relax SVN archive

Spun out part of the frame_order.pdb_model user function into the new frame_order.simulate.

The new user function arguments required for properly creating the pseudo-Brownian dynamics
simulation would have made the frame_order.pdb_model user function too complicated. Therefore this
part has been spun out into the new frame_order.simulate user function. The frame_order.simulate
frontend fully describes the algorithm that will be used to simulate the dynamic content of the PCS
and RDC data, and warns that not all modes of motion are visible and present.

Decreased the accuracy of a check in the Relax_disp.test_estimate_r2eff_err_auto system test.

This is to allow the test to pass on my Windows 7 VM.

Changed the missing package/module/software table in the test suite.

This is to allow all names to fit and to update the column titles for software packages.

Implemented correlation plot of minimisation values.

Task #7826 (https://gna.org/task/index.php?7826): Write an python class for the repeated analysis of dispersion data.

Improvements for the printout from the update_model() frame order function.

A list of updated parameters is now created and everything is printed on a single line at the end.
The printout is therefore much more compact.

Change to the position averaging warning in the minimise_setup_atomic_pos() frame order function.

Fix for the previous commit - a bracket was missing preventing relax from starting.

Improvements for the frame order overfit_deselect() API method.

Three changes have been made: The print statements have been converted to RelaxWarnings; the spin
IDs or spin ID pairs are now stored in a list and one RelaxWarning for the missing PCS data and one
for the missing RDC data is now given; and the verbose flag is now used to determine if a
RelaxWarning will be given.

The frame order minimise_setup_atomic_pos() function now accepts the verbosity argument.

This is used to silence the warnings in user functions such as frame_order.sobol_setup.

Merged revisions 25914-25916 via svnmerge from
svn+ssh://bugman@.../svn/relax/trunk

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r25914 | bugman | 2014-09-19 11:32:04 +0200 (Fri, 19 Sep 2014) | 3 lines

Added numdifftools to the extern package __all__ list.
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r25915 | bugman | 2014-09-19 11:33:11 +0200 (Fri, 19 Sep 2014) | 5 lines

Updated the find_missing_copyrights document.

The matching is now more precise and skips all svnmerge operations.
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r25916 | bugman | 2014-09-19 11:43:03 +0200 (Fri, 19 Sep 2014) | 7 lines

Added the 2014 copyright notice for Troels Linnet to many relax source files.

These were identified as being edited by Troels using the command listed in the
find_missing_copyrights document. The changes include adding "Copyright 2014 Troels E. Linnet" to
many files not containing Troels' copyright notice, and extending the 2013 copyright to 2014.
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