ThirdParty: bumping openmpi to version 3.1.1

ThirdParty/AllMake.stage2

@@ -105,12 +105,12 @@ then
           -f --define '_configureAdditionalArgs "$WM_THIRD_PARTY_USE_OPENMPI_188_ConfigureAdditionalArgs"')
     }
 
-    # openmpi 3.1.0
+    # openmpi 3.1.1
     #
-    [ ! -z "$WM_THIRD_PARTY_USE_OPENMPI_310" ] && {
+    [ ! -z "$WM_THIRD_PARTY_USE_OPENMPI_311" ] && {
-	echo "Building openmpi 3.1.0"
+	echo "Building openmpi 3.1.1"
-	( rpm_make -p openmpi-3.1.0 -s openmpi-3.1.0.spec  -u https://www.open-mpi.org/software/ompi/v3.1/downloads/openmpi-3.1.0.tar.gz \
+	( rpm_make -p openmpi-3.1.1 -s openmpi-3.1.1.spec  -u https://www.open-mpi.org/software/ompi/v3.1/downloads/openmpi-3.1.1.tar.gz \
-          -f --define '_configureAdditionalArgs "$WM_THIRD_PARTY_USE_OPENMPI_310_ConfigureAdditionalArgs"')
+          -f --define '_configureAdditionalArgs "$WM_THIRD_PARTY_USE_OPENMPI_311_ConfigureAdditionalArgs"')
     }
 
     # mvipich2-2.2

ThirdParty/rpmBuild/SPECS/openmpi-3.1.1.spec

@@ -0,0 +1,264 @@
+#------------------------------------------------------------------------------
+# =========                 |
+# \\      /  F ield         | foam-extend: Open Source CFD
+#  \\    /   O peration     |
+#   \\  /    A nd           | For copyright notice see file Copyright
+#    \\/     M anipulation  |
+#------------------------------------------------------------------------------
+# License
+#     This file is part of foam-extend.
+#
+#     foam-extend is free software: you can redistribute it and/or modify it
+#     under the terms of the GNU General Public License as published by the
+#     Free Software Foundation, either version 3 of the License, or (at your
+#     option) any later version.
+#
+#     foam-extend is distributed in the hope that it will be useful, but
+#     WITHOUT ANY WARRANTY; without even the implied warranty of
+#     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
+#     General Public License for more details.
+#
+#     You should have received a copy of the GNU General Public License
+#     along with foam-extend.  If not, see <http://www.gnu.org/licenses/>.
+#
+# Script
+#     RPM spec file for openmpi-3.1.1
+#
+# Description
+#     RPM spec file for creating a relocatable RPM
+#
+# Author:
+#     Martin Beaudoin, (2018)
+#
+#------------------------------------------------------------------------------
+
+# We grab the value of WM_THIRD_PARTY and WM_OPTIONS from the environment variable
+%{expand:%%define _WM_THIRD_PARTY_DIR %(echo $WM_THIRD_PARTY_DIR)}
+%{expand:%%define _WM_OPTIONS         %(echo $WM_OPTIONS)}
+
+# Disable the generation of debuginfo packages
+%define debug_package %{nil}
+
+# The topdir needs to point to the $WM_THIRD_PARTY/rpmbuild directory
+%define _topdir	 	%{_WM_THIRD_PARTY_DIR}/rpmBuild
+%define _tmppath	%{_topdir}/tmp
+
+# Will install the package directly $WM_THIRD_PARTY_DIR
+#   Some comments about package relocation:
+#   By using this prefix for the Prefix:  parameter in this file, you will make this
+#   package relocatable.
+#
+#   This is fine, as long as your software is itself relocatable.
+#
+#   Simply take note that libraries built with libtool are not relocatable because the
+#   prefix we specify will be hard-coded in the library .la files.
+#   Ref: http://sourceware.org/autobook/autobook/autobook_80.html
+#
+#   In that case, if you ever change the value of the $WM_THIRD_PARTY_DIR, you will
+#   not be able to reutilize this RPM, even though it is relocatable. You will need to
+#   regenerate the RPM.
+#
+%define _prefix         %{_WM_THIRD_PARTY_DIR}
+
+%define name		openmpi
+%define release		%{_WM_OPTIONS}
+%define version 	3.1.1
+
+%define buildroot       %{_topdir}/BUILD/%{name}-%{version}-root
+
+BuildRoot:	        %{buildroot}
+Summary: 		openmpi
+License: 		Unkown
+Name: 			%{name}
+Version: 		%{version}
+Release: 		%{release}
+URL:                    http://www.open-mpi.org/software/ompi/v1.8/downloads
+Source: 		%url/%{name}-%{version}.tar.gz
+Prefix: 		%{_prefix}
+Group: 			Development/Tools
+
+
+%define _installPrefix  %{_prefix}/packages/%{name}-%{version}/platforms/%{_WM_OPTIONS}
+
+#--------------------------------------------------------------------------
+#
+# Here, we define default compiling options for openmpi
+#
+# One can override the option on the commande line : --define='MACRO EXPR'
+#
+%{!?_configureAdditionalArgs: %define _configureAdditionalArgs Undefined}
+
+
+%description
+%{summary}
+
+%prep
+%setup -q
+
+
+%build
+    # export WM settings in a form that GNU configure recognizes
+    [ -n "$WM_CC" ]         &&  export CC="$WM_CC"
+    [ -n "$WM_CXX" ]        &&  export CXX="$WM_CXX"
+    [ -n "$WM_CFLAGS" ]     &&  export CFLAGS="$WM_CFLAGS"
+    [ -n "$WM_CXXFLAGS" ]   &&  export CXXFLAGS="$WM_CXXFLAGS"
+    [ -n "$WM_LDFLAGS" ]    &&  export LDFLAGS="$WM_LDFLAGS"
+
+    set +x
+    echo ""
+    echo "Compilation options:"
+    echo "     _configureAdditionalArgs : %{_configureAdditionalArgs}"
+    echo ""
+    set -x
+
+    unset mpiWith
+    # Enable GridEngine if it appears to be in use
+    # If you don't want any integration with SGE, simply unset the SGE
+    # environment variable
+    if [ -n "$SGE_ROOT" ]
+    then
+        mpiWith="$mpiWith --with-sge"
+    else
+        mpiWith="$mpiWith --without-sge"
+	mpiWith="$mpiWith --enable-mca-no-build=ras-gridengine,pls-gridengine"
+    fi
+
+    # Infiniband support
+    # Adjust according to your local paths
+    # if [ -d /usr/local/ofed -a -d /usr/local/ofed/lib64 ]
+    # then
+    #     mpiWith="$mpiWith --with-openib=/usr/local/ofed"
+    #     mpiWith="$mpiWith --with-openib-libdir=/usr/local/ofed/lib64"
+    # fi
+
+    ./configure \
+        --prefix=%{_installPrefix}  \
+        --exec_prefix=%{_installPrefix}  \
+        --enable-mpirun-prefix-by-default \
+        --enable-orterun-prefix-by-default \
+        --enable-shared \
+        --enable-mpi-cxx \
+        --disable-static \
+		--disable-mpi-fortran \
+        --without-slurm \
+	`echo %{?_configureAdditionalArgs}`
+
+    [ -z "$WM_NCOMPPROCS" ] && WM_NCOMPPROCS=1
+    make -j $WM_NCOMPPROCS
+
+%install
+    make install DESTDIR=$RPM_BUILD_ROOT
+
+    # Creation of foam-extend specific .csh and .sh files"
+
+    echo ""
+    echo "Generating foam-extend specific .csh and .sh files for the package %{name}-%{version}"
+    echo ""
+    #
+    # Generate package specific .sh file for foam-extend
+    #
+mkdir -p $RPM_BUILD_ROOT/%{_installPrefix}/etc
+cat << DOT_SH_EOF > $RPM_BUILD_ROOT/%{_installPrefix}/etc/%{name}-%{version}.sh
+# Load %{name}-%{version} libraries and binaries
+# ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+export OPENMPI_DIR=\$WM_THIRD_PARTY_DIR/packages/%{name}-%{version}/platforms/\$WM_OPTIONS
+export OPENMPI_BIN_DIR=\$OPENMPI_DIR/bin
+export OPENMPI_LIB_DIR=\$OPENMPI_DIR/lib
+
+# Enable access to the package runtime applications and libraries
+[ -d \$OPENMPI_BIN_DIR ] && _foamAddPath \$OPENMPI_BIN_DIR
+[ -d \$OPENMPI_LIB_DIR ] && _foamAddLib  \$OPENMPI_LIB_DIR
+
+export MPI_HOME=\$OPENMPI_DIR
+export MPI_ARCH_PATH=\$MPI_HOME
+export OPAL_PREFIX=\$MPI_ARCH_PATH
+
+# We initialize the rest of the environment using mpicc --showme:
+export OPENMPI_INCLUDE_DIR="\`mpicc --showme:incdirs\`"
+export OPENMPI_COMPILE_FLAGS="\`mpicc --showme:compile\`"
+export OPENMPI_LINK_FLAGS="\`mpicc --showme:link\`"
+
+# Set the foam-extend compilation flags
+export PINC=\$OPENMPI_COMPILE_FLAGS
+export PLIBS=\$OPENMPI_LINK_FLAGS
+
+
+if [ "\$FOAM_VERBOSE" -a "\$PS1" ]
+then
+    echo "  Environment variables defined for OpenMPI:"
+    echo "    OPENMPI_BIN_DIR       : \$OPENMPI_BIN_DIR"
+    echo "    OPENMPI_LIB_DIR       : \$OPENMPI_LIB_DIR"
+    echo "    OPENMPI_INCLUDE_DIR   : \$OPENMPI_INCLUDE_DIR"
+    echo "    OPENMPI_COMPILE_FLAGS : \$OPENMPI_COMPILE_FLAGS"
+    echo "    OPENMPI_LINK_FLAGS    : \$OPENMPI_LINK_FLAGS"
+    echo ""
+    echo "    MPI_HOME              : \$MPI_HOME"
+    echo "    MPI_ARCH_PATH         : \$MPI_ARCH_PATH"
+    echo "    MPIRUN_OPTIONS        : \$MPIRUN_OPTIONS"
+    echo "    OPAL_PREFIX           : \$OPAL_PREFIX"
+    echo "    PINC                  : \$PINC"
+    echo "    PLIBS                 : \$PLIBS"
+fi
+DOT_SH_EOF
+
+    #
+    # Generate package specific .csh file for foam-extend
+    #
+cat << DOT_CSH_EOF > $RPM_BUILD_ROOT/%{_installPrefix}/etc/%{name}-%{version}.csh
+# Load %{name}-%{version} libraries and binaries
+# ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
+setenv OPENMPI_DIR \$WM_THIRD_PARTY_DIR/packages/%{name}-%{version}/platforms/\$WM_OPTIONS
+setenv OPENMPI_BIN_DIR \$OPENMPI_DIR/bin
+setenv OPENMPI_LIB_DIR \$OPENMPI_DIR/lib
+
+# Enable access to the package runtime applications and libraries
+if ( -e \$OPENMPI_BIN_DIR ) then
+    _foamAddPath \$OPENMPI_BIN_DIR
+endif
+
+if ( -e \$OPENMPI_LIB_DIR ) then
+    _foamAddLib \$OPENMPI_LIB_DIR
+endif
+
+setenv MPI_HOME \$OPENMPI_DIR
+setenv MPI_ARCH_PATH \$MPI_HOME
+setenv OPAL_PREFIX \$MPI_ARCH_PATH
+
+# We initialize the rest of the environment using mpicc --showme:
+setenv OPENMPI_INCLUDE_DIR "\`mpicc --showme:incdirs\`"
+setenv OPENMPI_COMPILE_FLAGS "\`mpicc --showme:compile\`"
+setenv OPENMPI_LINK_FLAGS "\`mpicc --showme:link\`"
+
+# Set the foam-extend compilation flags
+setenv PINC "\$OPENMPI_COMPILE_FLAGS"
+setenv PLIBS "\$OPENMPI_LINK_FLAGS"
+
+
+if (\$?FOAM_VERBOSE && \$?prompt) then
+    echo "  Environment variables defined for OpenMPI:"
+    echo "    OPENMPI_BIN_DIR       : \$OPENMPI_BIN_DIR"
+    echo "    OPENMPI_LIB_DIR       : \$OPENMPI_LIB_DIR"
+    echo "    OPENMPI_INCLUDE_DIR   : \$OPENMPI_INCLUDE_DIR"
+    echo "    OPENMPI_COMPILE_FLAGS : \$OPENMPI_COMPILE_FLAGS"
+    echo "    OPENMPI_LINK_FLAGS    : \$OPENMPI_LINK_FLAGS"
+    echo ""
+    echo "    MPI_HOME              : \$MPI_HOME"
+    echo "    MPI_ARCH_PATH         : \$MPI_ARCH_PATH"
+    echo "    MPIRUN_OPTIONS        : \$MPIRUN_OPTIONS"
+    echo "    OPAL_PREFIX           : \$OPAL_PREFIX"
+    echo "    PINC                  : \$PINC"
+    echo "    PLIBS                 : \$PLIBS"
+endif
+DOT_CSH_EOF
+
+    #finally, generate a .tgz file for systems where using rpm for installing packages
+    # as a non-root user might be a problem.
+    (mkdir -p  %{_topdir}/TGZS/%{_target_cpu}; cd $RPM_BUILD_ROOT/%{_prefix}; tar -zcvf %{_topdir}/TGZS/%{_target_cpu}/%{name}-%{version}.tgz  packages/%{name}-%{version})
+
+
+%clean
+rm -rf %{buildroot}
+
+%files
+%defattr(-,root,root)
+%{_installPrefix}

etc/bashrc

@@ -96,7 +96,7 @@ export WM_THIRD_PARTY_DIR=$WM_PROJECT_DIR/ThirdParty
 
 #
 # For AllMake.stage2
-export WM_THIRD_PARTY_USE_OPENMPI_310=1
+export WM_THIRD_PARTY_USE_OPENMPI_311=1
 
 #
 # For AllMake.stage3

etc/cshrc

@@ -82,7 +82,7 @@ setenv WM_THIRD_PARTY_DIR $WM_PROJECT_DIR/ThirdParty
 
 #
 # For AllMake.stage2
-setenv WM_THIRD_PARTY_USE_OPENMPI_310 1
+setenv WM_THIRD_PARTY_USE_OPENMPI_311 1
 
 #
 # For AllMake.stage3

etc/prefs.csh-EXAMPLE

@@ -208,7 +208,7 @@ setenv WM_THIRD_PARTY_USE_CMAKE_3114 1
 
 #
 # For AllMake.stage2
-setenv WM_THIRD_PARTY_USE_OPENMPI_310 1
+setenv WM_THIRD_PARTY_USE_OPENMPI_311 1
 #setenv WM_THIRD_PARTY_USE_OPENMPI_188 1
 #setenv WM_THIRD_PARTY_USE_OPENMPI_188_ConfigureAdditionalArgs '--enable-mpi-cxx --with-verbs'
 #setenv WM_THIRD_PARTY_USE_OPENMPI_165 1

etc/prefs.sh-EXAMPLE

@@ -221,7 +221,7 @@ export WM_THIRD_PARTY_USE_CMAKE_3114=1
 
 #
 # For AllMake.stage2
-export WM_THIRD_PARTY_USE_OPENMPI_310=1
+export WM_THIRD_PARTY_USE_OPENMPI_311=1
 #export WM_THIRD_PARTY_USE_OPENMPI_188=1
 #export WM_THIRD_PARTY_USE_OPENMPI_188_ConfigureAdditionalArgs='--enable-mpi-cxx --with-verbs'
 #export WM_THIRD_PARTY_USE_OPENMPI_165=1

etc/settings.csh

@@ -167,11 +167,11 @@ set mpi_version=unknown
 
 switch ("$WM_MPLIB")
 case OPENMPI:
-    if ($?WM_THIRD_PARTY_USE_OPENMPI_310 != 0 && -d $WM_THIRD_PARTY_DIR/packages/openmpi-3.1.0/platforms/$WM_OPTIONS ) then
+    if ($?WM_THIRD_PARTY_USE_OPENMPI_311 != 0 && -d $WM_THIRD_PARTY_DIR/packages/openmpi-3.1.1/platforms/$WM_OPTIONS ) then
-        set mpi_version=openmpi-3.1.0
+        set mpi_version=openmpi-3.1.1
 
         if ($?FOAM_VERBOSE && $?prompt) then
-            echo "Using openmpi-3.1.0 from the ThirdParty package: $WM_THIRD_PARTY_DIR/packages/$mpi_version"
+            echo "Using openmpi-3.1.1 from the ThirdParty package: $WM_THIRD_PARTY_DIR/packages/$mpi_version"
         endif
         _foamSource $WM_THIRD_PARTY_DIR/packages/$mpi_version/platforms/$WM_OPTIONS/etc/$mpi_version.csh
 

etc/settings.sh

@@ -213,12 +213,12 @@ unset MPI_ARCH_PATH
 mpi_version=unknown
 case "$WM_MPLIB" in
 OPENMPI)
-    if [ ! -z $WM_THIRD_PARTY_USE_OPENMPI_310 ] && [ -e $WM_THIRD_PARTY_DIR/packages/openmpi-3.1.0/platforms/$WM_OPTIONS ]
+    if [ ! -z $WM_THIRD_PARTY_USE_OPENMPI_311 ] && [ -e $WM_THIRD_PARTY_DIR/packages/openmpi-3.1.1/platforms/$WM_OPTIONS ]
         then
-        mpi_version=openmpi-3.1.0
+        mpi_version=openmpi-3.1.1
         if [ "$FOAM_VERBOSE" -a "$PS1" ]
         then
-            echo "Using openmpi-3.1.0 from the ThirdParty package: $WM_THIRD_PARTY_DIR/packages/$mpi_version"
+            echo "Using openmpi-3.1.1 from the ThirdParty package: $WM_THIRD_PARTY_DIR/packages/$mpi_version"
         fi
         _foamSource $WM_THIRD_PARTY_DIR/packages/$mpi_version/platforms/$WM_OPTIONS/etc/$mpi_version.sh