[arch-commits] Commit in hdf5-openmpi/repos (6 files)

Antonio Rojas arojas at archlinux.org
Mon Dec 7 02:12:06 UTC 2015 

    Date: Monday, December 7, 2015 @ 03:12:06
  Author: arojas
Revision: 253162

archrelease: copy trunk to staging-i686, staging-x86_64

Added:
  hdf5-openmpi/repos/staging-i686/
  hdf5-openmpi/repos/staging-i686/PKGBUILD
    (from rev 253161, hdf5-openmpi/trunk/PKGBUILD)
  hdf5-openmpi/repos/staging-i686/mpi.patch
    (from rev 253161, hdf5-openmpi/trunk/mpi.patch)
  hdf5-openmpi/repos/staging-x86_64/
  hdf5-openmpi/repos/staging-x86_64/PKGBUILD
    (from rev 253161, hdf5-openmpi/trunk/PKGBUILD)
  hdf5-openmpi/repos/staging-x86_64/mpi.patch
    (from rev 253161, hdf5-openmpi/trunk/mpi.patch)

--------------------------+
 staging-i686/PKGBUILD    |   67 +++++++++++++++++++++++++++++++++++++++++++++
 staging-i686/mpi.patch   |   18 ++++++++++++
 staging-x86_64/PKGBUILD  |   67 +++++++++++++++++++++++++++++++++++++++++++++
 staging-x86_64/mpi.patch |   18 ++++++++++++
 4 files changed, 170 insertions(+)

Copied: hdf5-openmpi/repos/staging-i686/PKGBUILD (from rev 253161, hdf5-openmpi/trunk/PKGBUILD)
===================================================================
--- staging-i686/PKGBUILD	                        (rev 0)
+++ staging-i686/PKGBUILD	2015-12-07 02:12:06 UTC (rev 253162)
@@ -0,0 +1,67 @@
+# $Id: PKGBUILD 147983 2012-01-29 11:26:22Z ronald $
+# Maintainer: Ronald van Haren <ronald.archlinux.org>
+# Contributor: Stefan Husmann <stefan-husmann at t-online.de>
+# Contributor: damir <damir at archlinux.org>
+# Contributor: Tom K <tomk at runbox.com>
+# Contributor: Jed Brown <jed at 59A2.org>
+# Contributor: Simone Pezzuto <junki.gnu at gmail.com>
+
+pkgname=hdf5-openmpi
+_pkgname=hdf5
+pkgver=1.8.15_patch1
+pkgrel=2
+arch=('i686' 'x86_64')
+pkgdesc="General purpose library and file format for storing scientific data (OpenMPI version)"
+url="http://www.hdfgroup.org/HDF5/"
+license=('custom')
+depends=('zlib' 'sh' 'openmpi')
+makedepends=('time')
+provides=('hdf5')
+conflicts=('hdf5')
+source=(http://www.hdfgroup.org/ftp/HDF5/releases/${_pkgname}-${pkgver/_/-}/src/${_pkgname}-${pkgver/_/-}.tar.bz2 
+mpi.patch) 
+sha1sums=('82ed248e5d0293bc1dba4c13c9b2880a26643ee0'
+          '658d4a3e537c9c76da3200effa8f95b656a21936')
+
+build() {
+  cd "$srcdir/${_pkgname}-${pkgver/_/-}"
+
+  # FS#33343
+  patch -Np1 -i "${srcdir}/mpi.patch"
+
+  ./configure \
+    CXX="mpicxx" \
+    CC="mpicc" \
+    FC="mpif90" \
+    F9X="mpif90" \
+    RUNPARALLEL="mpirun" \
+    OMPI_MCA_disable_memory_allocator=1 \
+    --prefix=/usr \
+    --with-pthread=/usr/lib/ \
+    --enable-linux-lfs \
+    --enable-unsupported \
+    --enable-shared \
+    --disable-static \
+    --enable-production=yes \
+    --with-zlib \
+    --with-default-api-version=v18 \
+    --enable-parallel=yes \
+    --enable-cxx \
+    --disable-sharedlib-rpath
+
+  make
+}
+
+package() {
+  cd "$srcdir/${_pkgname}-${pkgver/_/-}"
+
+  make -j1 DESTDIR="${pkgdir}" install
+
+  install -d -m755 "$pkgdir/usr/share/$_pkgname"
+  mv "$pkgdir"/usr/share/{hdf5_examples,$_pkgname/examples}
+
+  install -d -m755 "$pkgdir/usr/share/licenses/${pkgname}"
+  install -m644 "$srcdir/${_pkgname}-${pkgver/_/-}/COPYING" \
+          "$pkgdir/usr/share/licenses/${pkgname}/LICENSE" 
+}
+

Copied: hdf5-openmpi/repos/staging-i686/mpi.patch (from rev 253161, hdf5-openmpi/trunk/mpi.patch)
===================================================================
--- staging-i686/mpi.patch	                        (rev 0)
+++ staging-i686/mpi.patch	2015-12-07 02:12:06 UTC (rev 253162)
@@ -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>
+

Copied: hdf5-openmpi/repos/staging-x86_64/PKGBUILD (from rev 253161, hdf5-openmpi/trunk/PKGBUILD)
===================================================================
--- staging-x86_64/PKGBUILD	                        (rev 0)
+++ staging-x86_64/PKGBUILD	2015-12-07 02:12:06 UTC (rev 253162)
@@ -0,0 +1,67 @@
+# $Id: PKGBUILD 147983 2012-01-29 11:26:22Z ronald $
+# Maintainer: Ronald van Haren <ronald.archlinux.org>
+# Contributor: Stefan Husmann <stefan-husmann at t-online.de>
+# Contributor: damir <damir at archlinux.org>
+# Contributor: Tom K <tomk at runbox.com>
+# Contributor: Jed Brown <jed at 59A2.org>
+# Contributor: Simone Pezzuto <junki.gnu at gmail.com>
+
+pkgname=hdf5-openmpi
+_pkgname=hdf5
+pkgver=1.8.15_patch1
+pkgrel=2
+arch=('i686' 'x86_64')
+pkgdesc="General purpose library and file format for storing scientific data (OpenMPI version)"
+url="http://www.hdfgroup.org/HDF5/"
+license=('custom')
+depends=('zlib' 'sh' 'openmpi')
+makedepends=('time')
+provides=('hdf5')
+conflicts=('hdf5')
+source=(http://www.hdfgroup.org/ftp/HDF5/releases/${_pkgname}-${pkgver/_/-}/src/${_pkgname}-${pkgver/_/-}.tar.bz2 
+mpi.patch) 
+sha1sums=('82ed248e5d0293bc1dba4c13c9b2880a26643ee0'
+          '658d4a3e537c9c76da3200effa8f95b656a21936')
+
+build() {
+  cd "$srcdir/${_pkgname}-${pkgver/_/-}"
+
+  # FS#33343
+  patch -Np1 -i "${srcdir}/mpi.patch"
+
+  ./configure \
+    CXX="mpicxx" \
+    CC="mpicc" \
+    FC="mpif90" \
+    F9X="mpif90" \
+    RUNPARALLEL="mpirun" \
+    OMPI_MCA_disable_memory_allocator=1 \
+    --prefix=/usr \
+    --with-pthread=/usr/lib/ \
+    --enable-linux-lfs \
+    --enable-unsupported \
+    --enable-shared \
+    --disable-static \
+    --enable-production=yes \
+    --with-zlib \
+    --with-default-api-version=v18 \
+    --enable-parallel=yes \
+    --enable-cxx \
+    --disable-sharedlib-rpath
+
+  make
+}
+
+package() {
+  cd "$srcdir/${_pkgname}-${pkgver/_/-}"
+
+  make -j1 DESTDIR="${pkgdir}" install
+
+  install -d -m755 "$pkgdir/usr/share/$_pkgname"
+  mv "$pkgdir"/usr/share/{hdf5_examples,$_pkgname/examples}
+
+  install -d -m755 "$pkgdir/usr/share/licenses/${pkgname}"
+  install -m644 "$srcdir/${_pkgname}-${pkgver/_/-}/COPYING" \
+          "$pkgdir/usr/share/licenses/${pkgname}/LICENSE" 
+}
+

Copied: hdf5-openmpi/repos/staging-x86_64/mpi.patch (from rev 253161, hdf5-openmpi/trunk/mpi.patch)
===================================================================
--- staging-x86_64/mpi.patch	                        (rev 0)
+++ staging-x86_64/mpi.patch	2015-12-07 02:12:06 UTC (rev 253162)
@@ -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>
+

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