Diff for "Python/Links"

Differences between revisions 1 and 15 (spanning 14 versions)

Scientific Programming with Python

Documentation

Modules for Scientific Computing and Visualization

SciPy/NumPy

http://www.scipy.org/

pylab

Matplotlib/pylab Plotting functions with a high degree of Matlab compatibility
http://matplotlib.sourceforge.net/basemap/doc/html/ Matplotlib Basemap

To enable Basemap (on ZMAW Linux ia32/x64 and solaris10) you have to type before starting Python

module load Python/2.4.4

module load Python/2.6.2

In Python you can import the Basemap module by

from mpl_toolkits.basemap import Basemap

GDAL

GDAL - Geospatial Data Abstraction Library for various satellite data formats

PyNGL

PyNGL/PyNIO Python interface to NCAR Command Language
Scientific visualization and data formats (netCDF, HDF, GRIB etc.)

To enable PyNGL (on ZMAW Linux ia32/x64 and solaris10) you have to type

module load PyNGL/1.2.0

Python Interface to GrADS

http://opengrads.org/wiki/index.php?title=Python_Interface_to_GrADS

RPy

RPy (R from Python) Statistical computing and graphics

F2PY: Fortran to Python interface generator

Calling Fortran code from python is easy! Create a file hello.f:

C File hello.f
      subroutine foo (a)
      integer a
      print*, "Hello from Fortran!"
      print*, "a=",a
      end

Run f2py -c -m hello hello.f

Now in IPython try:

In [1]: import hello
In [2]: hello.foo(4)
 Hello from Fortran!
 a=           4

Example taken from

F2PY: Fortran to Python interface generator

Topical Modules

Seawater is a package for computing properties of seawater (UNESCO 1981 and UNESCO 1983).

More topical software can be found at http://scipy.org/Topical_Software

Installation in the home directory

The seawater module is installed on the ZMAW machines for Python 2.6. Use

module load Python/2.6.2

to set up the environment. In the following it is explained how to install the module for the case if it would be not available or if a different version of python has to be used.

Installation of module seawater in directory ~/modules

python setup.py install --prefix=~/modules/

Usage

import sys,os
home=os.getenv('HOME')
genpath=home+'/modules/lib/python2.4/site-packages/'
if not sys.path.__contains__(genpath):
    sys.path.append(genpath)
from seawater import *

Download

A basic system for scientific computing consists of Python, ipython, numpy/scipy, pylab, and an editor of your choice

Python interpreter
IPython shell
SciPy
Matplotlib/pylab
Editor (a nice editor for Windows user, if you don't like to install xemacs)

-  ⇤ ← Revision 1 as of 2008-10-30 09:41:12 → 
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  Editor: anonymous
  Comment:
+   ← Revision 15 as of 2009-06-17 12:41:04 → ⇥
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  Comment:
-Deletions are marked like this.
+Additions are marked like this.
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+[[Python|Scientific Programming with Python]]
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+Line 11:
- * [[http://37mm.no/mpy/idl-numpy.html|NumPy for IDL users]]
+ * [[http://www.cfa.harvard.edu/~jbattat/computer/python/science/idl-numpy.html|NumPy for IDL users]]
-Line 13:
+Line 15:
-== Modules ==
+== Modules for Scientific Computing and Visualization ==
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+Line 22:
+ * [[http://matplotlib.sourceforge.net/basemap/doc/html/]] Matplotlib Basemap

To enable  Basemap (on ZMAW Linux ia32/x64 and solaris10) you have to type before starting Python
{{{
module load Python/2.4.4
}}}
or
{{{
module load Python/2.6.2
}}}

In Python you can import the Basemap module by
{{{
from mpl_toolkits.basemap import Basemap
}}}
-Line 31:
+Line 48:
+=== Python Interface to GrADS ===
 * http://opengrads.org/wiki/index.php?title=Python_Interface_to_GrADS
-Line 35:
+Line 53:
+=== F2PY: Fortran to Python interface generator ===

Calling Fortran code from python is easy! Create a file {{{hello.f}}}:
{{{
C File hello.f
      subroutine foo (a)
      integer a
      print*, "Hello from Fortran!"
      print*, "a=",a
      end
}}}

Run
{{{f2py -c -m hello hello.f}}}

Now in IPython try:
{{{
In [1]: import hello
In [2]: hello.foo(4)
 Hello from Fortran!
 a=           4
}}}

Example taken from

 * [[http://cens.ioc.ee/projects/f2py2e/|F2PY: Fortran to Python interface generator]]

== Topical Modules ==

 * [[http://www.imr.no/~bjorn/python/seawater/index.html|Seawater]] is a package for computing properties of seawater (UNESCO 1981 and UNESCO 1983).

More topical software can be found at http://scipy.org/Topical_Software

=== Installation in the home directory ===
The seawater module is installed on the ZMAW machines for Python 2.6. Use 
{{{
module load Python/2.6.2
}}}
to set up the environment. In the following it is explained how to install the module for the case if it would be not available or if a different version of python has to be used.

Installation of module {{{seawater}}} in directory {{{~/modules}}}
{{{
python setup.py install --prefix=~/modules/
}}}

Usage
{{{
import sys,os
home=os.getenv('HOME')
genpath=home+'/modules/lib/python2.4/site-packages/'
if not sys.path.__contains__(genpath):
    sys.path.append(genpath)
from seawater import *
}}}
-Line 36:
+Line 109:
+A basic system for scientific computing consists of Python, ipython, numpy/scipy, pylab, and an editor of your choice
-Line 40:
+Line 115:
- * [[http://sourceforge.net/projects/matplotlib|Matplotlib]]
 * [[http://www.crimsoneditor.com/| Editor]]
+ * [[http://matplotlib.sourceforge.net/|Matplotlib/pylab]]
 * [[http://www.crimsoneditor.com/| Editor]] (a nice editor for Windows user, if you don't like to install xemacs)