Difference between revisions of "Python/SettingPaths"

From mn/geo/geoit
Jump to: navigation, search
 
Line 3: Line 3:
 
Python is a programming language that comes with 'batteries included', meaning there are many existing tools (called modules) for your use. For meteorological and climate data analysis, many of the tools have significant library dependencies, and it can be a challenge to build the modules (for instance netcdf requires the zlib compression libraries for HDF4/5 while grib requires the jasper libraries for compression).
 
Python is a programming language that comes with 'batteries included', meaning there are many existing tools (called modules) for your use. For meteorological and climate data analysis, many of the tools have significant library dependencies, and it can be a challenge to build the modules (for instance netcdf requires the zlib compression libraries for HDF4/5 while grib requires the jasper libraries for compression).
  
−
Many of the modules have been built already and will work for the main transport group servers: billy, sjanten, tyr, tor, nordre, etc.
+
Many of the modules have been built already and will work on our servers.
  
 
In order to use these modules, you need to add the appropriate python path to you shell.
 
In order to use these modules, you need to add the appropriate python path to you shell.
  
−
The easiest way to accomplish this is to add the following line somewhere in your .bashrc file::
+
The easiest way to accomplish this is to add the following line somewhere in your .modulerc file::
  
−
     source /xnilu_wrk/flex_wrk/.flexpartrc
+
     #%Module1.0
−
 
 
−
This file will add a PYTHONPATH environment variable, but will also set the GRIB paths and add to your own $PATH. Read the header of the file for further information.
 
−
 
 
−
=== Customizing Ipython (OLD VERSION) ===
 
−
 
 
−
Ipython is a powerful interpreter for Python. It is highly recommended to use this for developing and testing code snippets while you are writing your modules and scripts.
 
−
 
 
−
Once you are logged on to a server and have sourced the file above, you should be able to import the modules. A handy shortcut is to customize your Ipython environment and automatically import some of these modules. To do this, you simply need to edit the file: <code>~/.ipython/ipy_user_conf.py</code> in your $HOME directory. In the <code>main</code> function, you can add some import statements in the following way: <source lang="py">
 
−
# Most of your config files and extensions will probably start with this import
 
−
 
 
−
import IPython.ipapi
 
−
ip = IPython.ipapi.get()
 
 
   
 
   
 +
set version 1.0
 +
module load python/anaconda
  
−
def main():
+
This&nbsp; will add a PYTHONPATH environment variable with all the python packages available at UIO.
−
ip.ex('import numpy as np')
 
−
ip.ex('import matplotlib.pyplot as plt')
 
−
ip.ex('from mpl_toolkits.basemap import shiftgrid, addcyclic, Basemap')
 
−
ip.ex('from netCDF4 import Dataset as NetCDFFile')
 
−
ip.ex('plt.ion()') #make sure interactive plotting is turned on
 
  
−
#the config files will close with a call to main()
 
−
main()
 
  
−
</source>
 
  
−
[[Category:Tools]][[Category:Software]][[Category:Python]]
+
[[Category:Tools]]<br/>[[Category:Software]]<br/>[[Category:Python]]

Latest revision as of 10:21, 11 February 2015

Setting up Python Paths

Python is a programming language that comes with 'batteries included', meaning there are many existing tools (called modules) for your use. For meteorological and climate data analysis, many of the tools have significant library dependencies, and it can be a challenge to build the modules (for instance netcdf requires the zlib compression libraries for HDF4/5 while grib requires the jasper libraries for compression).

Many of the modules have been built already and will work on our servers.

In order to use these modules, you need to add the appropriate python path to you shell.

The easiest way to accomplish this is to add the following line somewhere in your .modulerc file:: 

   #%Module1.0

set version 1.0
module load python/anaconda

This  will add a PYTHONPATH environment variable with all the python packages available at UIO.

Retrieved from "https://wiki.uio.no/mn/geo/geoit/index.php?title=Python/SettingPaths&oldid=1195"