Warning

Iceberg was decommissioned on 30th November 2020. Users of Iceberg need to switch to using ShARC and/or Bessemer instead.

cgns¶

The CFD General Notation System (CGNS) provides a general, portable, and extensible standard for the storage and retrieval of computational fluid dynamics (CFD) analysis data.

Usage¶

To make this library available, run the following module command

module load libs/gcc/4.4.7/cgns/3.2.1

This will also load the module files for the prerequisite libraries, Open MPI 1.8.3 and HDF5 1.8.14 with parallel support.

Installing¶

This section is primarily for administrators of the system.

This is a prerequisite for Code Saturne version 4.0.
It was built with gcc 4.4.7, openmpi 1.8.3 and hdf 1.8.14

module load libs/hdf5/gcc/openmpi/1.8.14
tar -xvzf cgnslib_3.2.1.tar.gz
mkdir /usr/local/packages6/libs/gcc/4.4.7/cgnslib
cd /usr/local/packages6/libs/gcc/4.4.7/cgnslib
mkdir 3.2.1
cd 3.2.1
cmake ~/cgnslib_3.2.1/
ccmake .

Configured the following using ccmake

CGNS_ENABLE_PARALLEL            ON
 MPIEXEC                         /usr/local/mpi/gcc/openmpi/1.8.3/bin/mpiexec
 MPI_COMPILER                    /usr/local/mpi/gcc/openmpi/1.8.3/bin/mpic++
 MPI_EXTRA_LIBRARY               /usr/local/mpi/gcc/openmpi/1.8.3/lib/libmpi.s
 MPI_INCLUDE_PATH                /usr/local/mpi/gcc/openmpi/1.8.3/include
 MPI_LIBRARY                     /usr/local/mpi/gcc/openmpi/1.8.3/lib/libmpi_c
 ZLIB_LIBRARY                    /usr/lib64/libz.so

FORTRAN_NAMING                   LOWERCASE_
 HDF5_INCLUDE_PATH               /usr/local/packages6/hdf5/gcc-4.4.7/openmpi-1.8.3/hdf5-1.8.14/include/
 HDF5_LIBRARY                    /usr/local/packages6/hdf5/gcc-4.4.7/openmpi-1.8.3/hdf5-1.8.14/lib/libhdf5.so
 HDF5_NEED_MPI                    ON
 HDF5_NEED_SZIP                   OFF
 HDF5_NEED_ZLIB                   ON
 CGNS_BUILD_CGNSTOOLS             OFF
 CGNS_BUILD_SHARED                ON
 CGNS_ENABLE_64BIT                ON
 CGNS_ENABLE_FORTRAN              ON
 CGNS_ENABLE_HDF5                 ON
 CGNS_ENABLE_SCOPING              OFF
 CGNS_ENABLE_TESTS                ON
 CGNS_USE_SHARED                  ON
 CMAKE_BUILD_TYPE                 Release
 CMAKE_INSTALL_PREFIX             /usr/local/packages6/libs/gcc/4.4.7/cgnslib/3.2.1

Once the configuration was complete, I did

make
make install

Module File¶

Module File Location: /usr/local/modulefiles/libs/gcc/4.4.7/cgns/3.2.1

#%Module1.0#####################################################################
##
## cgns 3.2.1 module file
##

## Module file logging
source /usr/local/etc/module_logging.tcl
##

proc ModulesHelp { } {
        puts stderr "Makes the cgns 3.2.1 library available"
}

module-whatis   "Makes the cgns 3.2.1 library available"
module load libs/hdf5/gcc/openmpi/1.8.14

set CGNS_DIR /usr/local/packages6/libs/gcc/4.4.7/cgnslib/3.2.1

prepend-path LD_LIBRARY_PATH $CGNS_DIR/lib
prepend-path CPATH $CGNS_DIR/include