relax SVN archive

................
r5625 | bugman | 2008-04-13 16:23:26 +0200 (Sun, 13 Apr 2008) | 6 lines

Fix for the test_opt_constr_cd_mt_S2_0_970_te_2048_Rex_0_149() system test.

After the fix of r5622, this optimisation now works correctly!!! So the optimisation stats have
been updated in the test.
................
r5626 | bugman | 2008-04-13 16:25:36 +0200 (Sun, 13 Apr 2008) | 6 lines

Fix for the test_opt_constr_bfgs_mt_S2_0_970_te_2048_Rex_0_149() system test.

The optimisation stats hard coded into the test are now correct.
................
r5627 | bugman | 2008-04-13 16:27:56 +0200 (Sun, 13 Apr 2008) | 5 lines

Fix for the test_opt_constr_bfgs_back_S2_0_970_te_2048_Rex_0_149() system test.

The optimisation stats hard coded into the test are now correct.
................
r5629 | bugman | 2008-04-13 18:52:45 +0200 (Sun, 13 Apr 2008) | 3 lines

Epytext fixes for the docstring of the structural API write_pdb_file() stub method.
................
r5630 | bugman | 2008-04-13 18:58:44 +0200 (Sun, 13 Apr 2008) | 3 lines

Renamed the class 'Str_object' to 'Base_struct_API'.
................
r5631 | bugman | 2008-04-13 19:01:28 +0200 (Sun, 13 Apr 2008) | 3 lines

Epytext fixes for the __get_chemical_name() docstring.
................
r5632 | bugman | 2008-04-13 19:12:03 +0200 (Sun, 13 Apr 2008) | 3 lines

Epytext fix for the Internal_PDB class docstring.
................
r5633 | bugman | 2008-04-13 19:13:20 +0200 (Sun, 13 Apr 2008) | 3 lines

Epytext fixes for the write_pdb_file() docstring.
................
r5634 | bugman | 2008-04-13 19:17:54 +0200 (Sun, 13 Apr 2008) | 3 lines

Shifted some class variables into the __init__() method as these are supposed to change.
................
r5635 | bugman | 2008-04-13 19:26:05 +0200 (Sun, 13 Apr 2008) | 3 lines

Converted the model-free back_calc() method to the new relax design.
................
r5636 | bugman | 2008-04-13 19:44:55 +0200 (Sun, 13 Apr 2008) | 3 lines

Converted the model-free calculate() method to the new relax design.
................
r5637 | bugman | 2008-04-13 19:50:50 +0200 (Sun, 13 Apr 2008) | 3 lines

Converted the model-free are_mf_params_set() method to the new relax design.
................
r5638 | bugman | 2008-04-13 19:51:12 +0200 (Sun, 13 Apr 2008) | 3 lines

Fix for the call to are_mf_params_set().
................
r5639 | bugman | 2008-04-13 19:52:13 +0200 (Sun, 13 Apr 2008) | 3 lines

Fixed a few misnamed variables in the model-free calculate() method.
................
r5640 | bugman | 2008-04-13 19:53:01 +0200 (Sun, 13 Apr 2008) | 3 lines

Fixed the call to assemble_param_vector().
................
r5641 | bugman | 2008-04-13 19:55:43 +0200 (Sun, 13 Apr 2008) | 3 lines

Changed all refs to 'cdp.diff' to 'cdp.diff_tensor'.
................
r5642 | bugman | 2008-04-13 19:57:35 +0200 (Sun, 13 Apr 2008) | 3 lines

Spelling correction in a comment.
................
r5643 | bugman | 2008-04-13 20:02:52 +0200 (Sun, 13 Apr 2008) | 3 lines

Modified the assemble_param_vector() method to allow the parameter set to be given as an arg.
................
r5644 | bugman | 2008-04-13 20:03:12 +0200 (Sun, 13 Apr 2008) | 3 lines

Comment fix.
................
r5645 | bugman | 2008-04-13 20:03:45 +0200 (Sun, 13 Apr 2008) | 3 lines

Fixed the call to assemble_param_vector().
................
r5646 | bugman | 2008-04-13 20:08:10 +0200 (Sun, 13 Apr 2008) | 3 lines

Fix for the initialisation of the maths_fns.mf.Mf class.
................
r5647 | bugman | 2008-04-13 20:09:49 +0200 (Sun, 13 Apr 2008) | 3 lines

Fixes for the gyromagnetic ratio setup.
................
r5648 | bugman | 2008-04-13 20:20:42 +0200 (Sun, 13 Apr 2008) | 5 lines

Converted the model_selection() user function to the new relax design.

The back end code still needs to be converted.
................
r5649 | bugman | 2008-04-13 20:39:58 +0200 (Sun, 13 Apr 2008) | 3 lines

Removed the check of the recently deleted modsel_run arg.
................
r5650 | bugman | 2008-04-13 20:42:20 +0200 (Sun, 13 Apr 2008) | 3 lines

Converted all the model_selection methods into module functions.
................
r5651 | bugman | 2008-04-13 20:43:13 +0200 (Sun, 13 Apr 2008) | 3 lines

Alphabetical ordering of functions.
................
r5652 | bugman | 2008-04-13 20:45:48 +0200 (Sun, 13 Apr 2008) | 3 lines

Converted the aic() docstring to epydoc format.
................
r5653 | bugman | 2008-04-13 20:46:37 +0200 (Sun, 13 Apr 2008) | 3 lines

Converted the aicc() docstring to epydoc format.
................
r5654 | bugman | 2008-04-13 20:47:12 +0200 (Sun, 13 Apr 2008) | 3 lines

Converted the bic() docstring to epydoc format.
................
r5655 | bugman | 2008-04-13 21:20:13 +0200 (Sun, 13 Apr 2008) | 3 lines

Fixed the module docstring.
................
r5656 | bugman | 2008-04-13 21:25:29 +0200 (Sun, 13 Apr 2008) | 3 lines

Removed the word 'run' from the copy() docstring.
................
r5657 | bugman | 2008-04-13 21:29:19 +0200 (Sun, 13 Apr 2008) | 3 lines

Converted the whole of the select() function to the new relax design.
................
r5658 | bugman | 2008-04-13 22:17:48 +0200 (Sun, 13 Apr 2008) | 3 lines

Converted the default flag arg vals to bools in the minimise() method.
................
r5659 | bugman | 2008-04-13 22:58:51 +0200 (Sun, 13 Apr 2008) | 5 lines

Some changes to the tests() function.

This code has to be completely redone though.
................
r5660 | bugman | 2008-04-13 23:25:59 +0200 (Sun, 13 Apr 2008) | 3 lines

Created the same_sequence() function to test if two pipes have the same sequence.
................
r5661 | bugman | 2008-04-13 23:33:35 +0200 (Sun, 13 Apr 2008) | 3 lines

Deleted the tests() function and instead called same_sequence().
................
r5662 | bugman | 2008-04-13 23:42:55 +0200 (Sun, 13 Apr 2008) | 3 lines

Bug fix for the same_sequence() function.
................
r5664 | bugman | 2008-04-14 14:15:49 +0200 (Mon, 14 Apr 2008) | 3 lines

Added a ton of platform information to the model-free optimisation system tests debugging string.
................
r5665 | bugman | 2008-04-14 14:16:16 +0200 (Mon, 14 Apr 2008) | 3 lines

Small change to the debugging printout.
................
r5666 | bugman | 2008-04-14 14:18:27 +0200 (Mon, 14 Apr 2008) | 3 lines

Shifted the system information into module variables, rather than re-fetching these each time.
................
r5667 | bugman | 2008-04-14 14:20:05 +0200 (Mon, 14 Apr 2008) | 3 lines

Catch MS Windows!
................
r5668 | bugman | 2008-04-14 14:27:19 +0200 (Mon, 14 Apr 2008) | 3 lines

Made the test_opt_constr_newton_gmw_mt_S2_0_970_te_2048_Rex_0_149() test pass on 32 bit Linux.
................
r5669 | bugman | 2008-04-14 14:32:01 +0200 (Mon, 14 Apr 2008) | 3 lines

Spun off the value testing code into the new value_test() method.
................
r5670 | bugman | 2008-04-14 14:33:11 +0200 (Mon, 14 Apr 2008) | 3 lines

For differences in optimisation, only the parameters which are different are changed.
................
r5671 | bugman | 2008-04-14 14:36:54 +0200 (Mon, 14 Apr 2008) | 3 lines

The test_opt_constr_cd_mt_S2_0_970_te_2048_Rex_0_149() system test now passes on 32 bit Linux.
................
r5672 | bugman | 2008-04-14 14:39:06 +0200 (Mon, 14 Apr 2008) | 3 lines

The test_opt_constr_bfgs_mt_S2_0_970_te_2048_Rex_0_149() system test now passes on 32 bit Linux.
................
r5673 | bugman | 2008-04-14 14:41:36 +0200 (Mon, 14 Apr 2008) | 3 lines

The test_opt_constr_bfgs_back_S2_0_970_te_2048_Rex_0_149() system test now passes on 32 bit Linux.
................
r5674 | bugman | 2008-04-14 14:46:40 +0200 (Mon, 14 Apr 2008) | 3 lines

Converted all the remaining model-free optimisation system tests to use value_test().
................
r5675 | bugman | 2008-04-14 14:57:45 +0200 (Mon, 14 Apr 2008) | 3 lines

Tightened up the S2 test.
................
r5676 | bugman | 2008-04-14 15:04:47 +0200 (Mon, 14 Apr 2008) | 3 lines

Made the S2 test exact!
................
r5677 | bugman | 2008-04-14 15:09:14 +0200 (Mon, 14 Apr 2008) | 3 lines

Made the te test exact!
................
r5678 | bugman | 2008-04-14 15:16:50 +0200 (Mon, 14 Apr 2008) | 3 lines

Made the Rex test exact! The Rex conversion factor has been shifted into value_test().
................
r5679 | bugman | 2008-04-14 15:20:08 +0200 (Mon, 14 Apr 2008) | 3 lines

The te conversion factor has been shifted into value_test().
................
r5680 | bugman | 2008-04-14 15:24:46 +0200 (Mon, 14 Apr 2008) | 3 lines

Made the chi-squared test exact.
................
r5681 | bugman | 2008-04-14 15:32:07 +0200 (Mon, 14 Apr 2008) | 3 lines

Created a unit test for testing the proper operation of the spin loop with wildcard spin selection.
................
r5682 | bugman | 2008-04-14 15:36:30 +0200 (Mon, 14 Apr 2008) | 3 lines

Created a unit test for the proper operation of the spin loop with spin selection '@NH|@N5'.
................
r5683 | bugman | 2008-04-14 15:37:09 +0200 (Mon, 14 Apr 2008) | 3 lines

Updated the docstring of test_spin_loop_wildcard().
................
r5684 | bugman | 2008-04-14 15:38:45 +0200 (Mon, 14 Apr 2008) | 3 lines

Wrote a unit test for testing the generic_fns.selection.tokenise() function on the string '@N*'.
................
r5685 | bugman | 2008-04-14 15:46:39 +0200 (Mon, 14 Apr 2008) | 3 lines

Wrote a unit test for testing generic_fns.selection.parse_token() function on the string 'N*'.
................
r5686 | bugman | 2008-04-14 16:10:53 +0200 (Mon, 14 Apr 2008) | 3 lines

Created the Selection.match() method to add regular expression capabilities to spin id strings.
................
r5687 | bugman | 2008-04-14 16:12:39 +0200 (Mon, 14 Apr 2008) | 3 lines

The molecule and residue name checking now use the new Selection.match() method.
................
r5688 | bugman | 2008-04-14 16:13:26 +0200 (Mon, 14 Apr 2008) | 3 lines

Renamed Selection.match() to Selection.wildcard_match()
................
r5689 | bugman | 2008-04-14 16:18:54 +0200 (Mon, 14 Apr 2008) | 3 lines

Converted all numbers to strings for the Selection.wildcard_match() method.
................
r5690 | bugman | 2008-04-14 16:30:49 +0200 (Mon, 14 Apr 2008) | 5 lines

'*' is replaced with '+' ion the Selection.wildcard_match() method.

This is to convert from relax re format the python re format.
................
r5691 | bugman | 2008-04-14 16:33:38 +0200 (Mon, 14 Apr 2008) | 3 lines

Bug fix: None, str, or number is now accepted in Selection.wildcard_match().
................
r5692 | bugman | 2008-04-14 16:39:36 +0200 (Mon, 14 Apr 2008) | 3 lines

'*' shouldn't be replaced by '+', it should be replaced by '.*'!
................
r5693 | bugman | 2008-04-14 16:50:04 +0200 (Mon, 14 Apr 2008) | 3 lines

Renamed 'string' to 'id' in the Selection.wildcard_match() method.
................
r5694 | bugman | 2008-04-14 16:51:28 +0200 (Mon, 14 Apr 2008) | 3 lines

Converted the Selection.wildcard_match() method into a module function.
................
r5695 | bugman | 2008-04-14 16:54:33 +0200 (Mon, 14 Apr 2008) | 3 lines

The Scientific Python data object now uses the wildcard_match() method to handle regular expression.
................
r5696 | bugman | 2008-04-14 16:57:29 +0200 (Mon, 14 Apr 2008) | 3 lines

The identifier is now bracketed by '^' and '$' in wildcard_match().
................
r5697 | bugman | 2008-04-14 17:31:59 +0200 (Mon, 14 Apr 2008) | 3 lines

The element type is added to the SpinContainer in the load_spins() function.
................
r5698 | bugman | 2008-04-14 17:33:29 +0200 (Mon, 14 Apr 2008) | 3 lines

A few minor changes to the Selection object.
................
r5699 | bugman | 2008-04-14 17:43:17 +0200 (Mon, 14 Apr 2008) | 3 lines

Wrote a unit test for the Selection object for complex boolean mol-res-spin selections.
................
r5700 | bugman | 2008-04-14 17:56:40 +0200 (Mon, 14 Apr 2008) | 3 lines

Wrote a unit test for the Selection object for boolean '&' mol-res-spin selections.
................
r5701 | bugman | 2008-04-14 17:58:26 +0200 (Mon, 14 Apr 2008) | 3 lines

Code rearrangment in the test_Selection_boolean_and() unit test.
................
r5702 | bugman | 2008-04-14 18:03:12 +0200 (Mon, 14 Apr 2008) | 3 lines

Expanded and completed the test_Selection_complex_boolean() unit test of "#Ap4Aase:4 & :Pro | #RNA".
................
r5703 | bugman | 2008-04-14 18:13:20 +0200 (Mon, 14 Apr 2008) | 3 lines

Fixes for the test_Selection_complex_boolean() unit test.
................
r5704 | bugman | 2008-04-14 18:20:37 +0200 (Mon, 14 Apr 2008) | 3 lines

A few changes to the test_boolean_complex_selection() unit test.
................
r5705 | bugman | 2008-04-14 18:35:44 +0200 (Mon, 14 Apr 2008) | 5 lines

Converted test_boolean_or_selection() to test_Selection_boolean_or().

The Selection object is being fully probed.
................
r5706 | bugman | 2008-04-14 18:47:01 +0200 (Mon, 14 Apr 2008) | 3 lines

Wrote the test_spin_loop_single_spin() unit test.
................
r5707 | bugman | 2008-04-14 18:52:50 +0200 (Mon, 14 Apr 2008) | 3 lines

Wrote the unit test test_spin_loop_boolean_or().
................
r5709 | bugman | 2008-04-14 21:15:06 +0200 (Mon, 14 Apr 2008) | 3 lines

Removed the svnmerged-integrated property. Don't know how this got here.
................
r5721 | bugman | 2008-04-14 22:39:19 +0200 (Mon, 14 Apr 2008) | 3 lines

Fixes for the test_opt_constr_sd_back_S2_0_970_te_2048_Rex_0_149() system test on 64 bit Linux.
................
r5722 | bugman | 2008-04-14 22:50:50 +0200 (Mon, 14 Apr 2008) | 3 lines

Fixes for the test_opt_constr_newton_gmw_mt_S2_0_970_te_2048_Rex_0_149() system test for 64 bit Linux.
................
r5723 | bugman | 2008-04-14 22:52:44 +0200 (Mon, 14 Apr 2008) | 3 lines

Modified the mesg_opt_debug() method to print only opt info rather than everything in the spin cont.
................
r5724 | bugman | 2008-04-14 22:58:00 +0200 (Mon, 14 Apr 2008) | 3 lines

Fixed all the model-free optimisation system tests for 64 bit Linux.
................
r5725 | bugman | 2008-04-14 23:37:56 +0200 (Mon, 14 Apr 2008) | 3 lines

Initialized merge tracking via "svnmerge" with revisions "1-5710" from
svn+ssh://bugman@.../svn/relax/branches/spin_loop_bool
................
r5727 | bugman | 2008-04-14 23:42:15 +0200 (Mon, 14 Apr 2008) | 52 lines

Merged revisions 5711,5713-5725 via svnmerge from
svn+ssh://bugman@.../svn/relax/branches/spin_loop_bool

........
r5711 | bugman | 2008-04-14 21:20:26 +0200 (Mon, 14 Apr 2008) | 12 lines

Ok, lets try this again! Created a branch for some nasty breakages and testing new ideas.

The command used was:
svn cp svn+ssh://bugman@.../svn/relax/1.3 svn+ssh://bugman@.../svn/relax/branches/spin_loop_bool

The spin_loop and its siblings cannot currently handle the branching tree formed by the Selection
object (nested within Selection._union and Selection._intersect). For example if there are two
molecules loaded into the data store, 'Ap4Aase' and 'RNA', the spin_loop with the spin id string
'#Ap4Aase:Glu | #RNA@...' loops over all spins of both molecules!!! Therefore all the usages of the
Selection object need to be redesigned, and possibly the Selection object itself.
........
r5713 | bugman | 2008-04-14 21:26:08 +0200 (Mon, 14 Apr 2008) | 3 lines

Modified the spin_loop to check the tuple of (mol, res, spin) against the selection object.
........
r5714 | bugman | 2008-04-14 21:49:20 +0200 (Mon, 14 Apr 2008) | 5 lines

Redesigned the selection object method Selection.__contains__().

Now multiple MoleculeContainer, ResidueContainer, or SpinContainer instances can be compared.
........
r5715 | bugman | 2008-04-14 21:54:34 +0200 (Mon, 14 Apr 2008) | 3 lines

Some fixes for the Selection.__contains__() method.
........
r5716 | bugman | 2008-04-14 21:59:10 +0200 (Mon, 14 Apr 2008) | 3 lines

Changed the spin_index_loop() function to use the same form as spin_loop().
........
r5717 | bugman | 2008-04-14 22:00:39 +0200 (Mon, 14 Apr 2008) | 3 lines

Updated the residue_loop() function.
........
r5718 | bugman | 2008-04-14 22:03:08 +0200 (Mon, 14 Apr 2008) | 3 lines

Updated all the other comparisons to the selection object.
........
r5719 | bugman | 2008-04-14 22:17:11 +0200 (Mon, 14 Apr 2008) | 3 lines

The Selection.__contains__() method now is complete and all the relevant unit tests pass again.
........
r5720 | bugman | 2008-04-14 22:22:08 +0200 (Mon, 14 Apr 2008) | 3 lines

Small docstring updates.
........
................
r5728 | bugman | 2008-04-14 23:43:05 +0200 (Mon, 14 Apr 2008) | 3 lines

Removed merge tracking for "svnmerge" for
svn+ssh://bugman@.../svn/relax/branches/spin_loop_bool
................
r5730 | bugman | 2008-04-15 22:12:42 +0200 (Tue, 15 Apr 2008) | 3 lines

Updated the model-free num_instances() method to the new relax design.
................
r5731 | bugman | 2008-04-15 22:14:24 +0200 (Tue, 15 Apr 2008) | 3 lines

Fixed the calls to count_num_instances() in the select() function.
................
r5732 | bugman | 2008-04-15 22:16:59 +0200 (Tue, 15 Apr 2008) | 3 lines

Fixed a self.assert_() call in the system test for AIC model selection between diffusion tensors.
................
r5733 | bugman | 2008-04-15 22:17:49 +0200 (Tue, 15 Apr 2008) | 5 lines

Renamed the system test method for AIC model selection between two diffusion tensors.

The old name was test_diff(), whereas the new is test_aic_mod_sel_diff_tensor().
................
r5734 | bugman | 2008-04-15 22:20:42 +0200 (Tue, 15 Apr 2008) | 3 lines

Another fix for the checks in the test_aic_mod_sel_diff_tensor() system test.
................
r5735 | bugman | 2008-04-15 22:28:37 +0200 (Tue, 15 Apr 2008) | 3 lines

Some fixes for the model selection select() function - pipe switching was necessary.
................
r5736 | bugman | 2008-04-15 22:43:02 +0200 (Tue, 15 Apr 2008) | 3 lines

Converted the model-free model_statistics() method to the new relax design.
................
r5737 | bugman | 2008-04-15 22:44:59 +0200 (Tue, 15 Apr 2008) | 6 lines

Modified the test_aic_mod_sel_diff_tensor() system test.

The model selection pipe will be created by the model_selection() use function, it doesn't need to
be precreated!
................
r5738 | bugman | 2008-04-15 22:53:16 +0200 (Tue, 15 Apr 2008) | 3 lines

Reintroduced the modsel_pipe arg to the model_selection() user function (the deleted modsel_run).
................
r5739 | bugman | 2008-04-15 22:55:51 +0200 (Tue, 15 Apr 2008) | 3 lines

Reintroduced the modsel_pipe arg to the select() function.
................
r5740 | bugman | 2008-04-15 22:56:08 +0200 (Tue, 15 Apr 2008) | 3 lines

Removed some debugging code.
................
r5741 | bugman | 2008-04-15 23:11:13 +0200 (Tue, 15 Apr 2008) | 3 lines

Converted the select() method docstring to epydoc format.
................
r5742 | bugman | 2008-04-15 23:12:20 +0200 (Tue, 15 Apr 2008) | 3 lines

Fixed the setup of the maths_fns.jw_mapping.Mapping object.
................
r5743 | bugman | 2008-04-15 23:13:34 +0200 (Tue, 15 Apr 2008) | 3 lines

Improved testing in the spectral density mapping calculate() method.
................
r5744 | bugman | 2008-04-15 23:14:41 +0200 (Tue, 15 Apr 2008) | 3 lines

Added some missing RelaxError imports.
................
r5745 | bugman | 2008-04-15 23:17:20 +0200 (Tue, 15 Apr 2008) | 5 lines

Fix for the spectral density calculation system test.

The proton type is now set.
................
r5746 | bugman | 2008-04-15 23:21:04 +0200 (Tue, 15 Apr 2008) | 5 lines

The spectral density calculation system test now passes.

The index for the internal test values now exists.
................
r5747 | bugman | 2008-04-15 23:22:29 +0200 (Tue, 15 Apr 2008) | 5 lines

Fixes for the Diffusion_tensor.setUp method.

The fixed flag is now a bool.
................
r5748 | bugman | 2008-04-16 14:30:34 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixed the call to the OpenDX run() method.
................
r5749 | bugman | 2008-04-16 14:36:08 +0200 (Wed, 16 Apr 2008) | 3 lines

Renamed the dx module to opendx to avoid name clashes.
................
r5750 | bugman | 2008-04-16 14:39:31 +0200 (Wed, 16 Apr 2008) | 3 lines

Converted the class methods into module functions.
................
r5751 | bugman | 2008-04-16 14:40:42 +0200 (Wed, 16 Apr 2008) | 3 lines

Renamed the opendx.opendx module to opendx.main.
................
r5752 | bugman | 2008-04-16 15:37:26 +0200 (Wed, 16 Apr 2008) | 3 lines

Converted the map() and run() functions to the new relax design.
................
r5753 | bugman | 2008-04-16 15:44:09 +0200 (Wed, 16 Apr 2008) | 3 lines

Converted the map() user function interface to the new relax design.
................
r5754 | bugman | 2008-04-16 15:51:15 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixes for the system tests of the OpenDX mapping of model-free spaces.
................
r5755 | bugman | 2008-04-16 15:54:06 +0200 (Wed, 16 Apr 2008) | 3 lines

More fixes for the system tests of the OpenDX mapping of model-free spaces.
................
r5756 | bugman | 2008-04-16 16:02:31 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixes for the interface of the map() user function.
................
r5757 | bugman | 2008-04-16 16:12:00 +0200 (Wed, 16 Apr 2008) | 3 lines

Added a missing import.
................
r5758 | bugman | 2008-04-16 16:12:29 +0200 (Wed, 16 Apr 2008) | 3 lines

Changed how the OpenDX map type string is matched.
................
r5759 | bugman | 2008-04-16 16:14:39 +0200 (Wed, 16 Apr 2008) | 3 lines

Completed the run() function docstring.
................
r5760 | bugman | 2008-04-16 16:16:34 +0200 (Wed, 16 Apr 2008) | 3 lines

Improvements to the dx.execute() user function.
................
r5761 | bugman | 2008-04-16 16:17:39 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixed a function vs. arg name clash.
................
r5762 | bugman | 2008-04-16 16:35:50 +0200 (Wed, 16 Apr 2008) | 3 lines

Converted the map_space() base class method into the __init__() method.
................
r5763 | bugman | 2008-04-16 16:40:08 +0200 (Wed, 16 Apr 2008) | 3 lines

Removed all references to 'run'.
................
r5764 | bugman | 2008-04-16 16:40:41 +0200 (Wed, 16 Apr 2008) | 3 lines

Changed the 'res_num' arg to 'spin_id'.
................
r5765 | bugman | 2008-04-16 16:42:27 +0200 (Wed, 16 Apr 2008) | 3 lines

Renamed all refs to 'file' to 'file_prefix'.
................
r5766 | bugman | 2008-04-16 16:43:17 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixed the calls to relax_io.open_write_file().
................
r5767 | bugman | 2008-04-16 16:44:07 +0200 (Wed, 16 Apr 2008) | 3 lines

The open_write_file force arg has been converted to a bool.
................
r5768 | bugman | 2008-04-16 16:51:26 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixed the call to the 3D isosurface mapping code.
................
r5769 | bugman | 2008-04-16 16:51:57 +0200 (Wed, 16 Apr 2008) | 3 lines

Removed the unused 'index' arg.
................
r5770 | bugman | 2008-04-16 16:52:48 +0200 (Wed, 16 Apr 2008) | 3 lines

Removed the empty __init__() method which was killing the base class method.
................
r5771 | bugman | 2008-04-16 16:54:04 +0200 (Wed, 16 Apr 2008) | 3 lines

Added a module docstring.
................
r5772 | bugman | 2008-04-16 16:54:42 +0200 (Wed, 16 Apr 2008) | 3 lines

Added a module docstring.
................
r5773 | bugman | 2008-04-16 16:55:47 +0200 (Wed, 16 Apr 2008) | 3 lines

Added a module docstring.
................
r5774 | bugman | 2008-04-16 16:57:13 +0200 (Wed, 16 Apr 2008) | 3 lines

Bug fix, removal of the 'index' arg remants.
................
r5775 | bugman | 2008-04-16 17:02:14 +0200 (Wed, 16 Apr 2008) | 3 lines

Added a missing import.
................
r5776 | bugman | 2008-04-16 17:02:37 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixes for the map_text() method.
................
r5777 | bugman | 2008-04-16 17:04:35 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixes for the get_param_names() base class method.
................
r5778 | bugman | 2008-04-16 17:05:50 +0200 (Wed, 16 Apr 2008) | 3 lines

Another small fix for the get_param_names() method.
................
r5779 | bugman | 2008-04-16 17:09:57 +0200 (Wed, 16 Apr 2008) | 3 lines

Converted the model-free map_bounds() method to the new relax design.
................
r5780 | bugman | 2008-04-16 17:11:22 +0200 (Wed, 16 Apr 2008) | 3 lines

Passed the spin_id arg into the map_bounds() method.
................
r5781 | bugman | 2008-04-16 17:12:34 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixed the references to self.file_prefix.
................
r5782 | bugman | 2008-04-16 17:13:43 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixed the call to generic_fns.value.set().
................
r5783 | bugman | 2008-04-16 17:15:00 +0200 (Wed, 16 Apr 2008) | 3 lines

The proton type is now set in all the model-free OpenDX system tests.
................
r5784 | bugman | 2008-04-16 17:18:37 +0200 (Wed, 16 Apr 2008) | 3 lines

Converted the model-free return_conversion_factor() method to the new design.
................
r5785 | bugman | 2008-04-16 17:19:02 +0200 (Wed, 16 Apr 2008) | 3 lines

Completed the map_bounds() docstring.
................
r5786 | bugman | 2008-04-16 17:20:11 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixed the call to return_conversion_factor().
................
r5787 | bugman | 2008-04-16 17:22:08 +0200 (Wed, 16 Apr 2008) | 3 lines

Docstring fix in return_conversion_factor().
................
r5788 | bugman | 2008-04-16 17:23:32 +0200 (Wed, 16 Apr 2008) | 3 lines

Converted the model-free return_units() method to the new design.
................
r5789 | bugman | 2008-04-16 17:24:05 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixed the call to return_units().
................
r5790 | bugman | 2008-04-16 17:32:14 +0200 (Wed, 16 Apr 2008) | 3 lines

Fixes and improvements to the model-free model_statistics() method.
................
r5791 | bugman | 2008-04-16 18:10:13 +0200 (Wed, 16 Apr 2008) | 5 lines

Fix for the test_opendx_tm_s2_te() system test to remove warnings.

Lower bounds were set to avoid local_tm and te being both set simultaneously to zero.
................