Difference between revisions of "PyCDF"
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Revision as of 20:57, 12 August 2009
PyCDF: a handy python module you'll need
Introduction
This is a module that you will need when you come to the exercise when you add a module to GLIMMER-CISM. It's not available through the Ubuntu package manager, so you will install it yourself into your own filespace.
Compiling the Module
OK, first thing's first, let's get the source code. Open a terminal, stay in (move to) your home directory and cut and paste the following:
wget http://sourceforge.net/projects/pysclint/files/pycdf/pycdf-0.6.3b/pycdf-0.6-3b.tar.gz/download
Now, we'll unpack the tarball, and move into the appropriate directory:
tar -xzf pycdf-0.6-3b.tar.gz cd pycdf-0.6-3b
You will need to edit the file called setup.py to reflect where you installed your NetCDF libraries:
elif USE == NUMPY: from numpy.distutils.misc_util import get_numpy_include_dirs _pycdf_ext = Extension(extName, sources = CCode, #library_dirs=["non standard path where libs live"], library_dirs=["/home/PSU/pdx05933/installs/netcdf-4.0.1/lib"], include_dirs = get_numpy_include_dirs(), libraries = ["netcdf"])
Once you've done that, you can compile and install the module with the command:
python setup.py install --prefix=~/py
Setting your PYTHONPATH
We will need to make the new module available to your python installation. A good way to do this is to add the following to your shell start-up file, called ~/.bashrc (the ~ indicating that the file is in your home directory):
export PYTHONPATH=$PYTHONPATH:$HOME/py/lib/python2.6/site-packages
then, in order to re-read that start-up file, you will need to type:
source ~/.bashrc
The next time you open a new shell, your PYTHONPATH will be set automatically, and you won't need to bother with all that source .. malarky.