relax SVN archive

Eliminated the lib.frame_order.iso_cone.populate_*() functions.

The populate_1st_eigenframe_iso_cone() function was unused and incorrect, so it was deleted. The
contents of the populate_2nd_eigenframe_iso_cone() function have been shifted
compile_2nd_matrix_iso_cone() as a separate function is unnecessary. This now matches all the other
lib.frame_order modules.

Updated the frame order matrix element graphs for the free rotor isotropic cone fixes.

The cone S1 parameter has been converted back to the original cone theta opening half-angle,
allowing the 2nd degree frame order matrix elements to be properly calculated for all motions.

Redesign of the free rotor isotropic cone frame order model - the order parameter has been replaced.

From the frame order matrix element graphs in test_suite/shared_data/frame_order/sim_vs_pred_matrix,
specifically Sijkl_iso_cone_free_rotor_in_frame_theta_x_calc.agr,
Sijkl_iso_cone_free_rotor_axis2_1_3_theta_x_calc.agr, and
Sijkl_iso_cone_free_rotor_out_of_frame_theta_x_calc.agr, it is clear that the symmetry of the order
parameter after 120 degrees causes the 2nd degree frame order matrix to be incorrectly estimated.
Therefore the S1 order parameter has been replaced with the original cone opening angle cone_theta.

All parts of relax have been updated for this large conversion.

Merged revisions 26395 via svnmerge from
svn+ssh://bugman@.../svn/relax/trunk

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r26395 | bugman | 2014-10-28 19:47:10 +0100 (Tue, 28 Oct 2014) | 3 lines

Small indexing fixes for the dispersion chapter of the relax manual.
........

Clean up of the frame order matrix element simulation script.

The 1st pseudo-ellipse torsion angle value in the frame order matrix graphs is now 0.0.

Only the cone opening angles set to 0.0 cause a failure in the pseudo-ellipse models, so the torsion
angle is now allowed to start at exactly zero.

The 1st angle for the calculated frame order matrix graphs is 0 for all non pseudo-ellipse models.

This is for the frame_order_solution.py script. Only the pseudo-ellipse models where numerical
integration is required fail for the angle of 0.0. Therefore the changing of the first angle from
0.0 to 0.01 only occurs for the pseudo-ellipse models. All graphs have been updated.

Fix for r26460 - the second factor also needs to be inverted.

A divide by zero fix for the free rotor pseudo-ellipse.

This is in the compile_2nd_matrix_pseudo_ellipse_free_rotor() relax library function.

A divide by zero fix for the torsionless pseudo-ellipse.

This is in the compile_2nd_matrix_pseudo_ellipse_torsionless() relax library function.