NetCDF
NetCDF (Network Common Data Form) is a set of software libraries and self-describing, machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data.[1]
Installed Versions
All nodes on Proteus have a runtime-only copy of NetCDF 4.1.1 -- this does not allow for compiling code which uses NetCDF.
Intel-optimized Versions
There are two versions installed:
- NetCDF 4.4.1, with a separate NetCDF Fortran 4.4.4 module
- NetCDF 4.5.0 + NetCDF Fortran 4.4.4
An Intel-optimized version NetCDF 4.4.1 is installed, using Intel Composer XE 2015.1.133, which also includes HDF5 1.8.14. This does not include HDF4 compatibility, nor does it include any parallel i/o capability.
To use the modules listed in this section, the modulefile for the Intel compiler must be loaded first:
intel/composerxe/2015.1.133
Use the modulefile
proteus-netcdf/intel/2015/4.4.1
This relies on HDF5, Zlib, and Szip. These other modules are automatically loaded with the proteus-netcdf module.
For the Fortran bindings, use:
proteus-netcdf-fortran/intel/2015/4.4.4
this will load other necessary modulefiles.
An Intel-optimized NetCDF 4.5.0 is installed, which pulls in the HDF5 1.10.1 module. This NetCDF 4.5.0 installation includes NetCDF Fortran 4.4.4, so the separate NetCDF Fortan modulefile is not needed.
Use:
proteus-netcdf/intel/2015/4.5.0
Using
Since there are also default system versions of NetCDF, one has to perform some extra steps in order to be sure the appropriate library is found at compilation/link time as well as run time.
The installation root is given by these two environment variables (NCDIR is the one referenced in NetCDF's official documentation):
NCDIR
NETCDFDIR
For convenience, the include and library directories have their own environment variables defined.
To get the appropriate include files for a C application, add the following to the CPPFLAGS of the application you are building
-I$NETCDFINCDIR
To set the proper library link path, add the following to the LDFLAGS of the application you are building
-L$NETCDFLIBDIR -Wl,-rpath,$NETCDFLIBDIR
Documentation
Official documentation is available online.[2]
Compilation Instructions
See Compiling NetCDF