Author: bugman
Date: Thu Nov 22 11:10:42 2007
New Revision: 3804
URL: http://svn.gna.org/viewcvs/relax?rev=3804view=rev
Log:
Changed all the 'dir' args to 'dir_name' in the generic_fns.state module.
Modified:
1.3/generic_fns/state.py
Modified: 1.3/generic_fns/state.py
URL:
Author: bugman
Date: Thu Nov 22 11:11:21 2007
New Revision: 3805
URL: http://svn.gna.org/viewcvs/relax?rev=3805view=rev
Log:
Fix for the load of program state unit test to use the 'dir_name' arg instead
of 'dir'.
Modified:
1.3/test_suite/unit_tests/state_testing_base.py
Modified:
Author: bugman
Date: Thu Nov 22 11:12:27 2007
New Revision: 3806
URL: http://svn.gna.org/viewcvs/relax?rev=3806view=rev
Log:
Fixed the arg unit tests of state.load() and state.save() to use 'dir_name'
rather than 'dir'.
Modified:
1.3/test_suite/unit_tests/_prompt/test_state.py
Modified:
Author: bugman
Date: Thu Nov 22 11:24:17 2007
New Revision: 3809
URL: http://svn.gna.org/viewcvs/relax?rev=3809view=rev
Log:
Removed the return_data_types() function and converted data_types into a
permanent module constant.
This is in preparation to add file descriptors to the list.
Author: bugman
Date: Thu Nov 22 11:26:04 2007
New Revision: 3810
URL: http://svn.gna.org/viewcvs/relax?rev=3810view=rev
Log:
Added the tmpfile() file descriptor to the 'DATA_TYPES' array.
Modified:
1.3/test_suite/unit_tests/_prompt/data_types.py
Modified:
Author: bugman
Date: Thu Nov 22 11:37:47 2007
New Revision: 3813
URL: http://svn.gna.org/viewcvs/relax?rev=3813view=rev
Log:
Updated the sequence.write() user function for the new relax design.
Modified:
1.3/prompt/sequence.py
Modified: 1.3/prompt/sequence.py
URL:
Author: bugman
Date: Thu Nov 22 11:40:59 2007
New Revision: 3814
URL: http://svn.gna.org/viewcvs/relax?rev=3814view=rev
Log:
Added unit tests for all arguments of the sequence.write() user function.
Modified:
1.3/test_suite/unit_tests/_prompt/test_sequence.py
Modified:
Author: bugman
Date: Thu Nov 22 12:11:30 2007
New Revision: 3815
URL: http://svn.gna.org/viewcvs/relax?rev=3815view=rev
Log:
Wrote a unit test for the writing of an amino acid sequence to file.
Modified:
1.3/test_suite/unit_tests/sequence_testing_base.py
Modified:
Author: bugman
Date: Thu Nov 22 12:21:41 2007
New Revision: 3816
URL: http://svn.gna.org/viewcvs/relax?rev=3816view=rev
Log:
Added a new RelaxError for invalid sequence data.
Modified:
1.3/relax_errors.py
Modified: 1.3/relax_errors.py
URL:
Author: bugman
Date: Thu Nov 22 12:22:21 2007
New Revision: 3817
URL: http://svn.gna.org/viewcvs/relax?rev=3817view=rev
Log:
Small fix for RelaxInvalidSeqError.
Modified:
1.3/relax_errors.py
Modified: 1.3/relax_errors.py
URL:
Author: bugman
Date: Thu Nov 22 12:36:59 2007
New Revision: 3818
URL: http://svn.gna.org/viewcvs/relax?rev=3818view=rev
Log:
Started to implement the read, sequence_exists, and valid_sequence functions.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Thu Nov 22 12:39:37 2007
New Revision: 3819
URL: http://svn.gna.org/viewcvs/relax?rev=3819view=rev
Log:
Updated the extract_data() for the new relax design (converted from a class
method to a function).
Modified:
1.3/relax_io.py
Modified: 1.3/relax_io.py
URL:
Author: bugman
Date: Thu Nov 22 17:16:52 2007
New Revision: 3820
URL: http://svn.gna.org/viewcvs/relax?rev=3820view=rev
Log:
Fixed the path in the unit test for reading a protein sequence.
Modified:
1.3/test_suite/unit_tests/sequence_testing_base.py
Modified:
Author: bugman
Date: Thu Nov 22 17:18:45 2007
New Revision: 3821
URL: http://svn.gna.org/viewcvs/relax?rev=3821view=rev
Log:
Added the missing import of relax_io.strip.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Thu Nov 22 17:25:44 2007
New Revision: 3823
URL: http://svn.gna.org/viewcvs/relax?rev=3823view=rev
Log:
Fix for the generic_fns.sequence.read() function.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Thu Nov 22 17:40:25 2007
New Revision: 3824
URL: http://svn.gna.org/viewcvs/relax?rev=3824view=rev
Log:
Renamed valid_sequence() to validate_sequence() and called it from within the
read() fn.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
Author: bugman
Date: Thu Nov 22 17:19:25 2007
New Revision: 3822
URL: http://svn.gna.org/viewcvs/relax?rev=3822view=rev
Log:
Converted the strip class method to a module function.
Modified:
1.3/relax_io.py
Modified: 1.3/relax_io.py
URL:
Author: bugman
Date: Thu Nov 22 17:50:39 2007
New Revision: 3826
URL: http://svn.gna.org/viewcvs/relax?rev=3826view=rev
Log:
Bug fix for the generic_fns.sequence.validate_sequence() function.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Thu Nov 22 17:52:41 2007
New Revision: 3827
URL: http://svn.gna.org/viewcvs/relax?rev=3827view=rev
Log:
Another bug fix for the generic_fns.sequence.validate_sequence() function.
The mol, res, and spin column numbers are now passed into it.
Modified:
Author: bugman
Date: Thu Nov 22 17:55:19 2007
New Revision: 3828
URL: http://svn.gna.org/viewcvs/relax?rev=3828view=rev
Log:
Updated the docstring of the generic_fns.sequence.validate_sequence() function.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Thu Nov 22 18:02:47 2007
New Revision: 3830
URL: http://svn.gna.org/viewcvs/relax?rev=3830view=rev
Log:
Fix for the unit test of reading of the amino acid sequence out of a protein
NOE data file.
Modified:
1.3/test_suite/unit_tests/sequence_testing_base.py
Modified:
Author: bugman
Date: Thu Nov 22 18:11:35 2007
New Revision: 3832
URL: http://svn.gna.org/viewcvs/relax?rev=3832view=rev
Log:
Actually the read() function was not functional!!! So this is another fix.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Thu Nov 22 18:20:36 2007
New Revision: 3835
URL: http://svn.gna.org/viewcvs/relax?rev=3835view=rev
Log:
Updated the prompt.align_tensor arg unit tests to use the DATA_TYPES structure.
Modified:
branches/N_state_model/test_suite/unit_tests/_prompt/test_align_tensor.py
Author: bugman
Date: Fri Nov 23 17:17:10 2007
New Revision: 3867
URL: http://svn.gna.org/viewcvs/relax?rev=3867view=rev
Log:
Implemented a unit test to test the display of an amino acid sequence.
Modified:
1.3/test_suite/unit_tests/sequence_testing_base.py
Modified:
Author: bugman
Date: Fri Nov 23 17:15:00 2007
New Revision: 3866
URL: http://svn.gna.org/viewcvs/relax?rev=3866view=rev
Log:
Bug fix for all the arg unit tests for the sequence.display() user function.
Modified:
1.3/test_suite/unit_tests/_prompt/test_sequence.py
Modified:
Author: bugman
Date: Fri Nov 23 16:38:19 2007
New Revision: 3862
URL: http://svn.gna.org/viewcvs/relax?rev=3862view=rev
Log:
Updated the docstring of the write() function.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Fri Nov 23 15:41:40 2007
New Revision: 3850
URL: http://svn.gna.org/viewcvs/relax?rev=3850view=rev
Log:
Fixes for the write() function.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Fri Nov 23 15:29:47 2007
New Revision: 3845
URL: http://svn.gna.org/viewcvs/relax?rev=3845view=rev
Log:
Converted the diplay() class method to a module function.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Fri Nov 23 15:32:23 2007
New Revision: 3847
URL: http://svn.gna.org/viewcvs/relax?rev=3847view=rev
Log:
Converted the load_PDB_sequence() class method to a module function.
Modified:
1.3/generic_fns/sequence.py
Modified: 1.3/generic_fns/sequence.py
URL:
Author: bugman
Date: Fri Nov 23 15:16:25 2007
New Revision: 3843
URL: http://svn.gna.org/viewcvs/relax?rev=3843view=rev
Log:
Updated all the system tests to use the new relax design!
Modified:
1.3/test_suite/system_tests/angles.py
1.3/test_suite/system_tests/diffusion_tensor.py
Author: bugman
Date: Fri Nov 23 13:53:55 2007
New Revision: 3841
URL: http://svn.gna.org/viewcvs/relax?rev=3841view=rev
Log:
Updated the system test of loading a sequence from a PDB file to use the new
relax design.
Modified:
1.3/test_suite/system_tests/sequence.py
Modified:
Author: bugman
Date: Fri Nov 23 13:52:34 2007
New Revision: 3840
URL: http://svn.gna.org/viewcvs/relax?rev=3840view=rev
Log:
Fixed the system test for loading the of amino acid sequence data.
Modified:
1.3/test_suite/system_tests/sequence.py
Modified:
Author: bugman
Date: Fri Nov 23 13:42:47 2007
New Revision: 3839
URL: http://svn.gna.org/viewcvs/relax?rev=3839view=rev
Log:
Merged revisions 3836-3838 via svnmerge from
svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
r3836 | bugman | 2007-11-22 18:31:25 +0100 (Thu, 22 Nov 2007) | 6 lines
Author: bugman
Date: Fri Nov 23 16:04:22 2007
New Revision: 3855
URL: http://svn.gna.org/viewcvs/relax?rev=3855view=rev
Log:
Fix for the unit test for writing an amino acid sequence.
Modified:
1.3/test_suite/unit_tests/sequence_testing_base.py
Modified:
Author: bugman
Date: Fri Nov 23 16:06:30 2007
New Revision: 3857
URL: http://svn.gna.org/viewcvs/relax?rev=3857view=rev
Log:
Another fix for the unit test for writing an amino acid sequence.
Modified:
1.3/test_suite/unit_tests/sequence_testing_base.py
Modified:
Author: bugman
Date: Fri Nov 23 18:14:28 2007
New Revision: 3870
URL: http://svn.gna.org/viewcvs/relax?rev=3870view=rev
Log:
Merged revisions 3840-3862 via svnmerge from
svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
r3840 | bugman | 2007-11-23 13:52:34 +0100 (Fri, 23 Nov 2007) | 3 lines
Author: bugman
Date: Sat Nov 24 12:17:33 2007
New Revision: 3878
URL: http://svn.gna.org/viewcvs/relax?rev=3878view=rev
Log:
Added the generic_fns.pipes.test() function to the molecule, residue, and spin
loop functions.
Modified:
1.3/generic_fns/selection.py
Modified:
Author: bugman
Date: Sat Nov 24 12:07:46 2007
New Revision: 3876
URL: http://svn.gna.org/viewcvs/relax?rev=3876view=rev
Log:
Added a unit test for the proper operation of the residue loop when no data is
present.
Modified:
1.3/test_suite/unit_tests/_generic_fns/test_selection.py
Modified:
Author: bugman
Date: Sat Nov 24 20:41:29 2007
New Revision: 3886
URL: http://svn.gna.org/viewcvs/relax?rev=3886view=rev
Log:
Wrote the exists_mol_res_spin_data() function.
This function determines if any molecule-residue-spin data exists.
Modified:
1.3/generic_fns/selection.py
Modified:
Author: bugman
Date: Sat Nov 24 20:49:54 2007
New Revision: 3887
URL: http://svn.gna.org/viewcvs/relax?rev=3887view=rev
Log:
Wrote 4 unit tests for the generic_fns.selection.exists_mol_res_spin_data()
function.
Modified:
1.3/test_suite/unit_tests/_generic_fns/test_selection.py
Modified:
Author: bugman
Date: Sat Nov 24 20:52:11 2007
New Revision: 3888
URL: http://svn.gna.org/viewcvs/relax?rev=3888view=rev
Log:
Bug fix for generic_fns.selection.exists_mol_res_spin_data(). No data pipes
are now handled.
Modified:
1.3/generic_fns/selection.py
Modified:
Author: bugman
Date: Sat Nov 24 20:53:59 2007
New Revision: 3889
URL: http://svn.gna.org/viewcvs/relax?rev=3889view=rev
Log:
Bug fix.
This is for the unit test for determining if molecule-residue-spin data exists
when no data pipe
exists.
Modified:
Author: bugman
Date: Sat Nov 24 21:03:28 2007
New Revision: 3891
URL: http://svn.gna.org/viewcvs/relax?rev=3891view=rev
Log:
Bug fix for generic_fns.selection.exists_mol_res_spin_data().
The testing the presence of data when only a single spin container exists now
works.
Modified:
Author: bugman
Date: Sat Nov 24 21:06:20 2007
New Revision: 3892
URL: http://svn.gna.org/viewcvs/relax?rev=3892view=rev
Log:
Used the generic_fns.pipes.test() function a bit more.
Modified:
1.3/generic_fns/selection.py
Modified: 1.3/generic_fns/selection.py
URL:
Author: bugman
Date: Sat Nov 24 21:06:56 2007
New Revision: 3893
URL: http://svn.gna.org/viewcvs/relax?rev=3893view=rev
Log:
Removed a nasty debugging line.
Modified:
1.3/generic_fns/selection.py
Modified: 1.3/generic_fns/selection.py
URL:
Author: bugman
Date: Sat Nov 24 21:30:18 2007
New Revision: 3895
URL: http://svn.gna.org/viewcvs/relax?rev=3895view=rev
Log:
Bug fix for generic_fns.selection.exists_mol_res_spin_data().
Fixed the circular dependence cased by calling the spin_loop() generator
function!
Modified:
Author: bugman
Date: Sun Nov 25 11:54:12 2007
New Revision: 3896
URL: http://svn.gna.org/viewcvs/relax?rev=3896view=rev
Log:
Updated the data model redesign document. All the sequence user functions are
implemented.
Modified:
1.3/docs/data_model_redesign
Modified:
Author: bugman
Date: Sun Nov 25 12:08:22 2007
New Revision: 3897
URL: http://svn.gna.org/viewcvs/relax?rev=3897view=rev
Log:
Wrote 5 unit tests for the generic_fns.selection.exists_mol_res_spin_data()
function.
Modified:
1.3/test_suite/unit_tests/_generic_fns/test_selection.py
Modified:
Author: bugman
Date: Sun Nov 25 12:17:02 2007
New Revision: 3899
URL: http://svn.gna.org/viewcvs/relax?rev=3899view=rev
Log:
Removed the selection argument to the
generic_fns.selection.exists_mol_res_spin_data() function.
The associated unit test has also been removed.
Modified:
Author: bugman
Date: Sun Nov 25 15:11:49 2007
New Revision: 3901
URL: http://svn.gna.org/viewcvs/relax?rev=3901view=rev
Log:
Set up the base class for unit tests of the diffusion_tensor modules.
Added:
1.3/test_suite/unit_tests/diffusion_tensor_base.py
- copied, changed from r3899,
@@
-###
-# #
-# Copyright (C) 2007 Edward d'Auvergne#
-# #
-# This file is part of the program relax
Author: bugman
Date: Sun Nov 25 15:14:00 2007
New Revision: 3902
URL: http://svn.gna.org/viewcvs/relax?rev=3902view=rev
Log:
Created the framework for the unit tests of the diffusion_tensor user functions.
Added:
1.3/test_suite/unit_tests/_prompt/test_diffusion_tensor.py
- copied,
Author: bugman
Date: Sun Nov 25 15:21:19 2007
New Revision: 3904
URL: http://svn.gna.org/viewcvs/relax?rev=3904view=rev
Log:
A file to be imported by all the prompt user test modules for faking the relax
instance structure.
Added:
1.3/test_suite/unit_tests/_prompt/fake_relax.py
-
Author: bugman
Date: Sun Nov 25 15:36:17 2007
New Revision: 3906
URL: http://svn.gna.org/viewcvs/relax?rev=3906view=rev
Log:
Merged revisions 3872-3905 via svnmerge from
svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
r3872 | bugman | 2007-11-24 12:00:37 +0100 (Sat, 24 Nov 2007) | 3 lines
Author: bugman
Date: Sun Nov 25 15:29:00 2007
New Revision: 3905
URL: http://svn.gna.org/viewcvs/relax?rev=3905view=rev
Log:
Updated all the prompt module unit tests to use the new 'fake_relax' structure.
Modified:
1.3/test_suite/unit_tests/_prompt/fake_relax.py
Author: bugman
Date: Sun Nov 25 16:30:00 2007
New Revision: 3907
URL: http://svn.gna.org/viewcvs/relax?rev=3907view=rev
Log:
Implemented the params unit test for the diffusion_tensor.init() user function.
Modified:
1.3/test_suite/unit_tests/_prompt/test_diffusion_tensor.py
Modified:
Author: bugman
Date: Sun Nov 25 16:45:03 2007
New Revision: 3911
URL: http://svn.gna.org/viewcvs/relax?rev=3911view=rev
Log:
Removed the run argument from the diffusion_tensor.display() user function.
Modified:
1.3/prompt/diffusion_tensor.py
Modified: 1.3/prompt/diffusion_tensor.py
URL:
Author: bugman
Date: Sun Nov 25 16:43:45 2007
New Revision: 3910
URL: http://svn.gna.org/viewcvs/relax?rev=3910view=rev
Log:
Implemented all the arg unit tests for the diffusion_tensor.init() user
function.
Modified:
1.3/test_suite/unit_tests/_prompt/test_diffusion_tensor.py
Modified:
Author: bugman
Date: Sun Nov 25 16:37:17 2007
New Revision: 3908
URL: http://svn.gna.org/viewcvs/relax?rev=3908view=rev
Log:
Removed some unused RelaxError imports.
Modified:
1.3/test_suite/unit_tests/_prompt/test_molecule.py
Modified: 1.3/test_suite/unit_tests/_prompt/test_molecule.py
@@
###
# #
-# Copyright (C) 2003-2005 Edward d'Auvergne #
+# Copyright (C) 2003-2005, 2007 Edward d'Auvergne
Author: bugman
Date: Sun Nov 25 16:57:12 2007
New Revision: 3913
URL: http://svn.gna.org/viewcvs/relax?rev=3913view=rev
Log:
Implemented all the arg unit tests for the diffusion_tensor.copy() user
function.
Modified:
1.3/test_suite/unit_tests/_prompt/test_diffusion_tensor.py
Modified:
Author: bugman
Date: Sun Nov 25 16:59:06 2007
New Revision: 3914
URL: http://svn.gna.org/viewcvs/relax?rev=3914view=rev
Log:
Bug fix for the diffusion_tensor.copy() user function.
The pipes can be None.
Modified:
1.3/prompt/diffusion_tensor.py
Modified: 1.3/prompt/diffusion_tensor.py
URL:
Author: bugman
Date: Sun Nov 25 17:05:46 2007
New Revision: 3915
URL: http://svn.gna.org/viewcvs/relax?rev=3915view=rev
Log:
Implemented the test of diffusion_tensor.copy(), that both arguments cannot be
None.
A unit test for this has also been added.
Modified:
Author: bugman
Date: Sun Nov 25 17:11:49 2007
New Revision: 3916
URL: http://svn.gna.org/viewcvs/relax?rev=3916view=rev
Log:
Added a number of tuples of floats of different sizes for the user function
argument unit tests.
Modified:
1.3/test_suite/unit_tests/_prompt/data_types.py
Modified:
Author: bugman
Date: Sun Nov 25 17:32:34 2007
New Revision: 3917
URL: http://svn.gna.org/viewcvs/relax?rev=3917view=rev
Log:
Fixed the params arg unit test for the diffusion_tensor.init() user function.
Modified:
1.3/prompt/diffusion_tensor.py
Author: bugman
Date: Sun Nov 25 17:38:22 2007
New Revision: 3919
URL: http://svn.gna.org/viewcvs/relax?rev=3919view=rev
Log:
Added the import of the generic_fns.diffusion_tensor module.
Modified:
1.3/prompt/diffusion_tensor.py
Modified: 1.3/prompt/diffusion_tensor.py
URL:
Author: bugman
Date: Sun Nov 25 17:58:11 2007
New Revision: 3921
URL: http://svn.gna.org/viewcvs/relax?rev=3921view=rev
Log:
Removed the placement of the Diffusion_tensor class instance into generic_fns.
Modified:
1.3/generic_fns/main.py
Modified: 1.3/generic_fns/main.py
URL:
Author: bugman
Date: Sun Nov 25 18:18:20 2007
New Revision: 3926
URL: http://svn.gna.org/viewcvs/relax?rev=3926view=rev
Log:
Fixed the prompt modules which were importing the Diffusion_tensor class.
Modified:
1.3/prompt/dx.py
1.3/prompt/value.py
Modified: 1.3/prompt/dx.py
URL:
Author: bugman
Date: Sun Nov 25 18:15:16 2007
New Revision: 3925
URL: http://svn.gna.org/viewcvs/relax?rev=3925view=rev
Log:
Converted all the Diffusion_tensor methods into module functions.
The class no longer exists.
Modified:
1.3/generic_fns/diffusion_tensor.py
[This mail would be too
Author: bugman
Date: Sun Nov 25 18:06:16 2007
New Revision: 3923
URL: http://svn.gna.org/viewcvs/relax?rev=3923view=rev
Log:
Shifted all the calc_* diffusion tensor functions from generic_fns to data.
This is to break a fatal circular import problem!!!
Modified:
1.3/data/diff_tensor.py
)
@@ -1,68 +1,0 @@
-###
-# #
-# Copyright (C) 2004-2005 Edward d'Auvergne
Author: bugman
Date: Sun Nov 25 18:25:00 2007
New Revision: 3929
URL: http://svn.gna.org/viewcvs/relax?rev=3929view=rev
Log:
Docstring fix.
Modified:
1.3/test_suite/unit_tests/diffusion_tensor_testing_base.py
Modified: 1.3/test_suite/unit_tests/diffusion_tensor_testing_base.py
URL:
Author: bugman
Date: Sun Nov 25 18:30:36 2007
New Revision: 3930
URL: http://svn.gna.org/viewcvs/relax?rev=3930view=rev
Log:
Bug fix for the generic_fns.diffusion_tensor.init() function.
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified: 1.3/generic_fns/diffusion_tensor.py
URL:
Author: bugman
Date: Sun Nov 25 18:44:10 2007
New Revision: 3933
URL: http://svn.gna.org/viewcvs/relax?rev=3933view=rev
Log:
Bug fix for the generic_fns.pipes.current() function.
The function now returns the current pipe rather than printing it!
Modified:
1.3/generic_fns/pipes.py
Author: bugman
Date: Sun Nov 25 18:42:05 2007
New Revision: 3932
URL: http://svn.gna.org/viewcvs/relax?rev=3932view=rev
Log:
Added a unit test for the generic_fns.pipes.current() function.
Modified:
1.3/test_suite/unit_tests/_generic_fns/test_pipes.py
Modified:
Author: bugman
Date: Sun Nov 25 18:51:13 2007
New Revision: 3934
URL: http://svn.gna.org/viewcvs/relax?rev=3934view=rev
Log:
Bug fix for the generic_fns.pipes.test() function.
Modified:
1.3/generic_fns/pipes.py
Modified: 1.3/generic_fns/pipes.py
URL:
Author: bugman
Date: Sun Nov 25 18:55:57 2007
New Revision: 3935
URL: http://svn.gna.org/viewcvs/relax?rev=3935view=rev
Log:
Bug fix for the RelaxTensorError class.
Modified:
1.3/relax_errors.py
Modified: 1.3/relax_errors.py
URL:
Author: bugman
Date: Sun Nov 25 19:05:37 2007
New Revision: 3936
URL: http://svn.gna.org/viewcvs/relax?rev=3936view=rev
Log:
Implemented the function generic_fns.diffusion_tensor.diff_data_exists().
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified: 1.3/generic_fns/diffusion_tensor.py
Author: bugman
Date: Sun Nov 25 19:09:28 2007
New Revision: 3938
URL: http://svn.gna.org/viewcvs/relax?rev=3938view=rev
Log:
Renamed the pipe container object 'diff' to 'diff_tensor'.
Modified:
1.3/data/pipe_container.py
Modified: 1.3/data/pipe_container.py
URL:
Author: bugman
Date: Sun Nov 25 19:22:06 2007
New Revision: 3939
URL: http://svn.gna.org/viewcvs/relax?rev=3939view=rev
Log:
Updated the diffusion tensor data structure in the relax data store for the new
relax design.
The object is no longer a dictionary type with keys set to the run names.
Author: bugman
Date: Sun Nov 25 19:23:15 2007
New Revision: 3940
URL: http://svn.gna.org/viewcvs/relax?rev=3940view=rev
Log:
Bug fix for the generic_fns.diffusion_tensor.diff_data_exists() function.
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified: 1.3/generic_fns/diffusion_tensor.py
Author: bugman
Date: Sun Nov 25 19:25:12 2007
New Revision: 3941
URL: http://svn.gna.org/viewcvs/relax?rev=3941view=rev
Log:
Another bug fix for the generic_fns.diffusion_tensor.diff_data_exists()
function.
The white_list object now exists.
Modified:
1.3/generic_fns/diffusion_tensor.py
Author: bugman
Date: Sun Nov 25 19:28:46 2007
New Revision: 3942
URL: http://svn.gna.org/viewcvs/relax?rev=3942view=rev
Log:
Updated the save state file as the diffusion tensor object is now different.
Modified:
1.3/test_suite/shared_data/saved_states/basic_single_pipe.bz2
Modified:
Author: bugman
Date: Sun Nov 25 19:30:17 2007
New Revision: 3943
URL: http://svn.gna.org/viewcvs/relax?rev=3943view=rev
Log:
Bug fix for the generic_fns.diffusion_tensor.init() function.
The new data structure is taken into account.
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified:
Author: bugman
Date: Sun Nov 25 19:35:26 2007
New Revision: 3944
URL: http://svn.gna.org/viewcvs/relax?rev=3944view=rev
Log:
Updated all the functions to handle the new diff tensor data structure.
Modified:
1.3/generic_fns/diffusion_tensor.py
[This mail would be too long, it was shortened
Author: bugman
Date: Sun Nov 25 19:42:30 2007
New Revision: 3945
URL: http://svn.gna.org/viewcvs/relax?rev=3945view=rev
Log:
Updated the generic_fns.diffusion_tensor.sphere() function.
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified: 1.3/generic_fns/diffusion_tensor.py
URL:
Author: bugman
Date: Sun Nov 25 19:52:48 2007
New Revision: 3946
URL: http://svn.gna.org/viewcvs/relax?rev=3946view=rev
Log:
Converted the docstring of generic_fns.diffusion_tensor.init() to the epydoc
format.
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified:
Author: bugman
Date: Sun Nov 25 19:55:07 2007
New Revision: 3947
URL: http://svn.gna.org/viewcvs/relax?rev=3947view=rev
Log:
Sent a number of variables into the sphere, spheroid, and ellipsoid functions.
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified:
Author: bugman
Date: Sun Nov 25 19:57:08 2007
New Revision: 3948
URL: http://svn.gna.org/viewcvs/relax?rev=3948view=rev
Log:
Removed all the references to self in generic_fns.diffusion_tensor.set().
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified: 1.3/generic_fns/diffusion_tensor.py
Author: bugman
Date: Sun Nov 25 19:58:33 2007
New Revision: 3949
URL: http://svn.gna.org/viewcvs/relax?rev=3949view=rev
Log:
Removed all the references to self in
generic_fns.diffusion_tensor.return_data_name().
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified:
Author: bugman
Date: Sun Nov 25 20:02:01 2007
New Revision: 3951
URL: http://svn.gna.org/viewcvs/relax?rev=3951view=rev
Log:
Bug fix for generic_fns.diffusion_tensor.test_params().
Removed self and added the cdp alias.
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified:
Author: bugman
Date: Sun Nov 25 20:04:10 2007
New Revision: 3952
URL: http://svn.gna.org/viewcvs/relax?rev=3952view=rev
Log:
Bug fixes for the unit test of setting up of a spherical diffusion tensor.
Modified:
1.3/test_suite/unit_tests/diffusion_tensor_testing_base.py
Modified:
Author: bugman
Date: Sun Nov 25 20:08:07 2007
New Revision: 3953
URL: http://svn.gna.org/viewcvs/relax?rev=3953view=rev
Log:
Removed all references to self from the generic_fns.diffusion_tensor module.
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified:
Author: bugman
Date: Sun Nov 25 20:14:15 2007
New Revision: 3954
URL: http://svn.gna.org/viewcvs/relax?rev=3954view=rev
Log:
Wrote a unit test for the setting up of a spheroidal diffusion tensor.
Modified:
1.3/test_suite/unit_tests/diffusion_tensor_testing_base.py
Modified:
Author: bugman
Date: Sun Nov 25 20:22:13 2007
New Revision: 3955
URL: http://svn.gna.org/viewcvs/relax?rev=3955view=rev
Log:
Fixes for generic_fns.diffusion_tensor.spheroid().
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified: 1.3/generic_fns/diffusion_tensor.py
URL:
Author: bugman
Date: Sun Nov 25 20:26:46 2007
New Revision: 3956
URL: http://svn.gna.org/viewcvs/relax?rev=3956view=rev
Log:
Fixes to generic_fns.diffusion_tensor.fold_angles().
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified: 1.3/generic_fns/diffusion_tensor.py
URL:
Author: bugman
Date: Sun Nov 25 20:28:23 2007
New Revision: 3957
URL: http://svn.gna.org/viewcvs/relax?rev=3957view=rev
Log:
Converted all the methods of the Angles class into module functions.
Modified:
1.3/generic_fns/angles.py
Modified: 1.3/generic_fns/angles.py
URL:
Author: bugman
Date: Sun Nov 25 20:36:11 2007
New Revision: 3958
URL: http://svn.gna.org/viewcvs/relax?rev=3958view=rev
Log:
Removal of references to self and run, and an update to the new data storage
object.
Modified:
1.3/generic_fns/angles.py
Modified: 1.3/generic_fns/angles.py
URL:
Author: bugman
Date: Sun Nov 25 20:37:39 2007
New Revision: 3959
URL: http://svn.gna.org/viewcvs/relax?rev=3959view=rev
Log:
Fixed all calls to generic_fns.angles.wrap_angles().
Modified:
1.3/generic_fns/diffusion_tensor.py
Modified: 1.3/generic_fns/diffusion_tensor.py
URL:
Author: bugman
Date: Sun Nov 25 20:50:07 2007
New Revision: 3960
URL: http://svn.gna.org/viewcvs/relax?rev=3960view=rev
Log:
Fixes to the unit test for the setting up of a spheroidal diffusion tensor.
Modified:
1.3/test_suite/unit_tests/diffusion_tensor_testing_base.py
Modified:
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