Pelahi askapingest

askapingest_sles12sp5/boost.cyg

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+##############################################################################
+# maali cygnet file for Boost
+##############################################################################
+
+read -r -d '' MAALI_MODULE_WHATIS << EOF
+
+Boost provides free peer-reviewed portable C++ source libraries.
+
+We emphasize libraries that work well with the C++ Standard Library. Boost
+libraries are intended to be widely useful, and usable across a broad spectrum
+of applications. The Boost license encourages both commercial and
+non-commercial use.
+
+For further information see http://www.boost.org/
+
+EOF
+
+# Request only the latest GNU and Intel compilers to be used
+MAALI_TOOL_COMPILERS="$MAALI_DEFAULT_COMPILERS"
+
+# needed  for this URL
+MAALI_BOOST_VERSION=`echo $MAALI_TOOL_VERSION| sed -e 's/\./_/g'`
+
+# URL to download the source code from
+MAALI_URL="http://sourceforge.net/projects/$MAALI_TOOL_NAME/files/$MAALI_TOOL_NAME/$MAALI_TOOL_VERSION/"$MAALI_TOOL_NAME"_"$MAALI_BOOST_VERSION".tar.bz2/download"
+
+# location we are downloading the source code to
+MAALI_DST="$MAALI_SRC/"$MAALI_TOOL_NAME"_"$MAALI_BOOST_VERSION".tar.bz2"
+
+# where the unpacked source code is located
+MAALI_TOOL_BUILD_DIR="$MAALI_BUILD_DIR/"$MAALI_TOOL_NAME"_"$MAALI_BOOST_VERSION
+
+# type of tool (eg. apps, devel, python, etc.)
+MAALI_TOOL_TYPE="devel"
+
+# tool pre-requisites
+MAALI_TOOL_PREREQ="$MAALI_DEFAULT_PYTHON"
+
+# for auto-building module files
+MAALI_MODULE_SET_LD_LIBRARY_PATH=1
+MAALI_MODULE_SET_LIBRARY_PATH=1
+MAALI_MODULE_SET_CPATH=1
+MAALI_MODULE_SET_C_INCLUDE_PATH=1
+MAALI_MODULE_SET_CPLUS_INCLUDE_PATH=1
+MAALI_MODULE_SET_BOOST_ROOT='$MAALI_APP_HOME'
+
+##############################################################################
+
+function maali_build {
+
+  cd "$MAALI_TOOL_BUILD_DIR"
+
+#https://github.com/HIT-SCIR/pyltp/pull/193
+  if [ "$MAALI_TOOL_VERSION" == "1.66.0" ]; then
+    sed -i -e 's;return PyUnicode_Check(obj) ? _PyUnicode_AsString(obj) : 0;return (void *)(PyUnicode_Check(obj) ? _PyUnicode_AsString(obj) : 0);g' libs/python/src/converter/builtin_converters.cpp
+  fi
+
+  export MAALI_CORES=12
+  # Intel-compiler specifics
+  if [[ "$MAALI_COMPILER_NAME" == "intel"* ]]; then
+
+  if [ "$MAALI_TOOL_MINOR_VERSION" -ge 66 ]; then
+    maali_run "./bootstrap.sh --prefix=$MAALI_INSTALL_DIR --with-toolset=intel-linux"
+    maali_run "./b2 -j$MAALI_CORES install toolset=intel --prefix=$MAALI_INSTALL_DIR"
+  else
+    maali_run "./bootstrap.sh --prefix=$MAALI_INSTALL_DIR --with-toolset=intel-linux"
+    maali_run "./bjam -j$MAALI_CORES toolset=intel release"
+    maali_run "./bjam install --prefix=$MAALI_INSTALL_DIR"
+  fi
+
+  # GNU compiler specifics
+  else
+
+  if [ "$MAALI_TOOL_MINOR_VERSION" -ge 66 ]; then
+    maali_run "./bootstrap.sh --prefix=$MAALI_INSTALL_DIR --with-toolset=gcc"
+    maali_run "./b2 -j$MAALI_CORES install toolset=gcc --prefix=$MAALI_INSTALL_DIR"
+  else
+    maali_run "./bootstrap.sh --prefix=$MAALI_INSTALL_DIR --without-libraries=python"
+    maali_run "./bjam -j$MAALI_CORES toolset=gcc release"
+    maali_run "./bjam install --prefix=$MAALI_INSTALL_DIR"
+  fi
+
+  fi
+
+  if [ "$MAALI_TOOL_VERSION" == "1.64.0" ]; then
+    sed -i -e 's;#include <boost/serialization/array.hpp>;#include <boost/serialization/array_wrapper.hpp>;g;' $MAALI_INSTALL_DIR/include/boost/numeric/ublas/matrix.hpp
+    sed -i -e 's;#include <boost/serialization/array.hpp>;#include <boost/serialization/array_wrapper.hpp>;g;' $MAALI_INSTALL_DIR/include/boost/numeric/ublas/storage.hpp
+  fi
+
+}
+
+##############################################################################

askapingest_sles12sp5/casacore.cyg

@@ -0,0 +1,166 @@
+##############################################################################
+# maali cygnet file for casacore
+##############################################################################
+
+read -r -d '' MAALI_MODULE_WHATIS << EOF
+
+The casacore package contains the core libraries of the old AIPS++/CASA
+package. This split was made to get a better separation of core libraries and
+applications. CASA is now built on top of casacore.
+
+For further information see http://casacore.github.io/casacore/
+
+EOF
+
+#list extra build options in MAALI_TOOL_BUILD_OPTIONS_AVAIL
+CASACORE_WITH_OPENMP=1
+CASACORE_WITH_PTHREADS=1
+CASACORE_WITH_MPI=0
+CASACORE_WITH_HDF5=1
+CASACORE_WITH_FFTW=1
+CASACORE_WITH_PYTHON=0
+CASACORE_WITH_PYTHON3=0
+MAALI_TOOL_BUILD_OPTIONS_AVAIL=("CASACORE_WITH_OPENMP=1:0", "CASACORE_WITH_PTHREADS=1:0", "CASACORE_WITH_MPI=0:1", "CASACORE_WITH_HDF5=1:0", "CASACORE_WITH_FFTW=1:0", "CASACORE_WITH_PYTHON=0:1", "CASACORE_WITH_PYTHON3=0:1")
+
+# specify which compilers we want to build the tool with
+MAALI_TOOL_COMPILERS="gcc/8.3.0 gcc/5.5.0 "
+
+# URL to download the source code from
+MAALI_URL="https://github.com/${MAALI_TOOL_NAME}/${MAALI_TOOL_NAME}/archive/v${MAALI_TOOL_VERSION}.tar.gz"
+
+# location we are downloading the source code to
+MAALI_DST="$MAALI_SRC/$MAALI_TOOL_NAME-$MAALI_TOOL_VERSION.tar.gz"
+
+# type of tool (eg. apps, devel, python, etc.)
+MAALI_TOOL_TYPE="askap-devel"
+
+# tool build pre-requisites - not added to the module, only needed for building (loaded after MAALI_TOOL_PREREQ)
+MAALI_TOOL_BUILD_PREREQ="cmake/3.18.2"
+
+# tool pre-requisites 
+MAALI_TOOL_PREREQ="cfitsio/3450 wcslib/7.3 intel-mkl/19.0.5 boost/1.66.0"
+
+#location of casacore cata 
+CASACORE_DATA=/pawsey/askapingest_sles12sp5/casacore-data
+
+# add additional configure options
+# here are the default cmake options, directories point to appropriate. 
+MAALI_TOOL_CONFIGURE=""
+MAALI_TOOL_CONFIGURE+=' -DCMAKE_C_COMPILER=gcc -DCMAKE_CXX_COMPILER=g++ -DCMAKE_BUILD_TYPE=RELEASE -DDATA_DIR=${CASACORE_DATA} '
+MAALI_TOOL_CONFIGURE+=' -DCMAKE_EXE_LINKER_FLAGS="-lpthread -lcurl" '
+MAALI_TOOL_CONFIGURE+=' -DBLAS_LIBRARIES=${MKLROOT}/lib/intel64/libmkl_rt.so -DLAPACK_LIBRARIES=${MKLROOT}/lib/intel64/libmkl_rt.so '
+MAALI_TOOL_CONFIGURE+=' -DCFITSIO_ROOT_DIR=${MAALI_CFITSIO_HOME} -DWCSLIB_ROOT_DIR=${MAALI_WCSLIB_HOME} '
+
+# parse the build options, would be nice to make this a function 
+# the issue currently is the local scope of variables declared 
+CASACORE_BUILD_NAME=""
+if [[ ${#MAALI_TOOL_BUILD_OPTIONS[@]} -gt 0 ]]; then
+    for i in ${MAALI_TOOL_BUILD_OPTIONS[@]}
+    do
+        opt=(${i//=/ })
+        optname=${opt[0]}
+        optval=${opt[1]}
+        if [[ "$optname" -eq "CASACORE_WITH_MPI" ]]; then
+            CASACORE_WITH_MPI=$optval
+        fi
+        if [[ "$optname" -eq "CASACORE_WITH_OPENMP" ]]; then
+            CASACORE_WITH_OPENMP=$optval
+        fi
+        if [[ "$optname" -eq "CASACORE_WITH_PTHREADS" ]]; then
+            CASACORE_WITH_PTHREADS=$optval
+        fi
+        if [[ "$optname" -eq "CASACORE_WITH_HDF5" ]]; then
+            CASACORE_WITH_HDF5=$optval
+        fi
+        if [[ "$optname" -eq "CASACORE_WITH_FFTW" ]]; then
+            CASACORE_WITH_FFTW=$optval
+        fi
+        if [[ "$optname" -eq "CASACORE_WITH_PYTHON" ]]; then
+            CASACORE_WITH_PYTHON=$optval
+        fi
+        if [[ "$optname" -eq "CASACORE_WITH_PYTHON3" ]]; then
+            CASACORE_WITH_PYTHON3=$optval
+        fi
+    done
+fi
+
+#now parse build options, set build name
+if [[ $CASACORE_WITH_OPENMP -eq 1 ]]; then
+    MAALI_TOOL_CONFIGURE+=' -DUSE_OPENMP=ON '
+else 
+    CASACORE_BUILD_NAME+="-noopenmp"
+    MAALI_TOOL_CONFIGURE+=' -DUSE_OPENMP=OFF '
+fi
+if [[ $CASACORE_WITH_PTHREADS -eq 1 ]]; then
+    MAALI_TOOL_CONFIGURE+=' -DUSE_THREADS=ON '
+else 
+    CASACORE_BUILD_NAME+="-nothreads"
+    MAALI_TOOL_CONFIGURE+=' -DUSE_THREADS=OFF '
+fi
+if [[ $CASACORE_WITH_MPI -eq 1 ]]; then
+    MAALI_TOOL_CONFIGURE+=' -DUSE_MPI=ON '
+    MAALI_TOOL_PREREQ+=" $MAALI_DEFAULT_MPI "
+    CASACORE_BUILD_NAME+="-mpi"
+else 
+    MAALI_TOOL_CONFIGURE+=' -DUSE_MPI=OFF '
+fi
+if [[ $CASACORE_WITH_HDF5 -eq 1 ]]; then
+    if [[ $CASACORE_WITH_MPI -eq 1 ]]; then
+        MAALI_TOOL_PREREQ+=" hdf5/1.10.0-parallel-api-v110 "
+    else 
+        MAALI_TOOL_PREREQ+=" hdf5/1.10.0-c++-noparallel-api-v110 "
+    fi
+    MAALI_TOOL_CONFIGURE+=' -DUSE_HDF5=ON '
+    MAALI_TOOL_CONFIGURE+=' -DHDF5_ROOT_DIR=${HDF5_DIR} '
+else 
+    CASACORE_BUILD_NAME+="-nohdf5"
+    MAALI_TOOL_CONFIGURE+=' -DUSE_HDF5=OFF '
+fi
+if [[ $CASACORE_WITH_FFTW -eq 1 ]]; then
+    if [[ $CASACORE_WITH_MPI -eq 1 ]]; then
+        MAALI_TOOL_PREREQ+=" fftw/3.3.8-mpi "
+    else 
+        MAALI_TOOL_PREREQ+=" fftw/3.3.8 "
+    fi
+    MAALI_TOOL_CONFIGURE+=' -DUSE_FFTW=ON '
+    MAALI_TOOL_CONFIGURE+=' -DFFTW3F_THREADS_LIBRARY=${FFTW_LIB}/libfftw3f_threads.so -DFFTW3_THREADS_LIBRARY=${FFTW_LIB}/libfftw3_threads.so -DFFTW3F_LIBRARY=${FFTW_LIB}/libfftw3f.so -DFFTW3_LIBRARY=${FFTW_LIB}/libfftw3.so MAALI_TOOL_CONFIGURE+=-DFFTW3_INCLUDE_DIR=${FFTW_INCLUDE} '
+else 
+    CASACORE_BUILD_NAME+="-nofftw"
+    MAALI_TOOL_CONFIGURE+=' -DUSE_FFTW=OFF '
+fi
+
+#python config options still not working, needs updates. 
+if [[ $CASACORE_WITH_PYTHON3 -eq 1 ]]; then
+    MAALI_TOOL_PREREQ+=" python/3.8.5 numpy/1.19.2 "
+    MAALI_TOOL_CONFIGURE+=' -DBUILD_PYTHON3=ON '
+    MAALI_TOOL_CONFIGURE+=' -DBUILD_PYTHON=OFF '
+    MAALI_TOOL_CONFIGURE+=' -DPYTHON3_EXECUTABLE=$PYTHON_DIR/bin/python3 -DPYTHON3_LIBRARY=$PYTHON_DIR/lib/libpython3.so '
+    MAALI_TOOL_CONFIGURE+=' -DPYTHON3_Boost_LIBRARIES=${MAALI_BOOST_HOME}/lib/libboost_python3.so -DPYTHON3_Boost_INCLUDE_DIRS=${MAALI_BOOST_HOME}/include/ '
+    MAALI_TOOL_CONFIGURE+=' -DBOOST_LIBRARYDIR=${MAALI_BOOST_HOME}/lib '
+    MAALI_MODULE_SET_PYTHONPATH=1
+    CASACORE_BUILD_NAME+="-python3"
+else 
+    if [[ $CASACORE_WITH_PYTHON -eq 1 ]]; then
+        MAALI_TOOL_PREREQ+=" python/2.7.18 numpy/1.19.2 "
+        MAALI_TOOL_CONFIGURE+=' -DBUILD_PYTHON=ON '
+        MAALI_TOOL_CONFIGURE+=' -DPYTHON_EXECUTABLE=$PYTHON_DIR/bin/python2 -DPYTHON_LIBRARY=$PYTHON_DIR/lib/libpython2.so ' 
+        MAALI_TOOL_CONFIGURE+=' -DPYTHON_Boost_LIBRARIES=${MAALI_BOOST_HOME}/lib/libboost_python2.so -DPYTHON_Boost_INCLUDE_DIRS=${MAALI_BOOST_HOME}/include/ '
+        CASACORE_BUILD_NAME+="-python2"
+        MAALI_MODULE_SET_PYTHONPATH=1
+    else 
+        MAALI_TOOL_CONFIGURE+=' -DBUILD_PYTHON=OFF '
+    fi
+    MAALI_TOOL_CONFIGURE+=' -DBUILD_PYTHON3=OFF '
+fi
+
+#set the build option name 
+MAALI_TOOL_BUILD_OPTIONS_SUFFIX="$CASACORE_BUILD_NAME"
+
+# where the unpacked source code is located
+MAALI_TOOL_BUILD_DIR="$MAALI_BUILD_DIR/$MAALI_TOOL_NAME-$MAALI_TOOL_VERSION"
+
+# for auto-building module files
+MAALI_MODULE_SET_PATH=1
+MAALI_MODULE_SET_CPATH=1
+MAALI_MODULE_SET_LD_LIBRARY_PATH=1
+MAALI_MODULE_SET_CASACORE_ROOT='$MAALI_APP_HOME'