initial commit

3 files changed, 131 insertions, 0 deletions

diff --git a/.SRCINFO b/.SRCINFO
new file mode 100644
index 000000000000..48ee5979ed32
--- /dev/null
+++ b/.SRCINFO
@@ -0,0 +1,26 @@
+pkgbase = hdf5-mpich
+	pkgdesc = General purpose library and file format for storing scientific data (mpich version) (full version including its Java Native Interfaces)
+	pkgver = 1.10.2
+	pkgrel = 1
+	url = https://www.hdfgroup.org/HDF5/
+	arch = x86_64
+	license = custom
+	makedepends = time
+	makedepends = gcc-fortran
+	makedepends = java-environment
+	depends = zlib
+	depends = libaec
+	depends = mpich
+	provides = hdf5
+	provides = hdf5-openmpi
+	provides = hdf5-openmpi-java
+	conflicts = hdf5
+	conflicts = hdf5-openmpi
+	conflicts = hdf5-openmpi-java
+	source = https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.10/hdf5-1.10.2/src/hdf5-1.10.2.tar.bz2
+	source = mpi.patch
+	md5sums = 41fb9347801b546fba323523a1c1af51
+	md5sums = dfa8dd50b8a7ebb3ad7249c627156cf9
+
+pkgname = hdf5-mpich
+
diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..379b12140d14
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,87 @@
+# $Id$
+# Maintainer : George Eleftheriou <eleftg>
+# Contributor: Ronald van Haren <ronald.archlinux.org>
+# Contributor: Bruno Pagani (a.k.a. ArchangeGabriel) <archange@archlinux.org>
+# Contributor: Stefan Husmann <stefan-husmann@t-online.de>
+# Contributor: damir <damir@archlinux.org>
+# Contributor: Tom K <tomk@runbox.com>
+# Contributor: Jed Brown <jed@59A2.org>
+# Contributor: Simone Pezzuto <junki.gnu@gmail.com>
+
+_pkgname=hdf5
+_mpi=mpich
+pkgname=${_pkgname}-${_mpi}
+pkgver=1.10.2
+pkgrel=1
+pkgdesc="General purpose library and file format for storing scientific data (${_mpi} version) (full version including its Java Native Interfaces)"
+arch=('x86_64')
+url="https://www.hdfgroup.org/HDF5/"
+license=('custom')
+depends=('zlib' 'libaec' "${_mpi}")
+makedepends=('time' 'gcc-fortran' 'java-environment')
+provides=('hdf5' 'hdf5-openmpi' 'hdf5-openmpi-java')
+conflicts=('hdf5' 'hdf5-openmpi' 'hdf5-openmpi-java')
+source=("https://support.hdfgroup.org/ftp/HDF5/releases/${_pkgname}-${pkgver:0:4}/${_pkgname}-${pkgver/_/-}/src/${_pkgname}-${pkgver/_/-}.tar.bz2"
+        'mpi.patch')
+md5sums=('41fb9347801b546fba323523a1c1af51'
+         'dfa8dd50b8a7ebb3ad7249c627156cf9')
+
+prepare() {
+    cd ${_pkgname}-${pkgver/_/-}
+
+    # Fix building with GCC 8.1
+    sed 's/\(.*\)(void) HDF_NO_UBSAN/HDF_NO_UBSAN \1(void)/' -i src/H5detect.c
+
+    # FS#33343
+    patch -p1 -i ../mpi.patch
+}
+
+build() {
+    cd ${_pkgname}-${pkgver/_/-}
+    ./configure \
+        CXX="/opt/mpich/bin/mpicxx" \
+        CC="/opt/mpich/bin/mpicc" \
+        FC="/opt/mpich/bin/mpif90" \
+        F9X="/opt/mpich/bin/mpif90" \
+        RUNPARALLEL="/opt/mpich/bin/mpirun" \
+        --prefix=/usr \
+        --disable-static \
+        --disable-sharedlib-rpath \
+        --enable-build-mode=production \
+        --enable-hl \
+        --enable-cxx \
+        --enable-fortran \
+        --enable-java \
+        --enable-parallel \
+        --enable-unsupported \
+        --with-pic \
+        --with-zlib \
+        --with-szlib
+    make
+}
+
+check() {
+    cd ${_pkgname}-${pkgver/_/-}
+    # Without exporting LD_LIBRARY_PATH, tests fail being unable to
+    # locate the newly built (not installed yet) hdf5 runtime
+    export LD_LIBRARY_PATH="${srcdir}"/${pkgname}-${pkgver/_/-}/src/.libs/
+    export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"${srcdir}"/${pkgname}-${pkgver/_/-}/c++/src/.libs/
+    export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"${srcdir}"/${pkgname}-${pkgver/_/-}/fortran/src/.libs/
+    export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"${srcdir}"/${pkgname}-${pkgver/_/-}/hl/src/.libs/
+    export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"${srcdir}"/${pkgname}-${pkgver/_/-}/hl/c++/src/.libs/
+    export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"${srcdir}"/${pkgname}-${pkgver/_/-}/hl/fortran/src/.libs/
+    # This is a parallel build, there will always be some MPI bugs,
+    # so skip failures and don't kill the entire packaging process
+    make check || warning "Some tests failed"
+}
+
+package() {
+    cd ${_pkgname}-${pkgver/_/-}
+
+    make -j1 DESTDIR="${pkgdir}" install
+
+    install -dm755 "${pkgdir}"/usr/share/doc/${_pkgname}
+    mv "${pkgdir}"/usr/share/{hdf5_examples,doc/${_pkgname}/examples}
+
+    install -Dm644 COPYING "${pkgdir}"/usr/share/licenses/${_pkgname}/LICENSE
+}
diff --git a/mpi.patch b/mpi.patch
new file mode 100644
index 000000000000..4fadc13e26ab
--- /dev/null
+++ b/mpi.patch
@@ -0,0 +1,18 @@
+Prevent accidental inclusion of mpi c++ headers 
+when hdf5.h is included third party library
+
+https://bugs.gentoo.org/show_bug.cgi?id=420777
+https://bugs.archlinux.org/task/33343
+
+--- a/src/H5public.h
++++ b/src/H5public.h
+@@ -58,6 +58,8 @@
+ #   include <stddef.h>
+ #endif
+ #ifdef H5_HAVE_PARALLEL
++#   define OMPI_SKIP_MPICXX   /* Make sure that cxx specific headers are not included */
++#   define MPICH_SKIP_MPICXX
+ #   include <mpi.h>
+ #ifndef MPI_FILE_NULL		/*MPIO may be defined in mpi.h already       */
+ #   include <mpio.h>
+