relax SVN archive

Merged revisions 8026-8028,8061,8064 via svnmerge from
svn+ssh://bugman@.../svn/relax/1.3

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r8026 | bugman | 2008-11-26 18:02:05 +0100 (Wed, 26 Nov 2008) | 3 lines

Wrote 8 system tests for reading various PDB files using the internal and Scientific python objects.
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r8027 | bugman | 2008-11-27 09:57:19 +0100 (Thu, 27 Nov 2008) | 3 lines

Added a lactose PDB file and 2 system tests reading this file.
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r8028 | bugman | 2008-11-27 10:12:55 +0100 (Thu, 27 Nov 2008) | 5 lines

Fix for the __atom_index() method. This is a partial fix for bug #12637 (https://gna.org/bugs/?12637).

The struct_index of None is now handled.
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r8061 | bugman | 2008-11-29 17:53:30 +0100 (Sat, 29 Nov 2008) | 14 lines

Manually ported the CHANGES file changes to the 1.3 line.

The command used was:
svn merge -r8059:8060 svn+ssh://bugman@.../svn/relax/tags/1.3.3 .

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r8060 | bugman | 2008-11-29 17:51:50 +0100 (Sat, 29 Nov 2008) | 3 lines
Changed paths:
M /tags/1.3.3/docs/CHANGES

Updated the CHANGES file for relax 1.3.3.
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r8064 | bugman | 2008-11-29 18:32:37 +0100 (Sat, 29 Nov 2008) | 14 lines

Manually ported the user manual fixes of r8063 from the 1.3.3 tag.

The command used was:
svn merge -r8062:8063 svn+ssh://bugman@.../svn/relax/tags/1.3.3 .

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r8063 | bugman | 2008-11-29 18:31:20 +0100 (Sat, 29 Nov 2008) | 3 lines
Changed paths:
M /tags/1.3.3/docs/latex/relax.tex

Fixed the spacing in the table of contents of the user manual.
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Manually updated the relax_fit.py sample script to match the equivalent system test script.

Another fix for the relax_fit.py system test script.

The state.save() user function has no 'file' arg.

Fix for the relax_fit.py system test script. The 'ave_int' value type is no more!

The proper spin specific peak intensity errors are now input into the relax-fit minimise() method.

Fixed the setting of the spin specific peak intensity errors in __errors_repl().

This should be an array equal to cdp.sigma_I.

Some whitespace cleanups.

Replaced all references to 'average peak intensity'. These are no longer averaged.

Some fixes for the back_calc() relax-fit method.

Not sure if this method will work yet!

Removal of the mean_and_error() method. This is now part of generic_fns.spectrum.