Relax 1.3.6 - Revision history

Bugman: /* Links */ Fix the broken Gna! forum link by switching to {{gna link}}.

2020-10-14T12:45:09Z

Links: Fix the broken Gna! forum link by switching to {{gna link}}.

Bugman: Switch to the {{gna link}} template for avoiding dead links.

2020-10-06T08:54:21Z

Switch to the {{gna link}} template for avoiding dead links.

Bugman: /* References */ Switched to a labelled section transclusion for the citations.

2015-11-03T17:16:41Z

References: Switched to a labelled section transclusion for the citations.

Bugman: Increased the sectioning depth.

2015-11-03T10:43:08Z

Increased the sectioning depth.

Bugman: Added the 'manual' parameter to {{infobox relax release}}.

2015-10-22T14:05:52Z

Added the 'manual' parameter to {{infobox relax release}}.

Bugman: Added an infobox.

2015-10-21T19:09:36Z

Added an infobox.

Bugman: /* See also */ Added a link to the API documentation.

2014-11-26T10:23:44Z

See also: Added a link to the API documentation.

Bugman: Created a links section.

2014-09-20T17:25:55Z

Created a links section.

Bugman: More user function HTML manual links.

2014-09-20T17:23:14Z

Bugman: Link fix for the last change.

2014-09-20T17:19:37Z

Link fix for the last change.

@@ Line 154: / Line 154: @@
 For reference, the following links are also part of the announcement for this release:
 * [http://wiki.nmr-relax.com/Relax_1.3.6 Official release notes]
-* [https://gna.org/forum/forum.php?forum_id=2251 Gna! news item]
+* {{gna link|url=gna.org/forum/forum.php?forum_id=2251|text=Gna! news item}}
 * [http://article.gmane.org/gmane.science.nmr.relax.announce/27 Gmane]
 * [http://www.mail-archive.com/relax-announce%40gna.org/msg00019.html Mail archive]

@@ Line 33: / Line 33: @@
 <section begin=features/>
-*  Addition of [https://gna.org/users/michaelbieri Michael Bieri's] model-free data extraction script.
+*  Addition of {{gna link|url=gna.org/users/michaelbieri|text=Michael Bieri's}} model-free data extraction script.
 *  Added support for CCPN Analysis 2.1 peak lists (exported in Sparky format).
 *  Execution locking has been implemented to prevent threaded execution from killing relax.  This will be useful for the relax GUI.

@@ Line 167: / Line 167: @@
 == References ==
-<section start=references/>
+* [*d'Auvergne and Gooley, 2007] {{#lst:Citations|dAuvergneGooley07}}
-* [*d'Auvergne and Gooley, 2007] d'Auvergne, E. J. and Gooley, P. R. (2007).  Set theory formulation of the model-free problem and the diffusion seeded model-free paradigm.  ''Mol. BioSyst.'', '''3'''(7), 483–494. (DOI: [http://dx.doi.org/10.1039/b702202f 10.1039/b702202f]).
+* [*d'Auvergne and Gooley, 2008b] {{#lst:Citations|dAuvergneGooley08b}}
 <HarvardReferences />

@@ Line 10: / Line 10: @@
 }}
-= Description =
+== Description ==
 <section begin=description/>
@@ Line 16: / Line 16: @@
 <section end=description/>
-= Download =
+== Download ==
 <section begin=download/>
@@ Line 22: / Line 22: @@
 <section end=download/>
-= CHANGES file =
+== CHANGES file ==
 <section begin=metadata/>
@@ Line 30: / Line 30: @@
 <section end=metadata/>
-== Features ==
+=== Features ===
 <section begin=features/>
@@ Line 58: / Line 58: @@
 <section end=features/>
-== Changes ==
+=== Changes ===
 <section begin=changes/>
@@ Line 113: / Line 113: @@
 <section end=changes/>
-== Bugfixes ==
+=== Bugfixes ===
 <section begin=bugfixes/>
@@ Line 149: / Line 149: @@
 <section end=bugfixes/>
-= Links =
+== Links ==
 <section begin=links/>
@@ Line 161: / Line 161: @@
 <section end=links/>
-= Announcements =
+== Announcements ==
 {{:relax release announcements}}
-= References =
+== References ==
 <section start=references/>
@@ Line 173: / Line 173: @@
 <HarvardReferences />
-= See also =
+== See also ==
 * [http://www.nmr-relax.com/api/1.3/ The relax 1.3 API documentation]

@@ Line 7: / Line 7: @@
 | type    = Major feature
 | date    = 31 December 2010
 }}

← Older revision		Revision as of 19:09, 21 October 2015
Line 1:		Line 1:
	{{lowercase title}}		{{lowercase title}}
		+
		+	{{infobox relax release
		+	\| version = 1.3.6
		+	\| prev = 1.3.5
		+	\| next = 1.3.7
		+	\| type = Major feature
		+	\| date = 31 December 2010
		+	}}

	= Description =		= Description =

@@ Line 166: / Line 166: @@
 = See also =
 {{:relax release see also}}
 [[Category:Frame order analysis]]
 [[Category:N-state model analysis]]

@@ Line 67: / Line 67: @@
 *  Created a new directory 'graphics' for all relax artwork.
 *  The [http://www.nmr-relax.com/manual/structure_load_spins.html structure.load_spins user function] now gives a RelaxWarning if no data could be found.
-*  The negative cones and z-axes are now not created for the pseudo-ellipses in frame_order.cone_pdb().
+*  The negative cones and z-axes are now not created for the pseudo-ellipses in [http://www.nmr-relax.com/manual/frame_order_cone_pdb.html frame_order.cone_pdb].
-*  Added some transparency to the cone in pymol.cone_pdb().
+*  Added some transparency to the cone in [http://www.nmr-relax.com/manual/pymol_cone_pdb.html pymol.cone_pdb].
 *  Modified the [http://www.nmr-relax.com/manual/pymol_cone_pdb.html pymol.cone_pdb user function] to handle x, y, and z-axes.
 *  Modified create_cone_pdb() to accept a pre-made structural object and to create a file only when asked.
@@ Line 77: / Line 77: @@
 *  Parameters can be fixed to the original values during the frame order grid search.
 *  The user function argument checker arg_check.is_int_or_int_list() can now allow for None list elements.
-*  The frame order model can be overwritten by frame_order.select_model().
+*  The frame order model can be overwritten by [http://www.nmr-relax.com/manual/frame_order_select_model.html frame_order.select_model].
 *  Shifted to using numpy.sinc() for the frame order equations.
 *  Switched the theta and phi angles in cartesian_to_spherical() to match the rest of relax.
@@ Line 98: / Line 98: @@
 *  Inverted the x and y axes in the RDC and PCS correlation plots.
 *  Better support for tensor-less N-state model optimisation.
-*  The align_tensor.copy() tensor_to arg can now be None, this is useful for copying between data pipes.
+*  The [http://www.nmr-relax.com/manual/align_tensor_copy.html align_tensor.copy] tensor_to arg can now be None, this is useful for copying between data pipes.
 *  Added a function for the pseudo-elliptical cosine function, this is a numerical approximation generated by series expansion.
 *  Added a method for translating pymol.cmd.do() commands into specific pymol.cmd functions.  This prevents problems with commands being executed asynchronously.  For example images were being saved before ray-tracing was complete.
@@ Line 119: / Line 119: @@
 *  Fix for the NOE auto-analysis - the spins are now named to the value of the 'heteronuc' arg.
 *  Fix for the [http://www.nmr-relax.com/manual/frame_order_cone_pdb.html frame_order.cone_pdb user function] - the cone is already in the PDB frame, no rotation required.
-*  Fix for the average domain rotation in pymol.cone_pdb().
+*  Fix for the average domain rotation in [http://www.nmr-relax.com/manual/pymol_cone_pdb.html pymol.cone_pdb].
 *  Bug fix for the [http://www.nmr-relax.com/manual/frame_order_pivot.html frame_order.pivot user function] - it is now functional.
-*  The base contents of the relax data store are no longer saved with a call to results.write().
+*  The base contents of the relax data store are no longer saved with a call to [http://www.nmr-relax.com/manual/results_write.html results.write].
 *  Fix for the [http://www.nmr-relax.com/manual/pcs_back_calc.html pcs.back_calc user function] for when multiple structures are loaded.
-*  Fix for rdc.read() when neg_g_corr is set to True and the RDC list contains entries with None.
+*  Fix for [http://www.nmr-relax.com/manual/rdc_read.html rdc.read] when neg_g_corr is set to True and the RDC list contains entries with None.
 *  Fix for [https://gna.org/bugs/?13259 the failure of model elimination in the full analysis script (bug #13259)].
 *  Added a catch in iso_cone_S_to_theta() for bad order parameters > 1.

@@ Line 58: / Line 58: @@
 *  The molecule type can now be specified.
 *  Improved the diffusion tensor print out.
-*  [http://www.nmr-relax.com/manual/pipe.delete.html pipe.delete] without args will now delete all data pipes.
+*  [http://www.nmr-relax.com/manual/pipe_delete.html pipe.delete] without args will now delete all data pipes.
 *  Added some checks to the dauvergne_protocol model-free analysis[d'Auvergne and Gooley, 2007][d'Auvergne and Gooley, 2008b] for the required previously optimised results.
 *  Shifted the steady-state NOE specific analysis code into its own package.