tFix petsc4py build - petsc-git-PKGBUILD - build template for non-complex PETSC with petsc4py
(HTM) git clone git://src.adamsgaard.dk/petsc-git-PKGBUILD
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---
(DIR) commit e87f7eb14461b0f0ebda9a18ac29d34040b4a8c4
(DIR) parent 9e588e9dcb2f1284e64a72619878342e58951ff1
(HTM) Author: Lucas Heitzmann Gabrielli <heitzmann@gmail.com>
Date: Wed, 3 Feb 2021 17:03:02 -0300
Fix petsc4py build
Diffstat:
M .SRCINFO | 4 +++-
M PKGBUILD | 63 +++++++++++++++++--------------
A petsc4py.patch | 11 +++++++++++
3 files changed, 49 insertions(+), 29 deletions(-)
---
(DIR) diff --git a/.SRCINFO b/.SRCINFO
t@@ -1,7 +1,7 @@
pkgbase = petsc-git
pkgdesc = Portable, extensible toolkit for scientific computation (external downloads enabled)
pkgver = 20210203
- pkgrel = 1
+ pkgrel = 2
url = https://gitlab.com/petsc/petsc
install = petsc.install
arch = i686
t@@ -34,7 +34,9 @@ pkgbase = petsc-git
provides = petsc
conflicts = petsc
source = petsc::git+https://gitlab.com/petsc/petsc.git#branch=release
+ source = petsc4py.patch
sha256sums = SKIP
+ sha256sums = b0f4a9d33e9c3ba3f51b81808f04ec66091b0a29cf99cac6392e97232edec768
pkgname = petsc-git
(DIR) diff --git a/PKGBUILD b/PKGBUILD
t@@ -2,7 +2,7 @@
pkgname=petsc-git
pkgver=20210203
-pkgrel=1
+pkgrel=2
_config=linux-c-opt
pkgdesc="Portable, extensible toolkit for scientific computation (external downloads enabled)"
provides=(petsc)
t@@ -19,10 +19,14 @@ optdepends=("opencl: GPU computing"
"libyaml: YAML configuration support"
"libx11: GUI tools")
install=petsc.install
-source=(petsc::git+https://gitlab.com/petsc/petsc.git#branch=release)
-sha256sums=('SKIP')
+source=(petsc::git+https://gitlab.com/petsc/petsc.git#branch=release
+ petsc4py.patch)
+sha256sums=('SKIP'
+ 'b0f4a9d33e9c3ba3f51b81808f04ec66091b0a29cf99cac6392e97232edec768')
_petsc_arch="arch-${_config}"
+_petsc_dir='/usr/local/petsc'
+_install_dir="${_petsc_dir}/${_config}"
generic_flags="-fPIC -fopenmp -O3 -march=x86-64 -mtune=generic"
# generic_flags="-fPIC -fopenmp -O3 -march=amdfam10 -mtune=generic"
t@@ -48,6 +52,7 @@ pkgver() {
prepare() {
cd "${srcdir}/petsc"
sed -i 's-\(self.publicInstall[^=]*=[[:space:]]\)[^#]*-\10 -g' config/BuildSystem/config/package.py
+ patch -p1 < ../petsc4py.patch
}
t@@ -126,13 +131,11 @@ build() {
# "linux-c-debug" for some things, so _config should be changed to "linux-c-debug"
#CONFOPTS="${CONFOPTS} --with-debugging=1"
- dirpkg=${srcdir}/petsc/${_petsc_arch}/externalpackages/
-
export PETSC_DIR="${srcdir}/petsc"
export PETSC_ARCH="${_petsc_arch}"
python ./configure LDFLAGS="$LDFLAGS" \
- --prefix=/usr/petsc/${_config} \
+ --prefix="${_petsc_dir}/${_config}" \
--MAKEFLAGS="$MAKEFLAGS" \
$(for (( i=1; i<=${#CONFOPTS[@]}; i++)); do echo "${CONFOPTS[$i]}"; done)
make clean
t@@ -143,13 +146,15 @@ package() {
cd petsc
_build_dir="${srcdir}/petsc"
- _install_dir=/usr/petsc/${_config}
export PETSC_DIR=${_build_dir}
export PETSC_ARCH="${_petsc_arch}"
make DESTDIR="${pkgdir}" install
+ # Fix petsc4py runpath
+ chrpath -r "${_install_dir}/lib:/usr/lib/openmpi" ${_build_dir}/${_petsc_arch}/lib/petsc4py/lib/${_petsc_arch}/PETSc.cpython-39-x86_64-linux-gnu.so
+
# install license
install -Dm 644 ${_build_dir}/LICENSE ${pkgdir}/usr/share/licenses/${pkgname}/LICENSE
t@@ -169,28 +174,30 @@ package() {
sed -i "s#${_rem_dir}#${_install_dir}#g" "${pkgdir}${_install_dir}/lib/petsc/conf/pkg.conf.mumps"
sed -i "s#${_rem_dir}#${_install_dir}#g" "${pkgdir}${_install_dir}/lib/petsc/conf/pkg.conf.hypre"
sed -i "s#${_rem_dir}#${_install_dir}#g" "${pkgdir}${_install_dir}/lib/petsc/conf/petscvariables"
+ sed -i "s#${_rem_dir}#${_install_dir}#g" "${pkgdir}${_install_dir}/lib/petsc/conf/petscrules"
+ sed -i "s#${_build_dir}#${_petsc_dir}#g" "${_rem_dir}/lib/petsc4py/lib/petsc.cfg"
# install petsc4py
_python_package="${pkgdir}/usr/lib/python3.9/site-packages"
- install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/PKG-INFO" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/PKG-INFO"
- install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/SOURCES.txt" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/SOURCES.txt"
- install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/dependency_links.txt" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/dependency_links.txt"
- install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/not-zip-safe" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/not-zip-safe"
- install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/requires.txt" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/requires.txt"
- install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/top_level.txt" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/top_level.txt"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/__init__.py" "${_python_package}/petsc4py/__init__.py"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/__main__.py" "${_python_package}/petsc4py/__main__.py"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/PETSc.pxd" "${_python_package}/petsc4py/PETSc.pxd"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/PETSc.py" "${_python_package}/petsc4py/PETSc.py"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/__init__.pxd" "${_python_package}/petsc4py/include/petsc4py/__init__.pxd"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/__init__.pyx" "${_python_package}/petsc4py/include/petsc4py/__init__.pyx"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/numpy.h" "${_python_package}/petsc4py/include/petsc4py/numpy.h"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/petsc4py.h" "${_python_package}/petsc4py/include/petsc4py/petsc4py.h"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/petsc4py.i" "${_python_package}/petsc4py/include/petsc4py/petsc4py.i"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/petsc4py.PETSc_api.h" "${_python_package}/petsc4py/include/petsc4py/petsc4py.PETSc_api.h"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/petsc4py.PETSc.h" "${_python_package}/petsc4py/include/petsc4py/petsc4py.PETSc.h"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/PETSc.pxd" "${_python_package}/petsc4py/include/petsc4py/PETSc.pxd"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/lib/__init__.py" "${_python_package}/petsc4py/lib/__init__.py"
- install -Dm 644 "${_rem_dir}/lib/petsc4py/lib/petsc.cfg" "${_python_package}/petsc4py/lib/petsc.cfg"
- install -Dm 755 "${_rem_dir}/lib/petsc4py/lib/PETSc.cpython-39-x86_64-linux-gnu.so" "${_python_package}/petsc4py/lib/PETSc.cpython-39-x86_64-linux-gnu.so"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/PKG-INFO" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/PKG-INFO"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/SOURCES.txt" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/SOURCES.txt"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/dependency_links.txt" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/dependency_links.txt"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/not-zip-safe" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/not-zip-safe"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/requires.txt" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/requires.txt"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py-3.14.1-py3.9.egg-info/top_level.txt" "${_python_package}/petsc4py-3.14.1-py3.9.egg-info/top_level.txt"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/__init__.py" "${_python_package}/petsc4py/__init__.py"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/__main__.py" "${_python_package}/petsc4py/__main__.py"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/PETSc.pxd" "${_python_package}/petsc4py/PETSc.pxd"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/PETSc.py" "${_python_package}/petsc4py/PETSc.py"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/__init__.pxd" "${_python_package}/petsc4py/include/petsc4py/__init__.pxd"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/__init__.pyx" "${_python_package}/petsc4py/include/petsc4py/__init__.pyx"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/numpy.h" "${_python_package}/petsc4py/include/petsc4py/numpy.h"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/petsc4py.h" "${_python_package}/petsc4py/include/petsc4py/petsc4py.h"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/petsc4py.i" "${_python_package}/petsc4py/include/petsc4py/petsc4py.i"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/petsc4py.PETSc_api.h" "${_python_package}/petsc4py/include/petsc4py/petsc4py.PETSc_api.h"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/petsc4py.PETSc.h" "${_python_package}/petsc4py/include/petsc4py/petsc4py.PETSc.h"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/include/petsc4py/PETSc.pxd" "${_python_package}/petsc4py/include/petsc4py/PETSc.pxd"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/lib/__init__.py" "${_python_package}/petsc4py/lib/__init__.py"
+ install -Dm 644 "${_rem_dir}/lib/petsc4py/lib/petsc.cfg" "${_python_package}/petsc4py/lib/petsc.cfg"
+ install -Dm 755 "${_rem_dir}/lib/petsc4py/lib/${_petsc_arch}/PETSc.cpython-39-x86_64-linux-gnu.so" "${_python_package}/petsc4py/lib/PETSc.cpython-39-x86_64-linux-gnu.so"
}
(DIR) diff --git a/petsc4py.patch b/petsc4py.patch
t@@ -0,0 +1,11 @@
+--- a/config/BuildSystem/config/packages/petsc4py.py
++++ b/config/BuildSystem/config/packages/petsc4py.py
+@@ -46,7 +46,7 @@
+
+ # if installing prefix location then need to set new value for PETSC_DIR/PETSC_ARCH
+ if self.argDB['prefix'] and not 'package-prefix-hash' in self.argDB:
+- newdir = 'PETSC_DIR='+os.path.abspath(os.path.expanduser(self.argDB['prefix']))+' '+'PETSC_ARCH= MPICC=${PCC} '
++ newdir = 'MPICC=${PCC} '
+ else:
+ newdir = 'MPICC=${PCC} '
+