relax SVN archive

Epydoc docstring fixes for the lib.io module - keyword arguments were not correctly identified.

These were identified by Troels in the post at
http://thread.gmane.org/gmane.science.nmr.relax.scm/24565/focus=7384

Updated all code that accesses the target_functions.relax_fit module.

The target_functions.relax_fit_wrapper.Relax_fit_opt class no longer exists. Instead the
target_functions.relax_fit.Relax_fit C class is being used. The input into the C code has been
updated to make sure that all arguments for the target functions are numpy arrays rather than Python
lists.

Copied the unit test_pipes.py to test_io.py.

Task #7873 (https://gna.org/task/index.php?7873): Write wrapper function to nmr$
Homepage: http://www.nmrglue.com/
Link to nmrglue discussion: https://groups.google.com/forum/#!forum/nmrglue-dis$
The code is develop at Github: https://github.com/jjhelmus/nmrglue/
Google code: https://code.google.com/p/nmrglue/
Documentation: http://nmrglue.readthedocs.org/en/latest/index.html

Updated the dep_check module for the target_functions.relax_fit C module redesign.

Updated the sconstruct script for compiling the C modules.

The numpy and numarray include directories are now given as arguments to the C compiler.

Conversion of the relax_fit C module to a Python C class structure.

This follows the 'Extending and Embedding the Python Interpreter' document, specifically the design
of https://docs.python.org/2/extending/newtypes.html#providing-finer-control-over-data-attributes.

Extensive changes have been made including converting the setup() function into the __init__()
method, converting all functions to methods, creating the C struct for the class 'self' object and
defining Python data storage for the model name, the number of parameters and relaxation times, and
the numpy data storage for the chi-squared gradient and Hessian and the Jacobian and chi-squared
Jacobian. The gradient and Hessian methods now return numpy arrays rather than Python lists of
lists, and all methods require the parameter argument to be a numpy array (it segfaults otherwise).
A __new__() method has been defined to create the class and it initial objects. And a special class
destructor has been created to clear out the objects in 'self'.

Target function aliasing is handled by creating NULL method definitions in the PyMethodDef list.
Then the list is manipulated to alias the method by setting the NULL method item to one of the real
methods.

Deletion of the Python relax_fit_wrapper target function module.

Creation of a test branch for playing with the idea of a relax_fit C class with numpy support.

This idea has the huge disadvantage in that the compiled C modules will then be specific for one
certain numpy version. However numpy is constantly changing and therefore targeting one numpy
version is not feasible. The only solution would be to redesign the distribution archives to bundle
Python, numpy, wxPython, etc., as the Mac OS X DMG file currently does, so that the versions of all
the modules are fixed.

Copy of pipe_control nmrglue.py to io.py.

This is to add a pipe_control module for common IO operations.

This is for dealing with listing files in a directory for opening and reading in different modules.

Task #7873 (https://gna.org/task/index.php?7873): Write wrapper function to
Homepage: http://www.nmrglue.com/
Link to nmrglue discussion: https://groups.google.com/forum/#!forum/nmrglue-
The code is develop at Github: https://github.com/jjhelmus/nmrglue/
Google code: https://code.google.com/p/nmrglue/
Documentation: http://nmrglue.readthedocs.org/en/latest/index.html

Updated the memory_leak_test_relax_fit.py development script for the C module changes.

This is only the docstring description which changed.