 100644
index ddd6202e0..000000000
--- a/sci-mathematics/petsc/petsc-3.7.7-r1.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="~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}-3.7.0-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="${EPREFIX}/usr/$(get_libdir)/petsc" \
- --with-shared-libraries \
- --with-single-library \
- --with-clanguage=${mylang} \
- $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
- --with-petsc-arch=${PETSC_ARCH} \
- --with-precision=double \
- --with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
- $(petsc_enable debug debugging) \
- $(petsc_enable mpi) \
- $(petsc_select mpi cc mpicc $(tc-getCC)) \
- $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
- $(petsc_enable fortran) \
- $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
- $(petsc_enable mpi mpi-compilers) \
- $(petsc_select complex-scalars scalar-type complex real) \
- --with-windows-graphics=0 \
- --with-matlab=0 \
- --with-cmake=cmake \
- $(petsc_enable threads pthread) \
- $(petsc_with afterimage afterimage \
- /usr/include/libAfterImage -lAfterImage) \
- $(petsc_with hdf5) \
- $(petsc_with hypre hypre \
- /usr/include/hypre -lHYPRE) \
- $(petsc_with sparse suitesparse) \
- $(petsc_with superlu superlu \
- /usr/include/superlu -lsuperlu) \
- $(petsc_with X x) \
- $(petsc_with X x11) \
- $(petsc_with scotch ptscotch \
- /usr/include/scotch \
- [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
- $(petsc_with mumps scalapack \
- /usr/include/scalapack -lscalapack) \
- $(petsc_with mumps mumps \
- /usr/include \
- [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
- --with-imagemagick=0 \
- --with-python=0 \
- $(petsc_with boost) \
- $(petsc_with fftw)
-}
-
-src_install() {
- emake DESTDIR="${D}/usr/$(get_libdir)/petsc" install
-
- # add PETSC_DIR to environmental variables
- cat >> 99petsc <<- EOF
- PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petsc
- EOF
- doenvd 99petsc
-
- if use doc ; then
- dodoc docs/developers.pdf docs/manual.pdf
- dohtml -r docs/*.html docs/changes docs/manualpages
- fi
-}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2019-07-12 11:19 Matthias Maier
0 siblings, 0 replies; 19+ messages in thread
From: Matthias Maier @ 2019-07-12 11:19 UTC (permalink / raw
To: gentoo-commits
commit: fd85a467bb08d7e711568fd09cc890755878ba62
Author: Matthias Maier <tamiko <AT> gentoo <DOT> org>
AuthorDate: Fri Jul 12 10:56:29 2019 +0000
Commit: Matthias Maier <tamiko <AT> gentoo <DOT> org>
CommitDate: Fri Jul 12 10:56:29 2019 +0000
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 <tamiko <AT> 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..000000000
--- 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..000000000
--- 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 [[ $# -ge 4 ]]; then
- myuse="${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="${EPREFIX}/usr/$(get_libdir)/petsc" \
- --with-shared-libraries \
- --with-single-library \
- --with-clanguage=${mylang} \
- $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
- --with-petsc-arch=${PETSC_ARCH} \
- --with-precision=double \
- --with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
- $(petsc_enable debug debugging) \
- $(petsc_enable mpi) \
- $(petsc_select mpi cc mpicc $(tc-getCC)) \
- $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
- $(petsc_enable fortran) \
- $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
- $(petsc_enable mpi mpi-compilers) \
- $(petsc_select complex-scalars scalar-type complex real) \
- --with-windows-graphics=0 \
- --with-matlab=0 \
- --with-cmake=cmake \
- $(petsc_enable threads pthread) \
- $(petsc_with afterimage afterimage \
- /usr/include/libAfterImage -lAfterImage) \
- $(petsc_with hdf5) \
- $(petsc_with hypre hypre \
- /usr/include/hypre -lHYPRE) \
- $(petsc_with sparse suitesparse) \
- $(petsc_with superlu superlu \
- /usr/include/superlu -lsuperlu) \
- $(petsc_with X x) \
- $(petsc_with X x11) \
- $(petsc_with scotch ptscotch \
- /usr/include/scotch \
- [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
- $(petsc_with mumps scalapack \
- /usr/include/scalapack -lscalapack) \
- $(petsc_with mumps mumps \
- /usr/include \
- [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
- --with-imagemagick=0 \
- --with-python=0 \
- $(petsc_with boost) \
- $(petsc_with fftw)
-}
-
-src_install() {
- emake DESTDIR="${D}/usr/$(get_libdir)/petsc" install
-
- # add PETSC_DIR to environmental variables
- cat >> 99petsc <<- EOF
- PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petsc
- EOF
- doenvd 99petsc
-
- if use doc ; then
- dodoc docs/developers.pdf docs/manual.pdf
- dohtml -r docs/*.html docs/changes docs/manualpages
- fi
-}
diff --git a/sci-mathematics/petsc/petsc-3.9.4.ebuild b/sci-mathematics/petsc/petsc-3.9.4.ebuild
deleted file mode 100644
index b67536ef6..000000000
--- a/sci-mathematics/petsc/petsc-3.9.4.ebuild
+++ /dev/null
@@ -1,196 +0,0 @@
-# Copyright 1999-2018 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-PYTHON_COMPAT=( python2_7 )
-
-inherit eutils flag-o-matic fortran-2 python-any-r1 toolchain-funcs versionator
-
-MY_P="${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="~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="${myuse} --with-${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="${EPREFIX}/usr/$(get_libdir)/petsc" \
- --with-shared-libraries \
- --with-single-library \
- --with-clanguage=${mylang} \
- $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
- --with-petsc-arch=${PETSC_ARCH} \
- --with-precision=double \
- --with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs lapack)" \
- $(petsc_enable debug debugging) \
- $(petsc_enable mpi) \
- $(petsc_select mpi cc mpicc $(tc-getCC)) \
- $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
- $(petsc_enable fortran) \
- $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
- $(petsc_enable mpi mpi-compilers) \
- $(petsc_select complex-scalars scalar-type complex real) \
- --with-windows-graphics=0 \
- --with-matlab=0 \
- --with-cmake=cmake \
- $(petsc_enable threads pthread) \
- $(petsc_with afterimage afterimage \
- /usr/include/libAfterImage -lAfterImage) \
- $(petsc_with hdf5) \
- $(petsc_with hypre hypre \
- /usr/include/hypre -lHYPRE) \
- $(petsc_with sparse suitesparse) \
- $(petsc_with superlu superlu \
- /usr/include/superlu -lsuperlu) \
- $(petsc_with X x) \
- $(petsc_with X x11) \
- $(petsc_with scotch ptscotch \
- /usr/include/scotch \
- [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
- $(petsc_with mumps scalapack \
- /usr/include/scalapack -lscalapack) \
- $(petsc_with mumps mumps \
- /usr/include \
- [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
- --with-imagemagick=0 \
- --with-python=0 \
- $(petsc_with boost) \
- $(petsc_with fftw)
-}
-
-src_install() {
- emake DESTDIR="${ED}" install
-
- # add PETSC_DIR to environmental variables
- cat >> 99petsc <<- EOF
- PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petsc
- EOF
- doenvd 99petsc
-
- if use doc ; then
- dodoc docs/developers.pdf docs/manual.pdf
- dohtml -r docs/*.html docs/changes docs/manualpages
- fi
-}
^ permalink raw reply related [flat|nested] 19+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/
@ 2019-08-05 6:52 Matthias Maier
0 siblings, 0 replies; 19+ messages in thread
From: Matthias Maier @ 2019-08-05 6:52 UTC (permalink / raw
To: gentoo-commits
commit: 56534d2726843525afa4f90024a8ba51c5c66383
Author: Matthias Maier <tamiko <AT> gentoo <DOT> org>
AuthorDate: Mon Aug 5 06:46:08 2019 +0000
Commit: Matthias Maier <tamiko <AT> gentoo <DOT> org>
CommitDate: Mon Aug 5 06:46:08 2019 +0000
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 <tamiko <AT> 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..000000000
--- 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..000000000
--- 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..000000000
--- a/sci-mathematics/petsc/metadata.xml
+++ /dev/null
@@ -1,23 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
- <maintainer type="person">
- <email>tamiko@gentoo.org</email>
- <name>Matthias Maier</name>
- </maintainer>
- <maintainer type="project">
- <email>sci-mathematics@gentoo.org</email>
- <name>Gentoo Mathematics Project</name>
- </maintainer>
- <use>
- <flag name="afterimage">Use Afterstep image library (media-libs/libafterimage)</flag>
- <flag name="boost">Use boost (dev-libs/boost)</flag>
- <flag name="hypre">Use HYPRE (sci-mathematics/hypre) and for preconditioning</flag>
- <flag name="complex-scalars">Make scalars complex</flag>
- <flag name="metis">Add support for metis (<pkg>sci-libs/parmetis</pkg>)</flag>
- <flag name="sparse">Use suitesparse (sci-libs/suitesparse) including cholmod (sci-libs/cholmod) for sparse factorization</flag>
- <flag name="superlu">Use superlu (sci-libs/superlu) for preconditioning</flag>
- <flag name="mumps">Add support for mumps (<pkg>sci-libs/mumps</pkg>)</flag>
- <flag name="scotch">Add support for scotch (<pkg>sci-libs/scotch</pkg>)</flag>
- </use>
-</pkgmetadata>
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..000000000
--- 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.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="${EPREFIX}/usr/$(get_libdir)/petsc" \
- --with-shared-libraries \
- --with-single-library \
- --with-clanguage=${mylang} \
- $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
- --with-petsc-arch=${PETSC_ARCH} \
- --with-precision=double \
- --with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas lapack)" \
- $(petsc_enable debug debugging) \
- $(petsc_enable mpi) \
- $(petsc_select mpi cc mpicc $(tc-getCC)) \
- $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
- $(petsc_enable fortran) \
- $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
- $(petsc_enable mpi mpi-compilers) \
- $(petsc_select complex-scalars scalar-type complex real) \
- --with-windows-graphics=0 \
- --with-matlab=0 \
- --with-cmake:BOOL=1 \
- $(petsc_enable threads pthread) \
- $(petsc_with afterimage afterimage \
- /usr/include/libAfterImage -lAfterImage) \
- $(petsc_with hdf5) \
- $(petsc_with hypre hypre \
- /usr/include/hypre -lHYPRE) \
- $(petsc_with sparse suitesparse) \
- $(petsc_with superlu superlu \
- /usr/include/superlu -lsuperlu) \
- $(petsc_with X x) \
- $(petsc_with X x11) \
- $(petsc_with scotch ptscotch \
- /usr/include/scotch \
- [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
- $(petsc_with mumps scalapack \
- /usr/include/scalapack -lscalapack) \
- $(petsc_with mumps mumps \
- /usr/include \
- [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
- --with-imagemagick=0 \
- --with-python=0 \
- $(petsc_with boost) \
- $(petsc_with fftw)
-}
-
-src_install() {
- emake DESTDIR="${ED}" install
-
- # add PETSC_DIR to environmental variables
- cat >> 99petsc <<- EOF
- PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petsc
- EOF
- doenvd 99petsc
-
- if use doc ; then
- dodoc docs/developers.pdf docs/manual.pdf
- dohtml -r docs/*.html docs/changes docs/manualpages
- fi
-}
diff --git a/sci-mathematics/petsc/petsc-3.10.4.ebuild b/sci-mathematics/petsc/petsc-3.10.4.ebuild
deleted file mode 100644
index 418196a8d..000000000
--- a/sci-mathematics/petsc/petsc-3.10.4.ebuild
+++ /dev/null
@@ -1,192 +0,0 @@
-# Copyright 1999-2019 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.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="${EPREFIX}/usr/$(get_libdir)/petsc" \
- --with-shared-libraries \
- --with-single-library \
- --with-clanguage=${mylang} \
- $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
- --with-petsc-arch=${PETSC_ARCH} \
- --with-precision=double \
- --with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas lapack)" \
- $(petsc_enable debug debugging) \
- $(petsc_enable mpi) \
- $(petsc_select mpi cc mpicc $(tc-getCC)) \
- $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
- $(petsc_enable fortran) \
- $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
- $(petsc_enable mpi mpi-compilers) \
- $(petsc_select complex-scalars scalar-type complex real) \
- --with-windows-graphics=0 \
- --with-matlab=0 \
- --with-cmake:BOOL=1 \
- $(petsc_enable threads pthread) \
- $(petsc_with afterimage afterimage \
- /usr/include/libAfterImage -lAfterImage) \
- $(petsc_with hdf5) \
- $(petsc_with hypre hypre \
- /usr/include/hypre -lHYPRE) \
- $(petsc_with sparse suitesparse) \
- $(petsc_with superlu superlu \
- /usr/include/superlu -lsuperlu) \
- $(petsc_with X x) \
- $(petsc_with X x11) \
- $(petsc_with scotch ptscotch \
- /usr/include/scotch \
- [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
- $(petsc_with mumps scalapack \
- /usr/include/scalapack -lscalapack) \
- $(petsc_with mumps mumps \
- /usr/include \
- [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
- --with-imagemagick=0 \
- --with-python=0 \
- $(petsc_with boost) \
- $(petsc_with fftw)
-}
-
-src_install() {
- emake DESTDIR="${ED}" install
-
- # add PETSC_DIR to environmental variables
- cat >> 99petsc <<- EOF
- PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petsc
- EOF
- doenvd 99petsc
-
- if use doc ; then
- dodoc docs/developers.pdf docs/manual.pdf
- dohtml -r docs/*.html docs/changes docs/manualpages
- fi
-}
diff --git a/sci-mathematics/petsc/petsc-3.11.1.ebuild b/sci-mathematics/petsc/petsc-3.11.1.ebuild
deleted file mode 100644
index 99676386d..000000000
--- a/sci-mathematics/petsc/petsc-3.11.1.ebuild
+++ /dev/null
@@ -1,191 +0,0 @@
-# Copyright 1999-2019 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.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="${EPREFIX}/usr/$(get_libdir)/petsc" \
- --with-shared-libraries \
- --with-single-library \
- --with-clanguage=${mylang} \
- $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
- --with-petsc-arch=${PETSC_ARCH} \
- --with-precision=double \
- --with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas lapack)" \
- $(petsc_enable debug debugging) \
- $(petsc_enable mpi) \
- $(petsc_select mpi cc mpicc $(tc-getCC)) \
- $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
- $(petsc_enable fortran) \
- $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
- $(petsc_enable mpi mpi-compilers) \
- $(petsc_select complex-scalars scalar-type complex real) \
- --with-windows-graphics=0 \
- --with-matlab=0 \
- --with-cmake:BOOL=1 \
- $(petsc_enable threads pthread) \
- $(petsc_with afterimage afterimage \
- /usr/include/libAfterImage -lAfterImage) \
- $(petsc_with hdf5) \
- $(petsc_with hypre hypre \
- /usr/include/hypre -lHYPRE) \
- $(petsc_with sparse suitesparse) \
- $(petsc_with superlu superlu \
- /usr/include/superlu -lsuperlu) \
- $(petsc_with X x) \
- $(petsc_with X x11) \
- $(petsc_with scotch ptscotch \
- /usr/include/scotch \
- [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
- $(petsc_with mumps scalapack \
- /usr/include/scalapack -lscalapack) \
- $(petsc_with mumps mumps \
- /usr/include \
- [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
- --with-imagemagick=0 \
- --with-python=0 \
- $(petsc_with boost) \
- $(petsc_with fftw)
-}
-
-src_install() {
- emake DESTDIR="${ED}" install
-
- # add PETSC_DIR to environmental variables
- cat >> 99petsc <<- EOF
- PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petsc
- EOF
- doenvd 99petsc
-
- if use doc ; then
- dohtml -r docs/*.html docs/changes docs/manualpages
- fi
-}
diff --git a/sci-mathematics/petsc/petsc-3.11.3.ebuild b/sci-mathematics/petsc/petsc-3.11.3.ebuild
deleted file mode 100644
index 99676386d..000000000
--- a/sci-mathematics/petsc/petsc-3.11.3.ebuild
+++ /dev/null
@@ -1,191 +0,0 @@
-# Copyright 1999-2019 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.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="${EPREFIX}/usr/$(get_libdir)/petsc" \
- --with-shared-libraries \
- --with-single-library \
- --with-clanguage=${mylang} \
- $(use cxx && ! use complex-scalars && echo "with-c-support=1") \
- --with-petsc-arch=${PETSC_ARCH} \
- --with-precision=double \
- --with-gnu-compilers \
- --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas lapack)" \
- $(petsc_enable debug debugging) \
- $(petsc_enable mpi) \
- $(petsc_select mpi cc mpicc $(tc-getCC)) \
- $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \
- $(petsc_enable fortran) \
- $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \
- $(petsc_enable mpi mpi-compilers) \
- $(petsc_select complex-scalars scalar-type complex real) \
- --with-windows-graphics=0 \
- --with-matlab=0 \
- --with-cmake:BOOL=1 \
- $(petsc_enable threads pthread) \
- $(petsc_with afterimage afterimage \
- /usr/include/libAfterImage -lAfterImage) \
- $(petsc_with hdf5) \
- $(petsc_with hypre hypre \
- /usr/include/hypre -lHYPRE) \
- $(petsc_with sparse suitesparse) \
- $(petsc_with superlu superlu \
- /usr/include/superlu -lsuperlu) \
- $(petsc_with X x) \
- $(petsc_with X x11) \
- $(petsc_with scotch ptscotch \
- /usr/include/scotch \
- [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \
- $(petsc_with mumps scalapack \
- /usr/include/scalapack -lscalapack) \
- $(petsc_with mumps mumps \
- /usr/include \
- [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
- --with-imagemagick=0 \
- --with-python=0 \
- $(petsc_with boost) \
- $(petsc_with fftw)
-}
-
-src_install() {
- emake DESTDIR="${ED}" install
-
- # add PETSC_DIR to environmental variables
- cat >> 99petsc <<- EOF
- PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petsc
- EOF
- doenvd 99petsc
-
- if use doc ; then
- dohtml -r docs/*.html docs/changes docs/manualpages
- fi
-}
^ permalink raw reply related [flat|nested] 19+ messages in thread
end of thread, other threads:[~2019-08-05 6:53 UTC | newest]
Thread overview: 19+ messages (download: mbox.gz follow: Atom feed
-- links below jump to the message on this page --
2013-01-07 21:58 [gentoo-commits] proj/sci:master commit in: sci-mathematics/petsc/files/, sci-mathematics/petsc/ Jens-Malte Gottfried
-- strict thread matches above, loose matches on Subject: below --
2019-08-05 6:52 Matthias Maier
2019-07-12 11:19 Matthias Maier
2018-08-31 15:39 Matthias Maier
2018-04-23 1:21 Matthias Maier
2015-03-14 8:21 Justin Lecher
2015-03-14 8:21 Justin Lecher
2014-07-24 21:50 Jens-Malte Gottfried
2013-10-18 16:19 Christoph Junghans
2013-02-22 10:15 Justin Lecher
2013-02-09 18:30 Jens-Malte Gottfried
2013-01-07 22:06 Jens-Malte Gottfried
2012-06-28 8:25 Jens-Malte Gottfried
2012-06-09 6:16 Jens-Malte Gottfried
2012-03-06 23:09 Jens-Malte Gottfried
2012-03-05 23:09 Sebastien Fabbro
2012-03-04 12:38 Jens-Malte Gottfried
2012-03-01 17:54 Jens-Malte Gottfried
2011-03-19 12:05 Jens-Malte Gottfried
This is a public inbox, see mirroring instructions
for how to clone and mirror all data and code used for this inbox