relax SVN archive

Math-domain catching for model TP02.

task #7793: (https://gna.org/task/?7793) Speed-up of dispersion models.

This is to implement catching of math domain errors, before they occur.
These can be found via the --numpy-raise function to the systemtests.

To make the code look clean, the class object "back_calc" is no longer
being updated per time point, but is updated in the relax_disp target function in
one go.

Math-domain catching for model TSMFK01.

task #7793: (https://gna.org/task/?7793) Speed-up of dispersion models.

This is to implement catching of math domain errors, before they occur.
These can be found via the --numpy-raise function to the systemtests.

To make the code look clean, the class object "back_calc" is no longer
being updated per time point, but is updated in the relax_disp target function in
one go.

Fix for commit 23246.

http://svn.gna.org/viewcvs/relax?view=revision&revision=23246

The testing taking a value to a power was performed wrong.

This made systemtest Relax_disp.test_hansen_cpmg_data_auto_analysis_numeric
not working.

Update for the release checklist.

The log_converter.py script instructions should now work on more systems.

Disabled the Mf.test_opendx_s2_te_rex GUI test.

This is to allow the test suite to pass for the 3.2.0 relax release. The resolution for the dx.map
GUI bug that it exposes will have to wait for a later relax release.

relax version 3.2.0.

This is a major feature release. It includes a complete rearrangement of the module layout of the
specific analyses packages, the addition of the B14 relaxation dispersion model (from Baldwin et al,
2014), a number of new user functions, documentation improvements including the addition of a new
chapter to the manual for the N-state model or ensemble analysis, and a number of other features.

Python >= 3.2 fix for the Relax_disp.test_sod1wt_t25_to_sherekhan_input system test.

The B0 field value of the ShereKhan input files created by the relax_disp.sherekhan_input user
function was formatted as "%s". However in Python >= 3.2, floats are now converted to have 14
decimal places whereas previous Python versions only had 10 places. The user function backend now
forces only 10 decimal places to be written to the input files.

Python 3 fixes for all of the relax code base.

The command used was:
2to3 -j 4 -w \
-f buffer \
-f idioms \
-f set_literal \
-f ws_comma \
-x except \
-x import \
-x imports \
-x long \
-x numliterals \
-x xrange \
.

The lib.compat and multi.processor module changes were fatal, not useful for Python 3, and hence
reverted.

Python 3 fixes for the extern.numpy_future module.

These changes are necessary to allow relax to even run.

Merged revisions 23254,23260 via svnmerge from
svn+ssh://tlinnet@.../svn/relax/trunk

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r23254 | bugman | 2014-05-20 13:37:32 +0200 (Tue, 20 May 2014) | 12 lines

Fix for the chain-reaction failures in the test suite.

This fixes bug #22055 (https://gna.org/bugs/?22055), the processor.run_queue() not cleaning up in
uni_processor - chain-reaction failures in the test suite.

The fix was insanely simple, just implementing what was mentioned Gary's FIXME comment in the
run_queue() method of the uni-processor object. The queue execution code has been placed inside a
'try' statement and the queue cleaning up code in a 'finally' statement.

This closes a painfully difficult to find bug that has been in relax since 2006.
........
r23260 | bugman | 2014-05-20 16:19:30 +0200 (Tue, 20 May 2014) | 6 lines

Converted the Mf.test_opendx_s2_te_rex system test into a GUI test.

This is to demonstrate bug #22035 (https://gna.org/bugs/?22035), the dx.map user function being
broken in the GUI.
........