up many install scripts

boost/install.sh

@@ -3,11 +3,11 @@
 source ../common.sh
 
 LIB_NAME="boost"
-LIB_VERSION=1.65.0
-LIB_VERSION_DOWNLOAD=1_65_0
-GCC_VERSION=6.4.0
+LIB_VERSION=1.68.0
+LIB_VERSION_DOWNLOAD=1_68_0
+GCC_VERSION=8.3.0 # 6.4.0
 MPI_LIB=openmpi
-MPI_VERSION=1.10.7 #2.1.1
+MPI_VERSION=4.0.2 #3.1.4 #1.10.7 #2.1.1
 
 LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
 GCC_FULL=gcc-$GCC_VERSION

cmake/install.sh

 #!/bin/bash
 
 source ../common.sh
+source /etc/profile.d/modules.sh
 
 LIB_NAME="cmake"
-LIB_VERSION=3.9.2
+LIB_VERSION=3.14.0
 GCC_VERSION=6.4.0
 
 LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}

feelpp/install.sh

@@ -3,8 +3,8 @@
 source ../common.sh
 
 LIB_VERSION=develop
-#LIB_VERSION=v0.105.0 #v0.104.0
-GCC_VERSION=6.4.0
+#LIB_VERSION=v0.106.0 #v0.105.0 #v0.104.0
+GCC_VERSION=8.3.0 #6.4.0
 MPI_LIB=openmpi
 MPI_VERSION=1.10.7 #2.1.1 #1.10.7
 GCC_FULL=gcc-$GCC_VERSION
@@ -71,12 +71,11 @@ cmake -DCMAKE_BUILD_TYPE=Release \
       -DCMAKE_INSTALL_PREFIX=${INSTALL_LIB_DIR} \
       -DCMAKE_CXX_FLAGS="-Wno-expansion-to-defined" \
       -DFEELPP_ENABLE_OMC=OFF  -DFEELPP_ENABLE_FMILIB=OFF \
+      -DFEELPP_ENABLE_QUICKSTART=OFF \
+      -DFEELPP_ENABLE_DOCUMENTATION=OFF -DFEELPP_ENABLE_BENCHMARKS=OFF -DFEELPP_ENABLE_TESTS=OFF \
        $SRC_DIR/feelpp || exit 1
-cd $BUILD_LIB_DIR/cmake && make install || exit 1
-cd $BUILD_LIB_DIR/contrib && make install -j16 || exit 1
-cd $BUILD_LIB_DIR/feel && make install -j16 || exit 1
-cd $BUILD_LIB_DIR/applications/mesh && make install -j16 || exit 1
-cd $BUILD_LIB_DIR/applications/databases && make install -j16 || exit 1
+cd $BUILD_LIB_DIR/data && make install || exit 1
+cd $BUILD_LIB_DIR/feelpp && make install -j16 || exit 1
 }
 
 install_lib_quickstart()
@@ -101,7 +100,7 @@ install_lib_quickstart()
 	  -DCMAKE_C_COMPILER=clang \
 	  -DCMAKE_INSTALL_PREFIX=${INSTALL_QUICKSTART_DIR} \
 	  -DFEELPP_DIR=${FEELPP_DIR} \
-	  $SRC_DIR/feelpp/quickstart || exit 1
+	  $SRC_DIR/feelpp/feelpp/quickstart || exit 1
     make install -j16
 }
 
@@ -172,7 +171,8 @@ install_module_tooboxes()
 }
 
 if [[ $1 == "module" ]]; then
-    install_module_lib
+    #install_module_lib
+    #install_module_quickstart
     install_module_tooboxes
     exit 1
 fi
@@ -195,6 +195,18 @@ if [[ $1 == "feelpp-toolboxes" ]]; then
     exit 1
 fi
 
+if [[ $1 == "remove" ]]; then
+    rm -rI $BUILD_LIB_DIR
+    rm -rI $BUILD_QUICKSTART_DIR
+    rm -rI $BUILD_TOOLBOXES_DIR
+    rm -rI $INSTALL_LIB_DIR
+    rm -rI $INSTALL_QUICKSTART_DIR
+    rm -rI $INSTALL_TOOLBOXES_DIR
+    rm -I $MODULE_LIB_PATH
+    rm -I $MODULE_QUICKSTART_PATH
+    rm -I $MODULE_TOOLBOXES_PATH
+    exit 1
+fi
 install_lib
 install_module_lib
 install_lib_quickstart

feelpp/module_lib.tmpl

@@ -16,6 +16,7 @@ set prefix      {{ INSTALL_LIB_DIR }}
 prepend-path PATH $prefix/bin
 prepend-path LD_LIBRARY_PATH $prefix/lib
 prepend-path LIBRARY_PATH $prefix/lib
+prepend-path PYTHONPATH $prefix/lib/python3.5/site-packages/
 setenv FEELPP_DIR $prefix
 
 if [module-info mode load]  {

feelpp/module_toolboxes.tmpl

@@ -16,6 +16,7 @@ set prefix      {{ INSTALL_TOOLBOXES_DIR }}
 prepend-path PATH $prefix/bin
 prepend-path LD_LIBRARY_PATH $prefix/lib
 prepend-path LIBRARY_PATH $prefix/lib
+prepend-path PYTHONPATH $prefix/lib/python3.5/site-packages/
 setenv FEELPP_TOOLBOXES_DIR $prefix
 setenv FEELPP_TOOLBOXES_TESTCASES_DIR $prefix/share/feelpp/testcases
 

fftw/install.sh

@@ -3,7 +3,7 @@
 source ../common.sh
 
 LIB_NAME="fftw"
-LIB_VERSION=3.3.7
+LIB_VERSION=3.3.7-pl2
 GCC_VERSION=6.4.0
 MPI_LIB=openmpi
 MPI_VERSION=1.10.7
@@ -35,10 +35,7 @@ sleep 2
 mpirun --version | head -n 1
 sleep 2
 
-if [[ ! -f $ARCHIVE ]]; then
-  mkdir -p $WORK_DIR
-  wget $URL -O $ARCHIVE
-fi
+download_archive
 
 if [[ ! -d $SRC_DIR ]]; then
   tar zxf $ARCHIVE --directory $WORK_DIR

fmilib/install.sh

 #!/bin/bash
-set -x
+#set -x
 
-MODULE_CATEGORY="libs"
-SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
+source ../common.sh
 
 LIB_NAME="fmilib"
 LIB_VERSION=2.0.3
-GCC_VERSION=6.4.0
-CMAKE_VERSION=3.9.2
-
-# Use cern repository! (patched version)
-FMIL_URL=http://www.jmodelica.org/downloads/FMIL/FMILibrary-${LIB_VERSION}-src.zip
+GCC_VERSION=8.3.0
+GCC_FULL=gcc-$GCC_VERSION
+GCC_SHORT="gcc${GCC_VERSION//.}"
 
-LIB_VERSION_MAJOR=`echo "${LIB_VERSION}" | sed 's/\([0-9]\)[.][0-9][.][0-9]/\1/g'`
-LIB_VERSION_MINOR=`echo "${LIB_VERSION}" | sed 's/[0-9][.]\([0-9]\)[.][0-9]/\1/g'`
-LIB_VERSION_PATCH=`echo "${LIB_VERSION}" | sed 's/[0-9][.][0-9][.]\([0-9]\)/\1/g'`
-GCC_VERSION_MAJOR=`echo "${GCC_VERSION}" | sed 's/\([0-9]\)[.][0-9][.][0-9]/\1/g'`
-GCC_VERSION_MINOR=`echo "${GCC_VERSION}" | sed 's/[0-9][.]\([0-9]\)[.][0-9]/\1/g'`
-GCC_VERSION_PATCH=`echo "${GCC_VERSION}" | sed 's/[0-9][.][0-9][.]\([0-9]\)/\1/g'`
+SUB_DIR=${LIB_NAME}/${LIB_VERSION}/${GCC_FULL}
+WORK_DIR=${BASE_WORK_DIR}/${SUB_DIR}
 
+SRC_DIR=${WORK_DIR}/fmi-library-${LIB_VERSION}
+BUILD_DIR=${WORK_DIR}/${LIB_FULLNAME}-build
+INSTALL_DIR=${BASE_INSTALL_DIR}/${SUB_DIR}
+SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
 
-DEPEND_GCC=gcc-${GCC_VERSION_MAJOR}${GCC_VERSION_MINOR}${GCC_VERSION_PATCH}
-DEPEND_MODULE_GCC=gcc${GCC_VERSION_MAJOR}${GCC_VERSION_MINOR}${GCC_VERSION_PATCH}
+# Use cern repository! (patched version)
+URL="https://github.com/modelon-community/fmi-library/archive/${LIB_VERSION}.tar.gz"
 
-SOURCE_DIR=${BASE_WORK_DIR}/${LIB_NAME}/${LIB_VERSION}/${DEPEND_GCC}
-BUILD_DIR=${PREBUILD_DIR}/${LIB_NAME}/${LIB_VERSION}/${DEPEND_GCC}/build
-INSTALL_DIR=${BASE_INSTALL_DIR}/${LIB_NAME}/${LIB_VERSION}/${DEPEND_GCC}
+MODULE_CATEGORY="libs"
 MODULE_DIR=${BASE_MODULE_DIR}/${MODULE_CATEGORY}/${LIB_NAME}
-MODULE_PATH=${MODULE_DIR}/${LIB_VERSION}_${DEPEND_MODULE_GCC}
+MODULE_PATH=${MODULE_DIR}/${LIB_VERSION}_${GCC_SHORT}
 
+ARCHIVE=${WORK_DIR}/${LIB_VERSION}.zip
 
-prepare_lib()
+install_lib()
 {
-    # Prepare directories.
-    mkdir -p ${SOURCE_DIR}
-    cd ${SOURCE_DIR}
-    wget ${FMIL_URL}
-    unzip FMILibrary-${LIB_VERSION}-src.zip
-}
-
-build_lib() {
-    echo "-- Building ${LIB_NAME}-${LIB_VERSION}"
-
-    if [[ ! -d ${BUILD_DIR} ]]; then
-        mkdir -p ${BUILD_DIR}
-    else
-        echo "[WARNING] Build directory exist! Remove it first ! ${BUILD_DIR}"
-        exit 1
-    fi
     module purge
     module load gcc/${GCC_VERSION}
-    module load cmake/${CMAKE_VERSION}_${GCC_VERSION_MAJOR}${GCC_VERSION_MINOR}${GCC_VERSION_PATCH}
+    module load cmake/3.9.2_gcc640
     module list
 
     # Check gcc version here
     gcc --version |head -n 1
     sleep 2
 
-    cmake -DCMAKE_C_COMPILER=`which gcc` \
-        -DCMAKE_CXX_COMPILER=`which g++` \
-        -DCMAKE_INSTALL_PREFIX=${INSTALL_DIR}/ \
-        -DFMILIB_INSTALL_PREFIX=${INSTALL_DIR}/ \
-        -DCMAKE_BUILD_TYPE=Release \
-    ${SOURCE_DIR}/FMILibrary-${LIB_VERSION}
+    if [[ ! -f $ARCHIVE ]]; then
+	mkdir -p $WORK_DIR
+	wget $URL -O $ARCHIVE
+    fi
 
-    cmake --build . -- -j
-}
+    if [[ ! -d $SRC_DIR ]]; then
+	 tar zxf $ARCHIVE --directory $WORK_DIR
+    fi
+
+    if [[ ! -d $BUILD_DIR ]]; then
+	mkdir $BUILD_DIR
+	cd $BUILD_DIR
+
+	cmake -DCMAKE_C_COMPILER=`which gcc` \
+              -DCMAKE_CXX_COMPILER=`which g++` \
+              -DCMAKE_INSTALL_PREFIX=${INSTALL_DIR}/ \
+              -DFMILIB_INSTALL_PREFIX=${INSTALL_DIR}/ \
+              -DCMAKE_BUILD_TYPE=Release \
+	      ${SRC_DIR}
+    fi
+
+    cd $BUILD_DIR
+    make -j || exit 1
+    make -j install || exit 1
 
-install_lib()
-{
-    cmake --build . --target install
 }
 
 install_module()
@@ -86,14 +78,8 @@ install_module()
 
 if [[ $1 == "module" ]]
 then
-    echo ""
-#    install_module
-elif [[ $1 == "clean" ]]
-then
-  clean_all
+    install_module
 else
-    prepare_lib
-    build_lib
     install_lib
     install_module
 fi

ganglia/install.sh

@@ -12,4 +12,5 @@ make install
 
 cd /etc/apache2/sites-enabled/
 ln -s /var/www/ganglia2/apache.conf
+service apache2 restart
 

gcc/install.sh

@@ -3,7 +3,9 @@
 source ../common.sh
 
 export LIB_NAME="gcc"
-export LIB_VERSION=6.4.0
+export LIB_VERSION_MAJOR=8 #6
+export LIB_VERSION_MINOR=3 #4
+export LIB_VERSION=${LIB_VERSION_MAJOR}.${LIB_VERSION_MINOR}.0
 
 export LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
 #export LIB_VERSION_SHORT="${LIB_VERSION//.}"
@@ -36,8 +38,8 @@ fi
 if [[ ! -d $BUILD_DIR ]]; then
   mkdir $BUILD_DIR
   cd $BUILD_DIR
-  ${SRC_DIR}/configure -v --with-pkgversion='gcc 6.4.0' \
-  --with-bugurl=file:///usr/share/doc/gcc-6/README.Bugs \
+  ${SRC_DIR}/configure -v --with-pkgversion="gcc ${LIB_VERSION}" \
+  --with-bugurl=file:///usr/share/doc/gcc-${LIB_VERSION_MAJOR}/README.Bugs \
   --enable-languages=c,c++,fortran \
   --enable-shared \
   --enable-linker-build-id \

gmsh/install.sh

 #!/bin/bash
 
-set -x 
+source ../common.sh
+
 LIB_NAME="gmsh"
-LIB_VERSION=2.16.0
-GCC_VERSION=6.4.0
+LIB_VERSION=4.3.0
+GCC_VERSION=8.3.0 #6.4.0
+MPI_LIB=openmpi
+MPI_VERSION=4.0.2 # 1.10.7 #2.1.1 #1.10.7
+MPI_SHORT="${MPI_LIB}${MPI_VERSION//.}"
+MPI_FULL=${MPI_LIB}-${MPI_VERSION}
 
 LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
 GCC_FULL=gcc-$GCC_VERSION
 GCC_SHORT="gcc${GCC_VERSION//.}"
-SUB_DIR=${LIB_NAME}/${LIB_VERSION}/${GCC_FULL}
+SUB_DIR=${LIB_NAME}/${LIB_VERSION}/${GCC_FULL}/${MPI_FULL}
 WORK_DIR=${BASE_WORK_DIR}/${SUB_DIR}
 SRC_DIR=${WORK_DIR}/${LIB_FULLNAME}-source
 ARCHIVE=${WORK_DIR}/${LIB_FULLNAME}.tgz
@@ -17,12 +22,16 @@ BUILD_DIR=${WORK_DIR}/${LIB_FULLNAME}-build
 INSTALL_DIR=${BASE_INSTALL_DIR}/${SUB_DIR}
 SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
 MODULE_DIR=${BASE_MODULE_DIR}/libs/${LIB_NAME}
-MODULE_PATH=${MODULE_DIR}/${LIB_VERSION}_${GCC_SHORT}
+MODULE_PATH=${MODULE_DIR}/${LIB_VERSION}_${GCC_SHORT}_${MPI_SHORT}
 
 install_lib()
 {
 module purge
 module load gcc/${GCC_VERSION}
+module load ${MPI_LIB}/${MPI_VERSION}_${GCC_SHORT}
+module load hdf5/1.10.5_${GCC_SHORT}_${MPI_SHORT}
+module load med/4.0.0_${GCC_SHORT}_${MPI_SHORT}
+module list
 
 gcc --version |head -n 1
 sleep 2
@@ -41,14 +50,20 @@ if [[ ! -d $BUILD_DIR ]]; then
   cd $BUILD_DIR
 
   cmake -DCMAKE_INSTALL_PREFIX=${INSTALL_DIR} \
-	-DENABLE_MPI=OFF \
+	-DENABLE_MPI=ON \
 	-DENABLE_BUILD_LIB=ON \
 	-DENABLE_BUILD_SHARED=ON \
 	-DCMAKE_BUILD_TYPE=release \
 	-DENABLE_PETSC=OFF \
+	-DCMAKE_CXX_FLAGS="-isystem ${MED_DIR}/include" \
+	-DENABLE_MED=ON -DMED_LIB=${MED_DIR}/lib/libmedC.so \
 	${SRC_DIR}
 fi
 
+# Patch gmsh add this line in gmsh-4.3.0-source/Common/CommandLine.cpp line 27 after inclyde FL.h  and also in gmsh-4.3.0-source/Fltk/helpWindow.cpp
+#undef Status 
+
+
 cd $BUILD_DIR
 make -j || exit 1
 make -j install || exit 1
@@ -62,6 +77,9 @@ mkdir -p ${MODULE_DIR}
 export LIB_NAME
 export LIB_VERSION
 export INSTALL_DIR
+
+export GMSH_LOAD_MODULES=$(echo -e "module load hdf5/1.10.5_${GCC_SHORT}_${MPI_SHORT}\nmodule load med/4.0.0_${GCC_SHORT}_${MPI_SHORT}")
+
 envtpl  --keep-template -o $MODULE_PATH module.tmpl
 }
 

gmsh/module.tmpl

@@ -18,3 +18,6 @@ prepend-path LD_LIBRARY_PATH $prefix/lib
 prepend-path LIBRARY_PATH $prefix/lib
 setenv GMSH_DIR $prefix
 
+if [module-info mode load]  {
+   {{ GMSH_LOAD_MODULES }}
+}
\ No newline at end of file

hdf5/install.sh

@@ -3,10 +3,11 @@
 source ../common.sh
 
 LIB_NAME="hdf5"
-LIB_VERSION=1.10.2
-GCC_VERSION=6.4.0
+LIB_VERSION=1.10.5
+LIB_SHORT_VERSION=1.10
+GCC_VERSION=8.3.0 #6.4.0
 MPI_LIB=openmpi
-MPI_VERSION=2.1.1
+MPI_VERSION=4.0.2 #1.10.7 #2.1.1
 
 LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
 GCC_FULL=gcc-$GCC_VERSION
@@ -17,7 +18,9 @@ SUB_DIR=${LIB_NAME}/${LIB_VERSION}/${GCC_FULL}/${MPI_FULL}
 WORK_DIR=${BASE_WORK_DIR}/${SUB_DIR}
 SRC_DIR=${WORK_DIR}/${LIB_FULLNAME}
 ARCHIVE=${SRC_DIR}.tar.gz
-URL="https://www.hdfgroup.org/package/gzip/?wpdmdl=4301"
+#URL="https://www.hdfgroup.org/package/gzip/?wpdmdl=4301"
+URL="https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-${LIB_SHORT_VERSION}/hdf5-${LIB_VERSION}/src/hdf5-${LIB_VERSION}.tar.gz"
+
 BUILD_DIR=${WORK_DIR}/${LIB_FULLNAME}-build
 INSTALL_DIR=${BASE_INSTALL_DIR}/${SUB_DIR}
 SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"

llvm/install.sh

 #!/bin/bash
 
 source ../common.sh
+source /etc/profile.d/modules.sh
 
 LIB_NAME="llvm"
-LIB_VERSION=5.0.0 #4.0.1
-GCC_VERSION=6.4.0
+LIB_VERSION=7.0.1 #6.0.1 #5.0.0 #4.0.1
+GCC_VERSION=8.3.0 #6.4.0
 
 LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
 GCC_FULL=gcc-$GCC_VERSION

med/install.sh

+#!/bin/bash
+
+source ../common.sh
+
+LIB_NAME="med"
+LIB_VERSION=4.0.0
+GCC_VERSION=8.3.0 #6.4.0
+MPI_LIB=openmpi
+MPI_VERSION=4.0.2 #1.10.7 #2.1.1 #1.10.7
+MPI_SHORT="${MPI_LIB}${MPI_VERSION//.}"
+MPI_FULL=${MPI_LIB}-${MPI_VERSION}
+
+LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
+GCC_FULL=gcc-$GCC_VERSION
+GCC_SHORT="gcc${GCC_VERSION//.}"
+SUB_DIR=${LIB_NAME}/${LIB_VERSION}/${GCC_FULL}/${MPI_FULL}
+WORK_DIR=${BASE_WORK_DIR}/${SUB_DIR}
+SRC_DIR=${WORK_DIR}/${LIB_FULLNAME}
+ARCHIVE=${WORK_DIR}/${LIB_FULLNAME}.tar.gz
+URL="http://files.salome-platform.org/Salome/other/med-${LIB_VERSION}.tar.gz"
+
+BUILD_DIR=${WORK_DIR}/${LIB_FULLNAME}-build
+INSTALL_DIR=${BASE_INSTALL_DIR}/${SUB_DIR}
+SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
+MODULE_DIR=${BASE_MODULE_DIR}/libs/${LIB_NAME}
+MODULE_PATH=${MODULE_DIR}/${LIB_VERSION}_${GCC_SHORT}_${MPI_SHORT}
+
+install_lib()
+{
+module purge
+module load gcc/${GCC_VERSION}
+module load ${MPI_LIB}/${MPI_VERSION}_${GCC_SHORT}
+module load hdf5/1.10.5_${GCC_SHORT}_${MPI_SHORT}
+module list
+
+gcc --version |head -n 1
+sleep 2
+mpirun --version |head -n 1
+sleep 2
+
+if [[ ! -f $ARCHIVE ]]; then
+  mkdir -p $WORK_DIR
+  wget $URL -O $ARCHIVE
+fi
+
+if [[ ! -d $SRC_DIR ]]; then
+  tar zxf $ARCHIVE --directory $WORK_DIR
+fi
+
+if [[ ! -d $BUILD_DIR ]]; then
+  mkdir $BUILD_DIR
+  cd $BUILD_DIR
+
+  cmake -DCMAKE_INSTALL_PREFIX=${INSTALL_DIR} \
+	-DCMAKE_BUILD_TYPE=release \
+	-DMEDFILE_USE_MPI=ON \
+	-DMEDFILE_BUILD_TESTS=OFF \
+	-DHDF5_ROOT_DIR=${HDF5_ROOT} \
+	${SRC_DIR}
+fi
+
+cd $BUILD_DIR
+make -j || exit 1
+make -j install || exit 1
+}
+
+install_module()
+{
+cd $SCRIPT_DIR
+mkdir -p ${MODULE_DIR}
+
+export LIB_NAME
+export LIB_VERSION
+export INSTALL_DIR
+envtpl  --keep-template -o $MODULE_PATH module.tmpl
+}
+
+if [[ $1 == "module" ]]
+then
+  install_module
+elif [[ $1 == "clean" ]]
+then
+  clean_all
+else
+  install_lib
+  install_module
+fi
+

med/module.tmpl

+#%Module1.0#####################################################################
+### 
+### {{ LIB_NAME }} {{ LIB_VERSION }}
+### 
+proc ModulesHelp { } {
+    global version prefix
+
+    puts stderr "\tlibs//{{ LIB_NAME }}/{{ LIB_VERSION }} - loads {{ LIB_NAME }} {{ LIB_VERSION }}"
+}
+
+module-whatis   "Loads {{ LIB_NAME }} {{ LIB_VERSION }}"
+
+# for Tcl script use only
+set prefix      {{ INSTALL_DIR }}
+
+prepend-path LD_LIBRARY_PATH $prefix/lib
+prepend-path LIBRARY_PATH $prefix/lib
+setenv MED_DIR $prefix
+

mongoc/install.sh

@@ -6,7 +6,7 @@ SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
 
 LIB_NAME="mongoc"
 LIB_VERSION=1.9.4
-GCC_VERSION=6.4.0
+GCC_VERSION=8.3.0 #6.4.0
 
 MONGOC_URL=https://github.com/mongodb/mongo-c-driver/releases/download/${LIB_VERSION}/mongo-c-driver-${LIB_VERSION}.tar.gz
 

mongoc/module.tmpl

@@ -18,3 +18,7 @@ prepend-path CMAKE_PREFIX_PATH $prefix
 prepend-path PATH $prefix/bin
 prepend-path LD_LIBRARY_PATH $prefix/lib
 prepend-path MANPATH $prefix/share/man
+
+setenv LIBBSON_DIR $prefix
+setenv LIBMONGOC_DIR $prefix
+prepend-path PKG_CONFIG_PATH $prefix/lib/pkgconfig
\ No newline at end of file

ninja/install.sh

@@ -14,7 +14,7 @@ SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
 LIB_NAME="ninja"
 LIB_VERSION=1.8.2
 GCC_VERSION=6.4.0
-CMAKE_VERSION=3.9.2
+CMAKE_VERSION=3.12.0
 MODULE_CATEGORY="tools"
 
 # Use cern repository! (patched version)

openmpi/install.sh

@@ -3,9 +3,16 @@
 source ../common.sh
 
 LIB_NAME="openmpi"
-LIB_MAJOR_VERSION=1.10
-LIB_VERSION=${LIB_MAJOR_VERSION}.7
-GCC_VERSION=6.4.0
+#LIB_MAJOR_VERSION=1.10
+#LIB_VERSION=${LIB_MAJOR_VERSION}.7
+LIB_MAJOR_VERSION=4.0
+LIB_VERSION=${LIB_MAJOR_VERSION}.2
+#LIB_MAJOR_VERSION=3.1
+#LIB_VERSION=${LIB_MAJOR_VERSION}.4
+#LIB_VERSION=${LIB_MAJOR_VERSION}.5rc1
+
+GCC_VERSION=8.3.0 #6.4.0
+UCX_VERSION=1.6.1
 
 LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
 GCC_VERSION_SHORT="${GCC_VERSION//.}"
@@ -22,8 +29,9 @@ MODULE_PATH=${MODULE_DIR}/${LIB_VERSION}_gcc${GCC_VERSION_SHORT}
 
 module purge
 module load gcc/${GCC_VERSION}
-
+module load ucx/${UCX_VERSION}_gcc${GCC_VERSION_SHORT}
 gcc --version | head -n 1
+ucx_info -v | head -n 1
 
 install_lib()
 {
@@ -39,9 +47,12 @@ install_lib()
   if [[ ! -d $BUILD_DIR ]]; then
     mkdir $BUILD_DIR
     cd $BUILD_DIR
+    # --without-verbs remove btl support for InfiniBand, now delegate ib to ucx
     ${SRC_DIR}/configure \
-    --enable-mpi-thread-multiple \
-    --prefix=${INSTALL_DIR}
+	      --enable-mpi-thread-multiple \
+	      --with-ucx=${UCX_DIR} \
+	      --without-verbs \
+	      --prefix=${INSTALL_DIR}
   fi
   
   cd $BUILD_DIR
@@ -57,6 +68,7 @@ install_module()
   export LIB_NAME
   export LIB_VERSION
   export INSTALL_DIR
+  export OPENMPI_LOAD_MODULES=$(echo -e "module load ucx/${UCX_VERSION}_gcc${GCC_VERSION_SHORT}")
   envtpl  --keep-template -o $MODULE_PATH module.tmpl
 }
 

openmpi/module.tmpl

@@ -18,3 +18,6 @@ prepend-path PATH $prefix/bin
 prepend-path LD_LIBRARY_PATH $prefix/lib
 prepend-path MANPATH $prefix/share/man
 
+if [module-info mode load]  {
+   {{ OPENMPI_LOAD_MODULES }}
+}

paraview/install.sh

@@ -3,13 +3,13 @@
 source ../common.sh
 
 LIB_NAME="paraview"
-LIB_VERSION_URL=5.4.1
+LIB_VERSION_URL=5.7.0 #5.4.1
 LIB_VERSION=${LIB_VERSION_URL}-py3
-GCC_VERSION=6.4.0
+GCC_VERSION=8.3.0 #6.4.0
 MPI_LIB=openmpi
-MPI_VERSION=1.10.7
-HDF5_VERSION=1.10.1
-CMAKE_VERSION=3.9.2
+MPI_VERSION=4.0.2 #1.10.7
+HDF5_VERSION=1.10.5 #1.10.1
+#CMAKE_VERSION=3.12.0 #3.9.2
 
 LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
 LIB_VERSION_SHORT="${LIB_VERSION%.*}"
@@ -28,14 +28,13 @@ SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
 MODULE_DIR=${BASE_MODULE_DIR}/tools/${LIB_NAME}
 MODULE_PATH=${MODULE_DIR}/${LIB_VERSION}_${GCC_SHORT}_${MPI_SHORT}
 
-
 install_lib()
 {
 module purge
 module load gcc/${GCC_VERSION}
 module load ${MPI_LIB}/${MPI_VERSION}_${GCC_SHORT}
 module load hdf5/${HDF5_VERSION}_${GCC_SHORT}_${MPI_SHORT}
-module load cmake/${CMAKE_VERSION}_${GCC_SHORT}
+module load cmake/3.14.0_gcc640
 
 gcc --version |head -n 1
 mpirun --version |head -n 1
@@ -53,6 +52,7 @@ if [[ ! -d $SRC_DIR ]]; then
 fi
 
 if [[ ! -d $BUILD_DIR ]]; then
+  export Qt5_DIR=/opt/qt59
   mkdir $BUILD_DIR
   cd $BUILD_DIR
   cmake $SRC_DIR \
@@ -67,7 +67,7 @@ if [[ ! -d $BUILD_DIR ]]; then
   -DPYTHON_EXECUTABLE="/usr/bin/python3" \
   -DPARAVIEW_INSTALL_DEVELOPMENT_FILES=ON \
   -DPARAVIEW_USE_MPI=ON \
-  -DPARAVIEW_QT_VERSION=4 \
+  -DPARAVIEW_QT_VERSION=5 \
   -DCMAKE_INSTALL_PREFIX=$INSTALL_DIR || exit 1
 fi
 

paraview/module.tmpl

@@ -11,13 +11,13 @@ proc ModulesHelp { } {
 module-whatis   "Loads {{ LIB_NAME }} {{ LIB_VERSION }} and its environment"
 
 if [module-info mode load]  {
-  module load gcc/{{ GCC_VERSION }}
+#  module load gcc/{{ GCC_VERSION }}
   module load {{ MPI_LIB }}/{{ MPI_VERSION }}_{{ GCC_SHORT }}
   module load hdf5/{{ HDF5_VERSION }}_{{ GCC_SHORT }}_{{ MPI_SHORT }}
 
 }
 
-prereq gcc/{{ GCC_VERSION }}
+# prereq gcc/{{ GCC_VERSION }}
 prereq openmpi/{{ MPI_VERSION }}_{{ GCC_SHORT }}
 prereq hdf5/{{ HDF5_VERSION }}_{{ GCC_SHORT }}_{{ MPI_SHORT }}
 
@@ -27,6 +27,9 @@ set prefix      {{ INSTALL_DIR }}
 prepend-path CMAKE_PREFIX_PATH $prefix
 prepend-path PATH $prefix/bin
 prepend-path LD_LIBRARY_PATH $prefix/lib
-prepend-path LD_LIBRARY_PATH $prefix/lib/paraview-{{ LIB_VERSION_SHORT }}
-prepend-path PYTHONPATH $prefix/lib/paraview-{{ LIB_VERSION_SHORT }}/site-packages
-prepend-path PYTHONPATH $prefix/lib/paraview-{{ LIB_VERSION_SHORT }}/site-packages/vtk
+prepend-path PYTHONPATH $prefix/lib/python3.5/site-packages
+
+# For paraview < 5.6
+#prepend-path LD_LIBRARY_PATH $prefix/lib/paraview-{{ LIB_VERSION_SHORT }}
+#prepend-path PYTHONPATH $prefix/lib/paraview-{{ LIB_VERSION_SHORT }}/site-packages
+#prepend-path PYTHONPATH $prefix/lib/paraview-{{ LIB_VERSION_SHORT }}/site-packages/vtk

petsc/install.sh

@@ -3,10 +3,11 @@
 source ../common.sh
 
 LIB_NAME="petsc"
-LIB_VERSION=3.8.3 #3.7.6
-GCC_VERSION=6.4.0
+LIB_VERSION=3.12.1 # 3.9.3 #3.9.1 #3.8.3 #3.7.6
+GCC_VERSION=8.3.0 #6.4.0
 MPI_LIB=openmpi
-MPI_VERSION=1.10.7 #2.1.1 #1.10.7
+MPI_VERSION=4.0.2 #1.10.7 #2.1.1 #1.10.7
+HDF5_VERSION=1.10.5
 
 LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
 GCC_FULL=gcc-$GCC_VERSION
@@ -29,7 +30,7 @@ install_lib()
 module purge
 module load gcc/${GCC_VERSION}
 module load ${MPI_LIB}/${MPI_VERSION}_${GCC_SHORT}
-module load hdf5/1.10.1_${GCC_SHORT}_${MPI_SHORT}
+module load hdf5/${HDF5_VERSION}_${GCC_SHORT}_${MPI_SHORT}
 module list
 
 gcc --version |head -n 1

pyfmi/install.sh

@@ -9,7 +9,7 @@ LIB_VERSION=2.4.0
 PYTHON3_VERSION=3.0.0
 PYTHON2_VERSION=2.7.0
 FMILIB_VERSION=2.0.3
-GCC_VERSION=6.4.0
+GCC_VERSION=8.3.0 #6.4.0
 #GMSH_VERSION=2.16.0
 
 LIB_VERSION_MAJOR=`echo "${LIB_VERSION}" | sed 's/\([0-9]\)[.][0-9][.][0-9]/\1/g'`

pygmsh/install.sh

@@ -5,7 +5,7 @@ source ../common.sh
 SCRIPT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
 
 LIB_NAME="pygmsh"
-LIB_VERSION=4.0.3
+LIB_VERSION=4.3.0
 PYTHON3_VERSION=3.0.0
 PYTHON2_VERSION=2.7.0
 #GMSH_VERSION=2.16.0

slepc/install.sh

@@ -3,11 +3,11 @@
 source ../common.sh
 
 LIB_NAME="slepc"
-LIB_VERSION=3.8.2 #3.7.4
-PETSC_VERSION=3.8.3 #3.7.6
-GCC_VERSION=6.4.0
+LIB_VERSION=3.12.0 #3.9.2 #3.9.1 #3.8.2 #3.7.4
+PETSC_VERSION=3.12.1 #3.9.3 #3.9.1 #3.8.3 #3.7.6
+GCC_VERSION=8.3.0 #6.4.0
 MPI_LIB=openmpi
-MPI_VERSION=1.10.7 #2.1.1 #1.10.7
+MPI_VERSION=4.0.2 #1.10.7 #2.1.1 #1.10.7
 
 LIB_FULLNAME=${LIB_NAME}-${LIB_VERSION}
 GCC_FULL=gcc-$GCC_VERSION

ucx/install.sh

+#!/bin/bash
+
+source ../common.sh
+
+LIB_NAME="ucx"
+LIB_VERSION=1.6.1