petsc-git-PKGBUILD

commit e87f7eb14461b0f0ebda9a18ac29d34040b4a8c4
parent 9e588e9dcb2f1284e64a72619878342e58951ff1
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(-)
diff --git a/.SRCINFO b/.SRCINFO
@@ -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
@@ -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
 
diff --git a/PKGBUILD b/PKGBUILD
@@ -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)
@@ -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"
@@ -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
 }
 
 
@@ -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
@@ -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
 
@@ -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"
 }
diff --git a/petsc4py.patch b/petsc4py.patch
@@ -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} '
+