Author: bugman
Date: Sun Jan 6 01:03:45 2008
New Revision: 4384
URL: http://svn.gna.org/viewcvs/relax?rev=4384view=rev
Log:
Updated the value.set() user function to use the correct J(w) mapping value
setting docstring.
Modified:
1.3/prompt/value.py
Modified: 1.3/prompt/value.py
URL:
Author: bugman
Date: Sun Jan 6 01:12:58 2008
New Revision: 4387
URL: http://svn.gna.org/viewcvs/relax?rev=4387view=rev
Log:
Updated the value arg unit test of the value.set() user function to use the new
RelaxError.
Modified:
1.3/test_suite/unit_tests/_prompt/test_value.py
Modified:
Author: bugman
Date: Sun Jan 6 01:26:47 2008
New Revision: 4390
URL: http://svn.gna.org/viewcvs/relax?rev=4390view=rev
Log:
Bug fix for the value arg unit test of the value.set() user function.
The valid str arg types are now being caught and skipped.
Modified:
@@
###
# #
-# Copyright (C) 2003, 2004, 2006 Edward d'Auvergne#
+# Copyright (C) 2003, 2004, 2006-2008 Edward d'Auvergne
Author: bugman
Date: Sun Jan 6 12:32:25 2008
New Revision: 4393
URL: http://svn.gna.org/viewcvs/relax?rev=4393view=rev
Log:
Wrote 16 unit tests for all args of all structure user functions.
Added:
1.3/test_suite/unit_tests/_prompt/test_structure.py
- copied, changed from r4388,
Author: bugman
Date: Mon Jan 7 09:38:19 2008
New Revision: 4399
URL: http://svn.gna.org/viewcvs/relax?rev=4399view=rev
Log:
Bug fix for the generic_fns.align_tensor.matrix_angles() function.
Proper IO redirection has been reenabled.
Modified:
/specific_fns/n_state_model.py Mon Jan 7 09:45:50
2008
@@ -1,6 +1,6 @@
###
# #
-# Copyright (C) 2007 Edward d'Auvergne
Author: bugman
Date: Mon Jan 7 10:35:41 2008
New Revision: 4401
URL: http://svn.gna.org/viewcvs/relax?rev=4401view=rev
Log:
Improved the print out for the calculation of 5D angles.
Modified:
branches/N_state_model/generic_fns/align_tensor.py
Modified:
Edward d'Auvergne#
+# #
+# This file is part of the program relax
/test_suite/unit_tests/_prompt/test_minimisation.py Mon Jan 7 11:06:06
2008
@@ -1,0 +1,54 @@
+###
+# #
+# Copyright (C) 2008 Edward d'Auvergne
Author: bugman
Date: Mon Jan 7 11:48:17 2008
New Revision: 4406
URL: http://svn.gna.org/viewcvs/relax?rev=4406view=rev
Log:
Added string tuples as a new data type for the user function argument unit
tests.
Modified:
1.3/test_suite/unit_tests/_prompt/data_types.py
Modified:
Author: bugman
Date: Mon Jan 7 12:03:33 2008
New Revision: 4408
URL: http://svn.gna.org/viewcvs/relax?rev=4408view=rev
Log:
Bug fix for the minimise() user function.
All arguments are now checked if they are strings.
Modified:
1.3/prompt/minimisation.py
Modified:
Author: bugman
Date: Mon Jan 7 13:13:40 2008
New Revision: 4410
URL: http://svn.gna.org/viewcvs/relax?rev=4410view=rev
Log:
Fixed the docstrings of the calc() and grid_search() arg unit tests.
The user functions were incorrectly named with 'minimisation.' prepended.
Modified:
Author: bugman
Date: Mon Jan 7 13:16:08 2008
New Revision: 4412
URL: http://svn.gna.org/viewcvs/relax?rev=4412view=rev
Log:
More tidying up of the unit test comments.
Modified:
1.3/test_suite/unit_tests/_prompt/test_minimisation.py
Modified:
Author: bugman
Date: Mon Jan 7 13:31:37 2008
New Revision: 4414
URL: http://svn.gna.org/viewcvs/relax?rev=4414view=rev
Log:
Wrote 6 unit tests for the rest of the minimise() user function keyword
arguments.
Modified:
1.3/test_suite/unit_tests/_prompt/test_minimisation.py
Modified:
Author: bugman
Date: Mon Jan 7 13:32:55 2008
New Revision: 4415
URL: http://svn.gna.org/viewcvs/relax?rev=4415view=rev
Log:
Bug fix for the minimise() user function.
The maximum number of iterations should be an integer. A float should not be
accepted!
Modified:
Author: bugman
Date: Mon Jan 7 13:51:39 2008
New Revision: 4420
URL: http://svn.gna.org/viewcvs/relax?rev=4420view=rev
Log:
Reverted r4185 and r4186 as these conflict with changes now in the 1.3 line.
The command used was:
svn merge -r4186:4184 .
Modified:
Author: bugman
Date: Mon Jan 7 14:29:19 2008
New Revision: 4425
URL: http://svn.gna.org/viewcvs/relax?rev=4425view=rev
Log:
Merged revisions 4424 via svnmerge from
svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
r4424 | bugman | 2008-01-07 14:26:57 +0100 (Mon, 07 Jan 2008) | 3 lines
Author: bugman
Date: Mon Jan 7 15:52:55 2008
New Revision: 4430
URL: http://svn.gna.org/viewcvs/relax?rev=4430view=rev
Log:
Bug fix for the read() and test_labels() methods of the
specific_fns.relax_data.Rx_data class.
The arguments are not placed into self!
Modified:
Author: bugman
Date: Mon Jan 7 16:06:07 2008
New Revision: 4433
URL: http://svn.gna.org/viewcvs/relax?rev=4433view=rev
Log:
Bug fix for the J(w) mapping system tests trying to set the nucleus type.
The call to self.relax.interpreter._Nuclei.nuclei() has been replaced with a
call to
Author: bugman
Date: Mon Jan 7 16:47:41 2008
New Revision: 4435
URL: http://svn.gna.org/viewcvs/relax?rev=4435view=rev
Log:
Implemented the grid_search() and overfit_deselect() methods of the
N_state_model class.
grid_search() calls the non-existant minimise() and therefore still fails.
Author: bugman
Date: Mon Jan 7 16:56:12 2008
New Revision: 4436
URL: http://svn.gna.org/viewcvs/relax?rev=4436view=rev
Log:
Implemented a stub for the minimise() method. The method doesn't do anything
yet.
Modified:
branches/N_state_model/specific_fns/n_state_model.py
Modified:
@@
+###
+# #
+# Copyright (C) 2008 Edward d'Auvergne#
+# #
+# This file is part of the program relax
Author: bugman
Date: Mon Jan 7 17:34:11 2008
New Revision: 4439
URL: http://svn.gna.org/viewcvs/relax?rev=4439view=rev
Log:
A few fixes for the system test of the N-state model.
Modified:
branches/N_state_model/test_suite/system_tests/n_state_model.py
Modified:
Author: bugman
Date: Mon Jan 7 17:36:57 2008
New Revision: 4440
URL: http://svn.gna.org/viewcvs/relax?rev=4440view=rev
Log:
Created a directory for user scripts to be used as system/functional tests.
Added:
1.3/test_suite/system_tests/scripts/
Author: bugman
Date: Mon Jan 7 17:37:53 2008
New Revision: 4441
URL: http://svn.gna.org/viewcvs/relax?rev=4441view=rev
Log:
Merged revisions 4440 via svnmerge from
svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
r4440 | bugman | 2008-01-07 17:36:57 +0100 (Mon, 07 Jan 2008) | 3 lines
Author: bugman
Date: Mon Jan 7 17:51:21 2008
New Revision:
URL: http://svn.gna.org/viewcvs/relax?rev=view=rev
Log:
Worked out how to execute a script for the system/functional tests!
Modified:
branches/N_state_model/test_suite/system_tests/n_state_model.py
Modified:
Author: bugman
Date: Mon Jan 7 17:46:57 2008
New Revision: 4443
URL: http://svn.gna.org/viewcvs/relax?rev=4443view=rev
Log:
Created a script containing the commands used in the N-state model system test.
The system test tries to execute the script. Work still needs to be done here
though.
Author: bugman
Date: Mon Jan 7 17:59:23 2008
New Revision: 4447
URL: http://svn.gna.org/viewcvs/relax?rev=4447view=rev
Log:
Added the quit argument to the run() class method.
This is to allow the system/functional tests to run this method and to ask
relax not to quit.
Modified:
Author: bugman
Date: Mon Jan 7 18:00:06 2008
New Revision: 4448
URL: http://svn.gna.org/viewcvs/relax?rev=4448view=rev
Log:
Merged revisions 4447 via svnmerge from
svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
r4447 | bugman | 2008-01-07 17:59:23 +0100 (Mon, 07 Jan 2008) | 5 lines
Author: bugman
Date: Mon Jan 7 18:09:07 2008
New Revision: 4449
URL: http://svn.gna.org/viewcvs/relax?rev=4449view=rev
Log:
Created a script containing the commands used in the system test for creating a
model-free model.
The system test executes the script instead of running the commands
Author: bugman
Date: Mon Jan 7 18:15:09 2008
New Revision: 4450
URL: http://svn.gna.org/viewcvs/relax?rev=4450view=rev
Log:
The script file is now passed into the interpreter run() method.
This change is like to break many things!!!
Modified:
1.3/prompt/interpreter.py
1.3/relax
Author: bugman
Date: Mon Jan 7 18:19:07 2008
New Revision: 4452
URL: http://svn.gna.org/viewcvs/relax?rev=4452view=rev
Log:
Fixed the running of the script for the model-free m4 model creating system
test.
Modified:
1.3/test_suite/system_tests/model_free.py
Modified:
Author: bugman
Date: Mon Jan 7 18:35:50 2008
New Revision: 4454
URL: http://svn.gna.org/viewcvs/relax?rev=4454view=rev
Log:
Added the ability to turn off the printing out of the script prior to its
execution.
Modified:
1.3/prompt/interpreter.py
Modified: 1.3/prompt/interpreter.py
URL:
Author: bugman
Date: Mon Jan 7 18:36:51 2008
New Revision: 4455
URL: http://svn.gna.org/viewcvs/relax?rev=4455view=rev
Log:
Turned off the printing of the script prior to its execution in the system
tests.
Modified:
1.3/relax
Modified: 1.3/relax
URL:
Author: bugman
Date: Mon Jan 7 18:43:35 2008
New Revision: 4458
URL: http://svn.gna.org/viewcvs/relax?rev=4458view=rev
Log:
Passed the quit flag into the prompt mode of operation.
Modified:
1.3/prompt/interpreter.py
Modified: 1.3/prompt/interpreter.py
URL:
Author: bugman
Date: Mon Jan 7 18:46:56 2008
New Revision: 4460
URL: http://svn.gna.org/viewcvs/relax?rev=4460view=rev
Log:
The script for the 5-state xz model system test is properly executed by the 1.3
line changes.
Modified:
.
string = Copyright (C) 2001-2006 Edward d'Auvergne
-self.intro_string = self.intro_string + self.spacing(string, width) +
'\n'
+intro_string = intro_string + self.spacing(string, width) + '\n'
string = Copyright (C) 2006-2008 the relax development team
Author: bugman
Date: Tue Jan 8 09:50:10 2008
New Revision: 4476
URL: http://svn.gna.org/viewcvs/relax?rev=4476view=rev
Log:
Ordered the committers list alphabetically.
Modified:
1.3/docs/COMMITTERS
Modified: 1.3/docs/COMMITTERS
URL:
Author: bugman
Date: Tue Jan 8 15:26:28 2008
New Revision: 4486
URL: http://svn.gna.org/viewcvs/relax?rev=4486view=rev
Log:
The status of script execution is now returned by the run() interpreter method.
Nothing currently uses this.
Modified:
1.3/prompt/interpreter.py
Modified:
Author: bugman
Date: Tue Jan 8 16:24:17 2008
New Revision: 4493
URL: http://svn.gna.org/viewcvs/relax?rev=4493view=rev
Log:
Updated the runcode() docstring for the epydoc format.
Modified:
1.3/prompt/interpreter.py
Modified: 1.3/prompt/interpreter.py
URL:
Author: bugman
Date: Tue Jan 8 16:22:33 2008
New Revision: 4491
URL: http://svn.gna.org/viewcvs/relax?rev=4491view=rev
Log:
Updated the run_script() docstring for the epydoc format.
Modified:
1.3/prompt/interpreter.py
Modified: 1.3/prompt/interpreter.py
URL:
Author: bugman
Date: Tue Jan 8 16:19:57 2008
New Revision: 4489
URL: http://svn.gna.org/viewcvs/relax?rev=4489view=rev
Log:
Updated the interact_script() docstring for the epydoc format.
Modified:
1.3/prompt/interpreter.py
Modified: 1.3/prompt/interpreter.py
URL:
Author: bugman
Date: Tue Jan 8 15:36:16 2008
New Revision: 4487
URL: http://svn.gna.org/viewcvs/relax?rev=4487view=rev
Log:
prompt.interpreter.interact_script() has been modified to allow RelaxErrors to
be raised.
Previously running a script would catch the error, send a nice message to
Author: bugman
Date: Tue Jan 8 16:21:23 2008
New Revision: 4490
URL: http://svn.gna.org/viewcvs/relax?rev=4490view=rev
Log:
Updated the prompt() docstring for the epydoc format.
Modified:
1.3/prompt/interpreter.py
Modified: 1.3/prompt/interpreter.py
URL:
Author: bugman
Date: Tue Jan 8 16:22:58 2008
New Revision: 4492
URL: http://svn.gna.org/viewcvs/relax?rev=4492view=rev
Log:
Converted the default quit arg of run_script() to a bool.
Modified:
1.3/prompt/interpreter.py
Modified: 1.3/prompt/interpreter.py
URL:
Author: bugman
Date: Tue Jan 8 16:36:37 2008
New Revision: 4494
URL: http://svn.gna.org/viewcvs/relax?rev=4494view=rev
Log:
Merged revisions 4461-4493 via svnmerge from
svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
r4461 | semor | 2008-01-07 18:58:13 +0100 (Mon, 07 Jan 2008) | 3 lines
Author: bugman
Date: Tue Jan 8 17:04:54 2008
New Revision: 4497
URL: http://svn.gna.org/viewcvs/relax?rev=4497view=rev
Log:
Added the basic code for implementing optimisation of the N-state model.
The target function, the maths_fns code, doesn't yet exist though.
Modified:
Author: bugman
Date: Tue Jan 8 17:22:29 2008
New Revision: 4500
URL: http://svn.gna.org/viewcvs/relax?rev=4500view=rev
Log:
Switched from the call to match() to search().
Modified:
branches/N_state_model/specific_fns/n_state_model.py
Modified:
Author: bugman
Date: Tue Jan 8 17:23:21 2008
New Revision: 4501
URL: http://svn.gna.org/viewcvs/relax?rev=4501view=rev
Log:
Added the missing import of minimise.generic.generic_minimise().
Modified:
branches/N_state_model/specific_fns/n_state_model.py
Modified:
Author: bugman
Date: Wed Jan 9 10:23:40 2008
New Revision: 4520
URL: http://svn.gna.org/viewcvs/relax?rev=4520view=rev
Log:
Changed a few of the arguments of the N-state model minimise() function.
The 'print_flag' arg has been renamed to 'verbosity' as it really isn't a flag.
And the 0/1 args
Author: bugman
Date: Wed Jan 9 10:28:01 2008
New Revision: 4522
URL: http://svn.gna.org/viewcvs/relax?rev=4522view=rev
Log:
The lower, upper, and inc args to grid_search() are no longer stored in the
class instance.
Modified:
branches/N_state_model/specific_fns/n_state_model.py
Modified:
Author: bugman
Date: Wed Jan 9 10:50:39 2008
New Revision: 4523
URL: http://svn.gna.org/viewcvs/relax?rev=4523view=rev
Log:
Renamed 'print_flag' to 'verbosity' in the calc(), grid_search(), and
minimise() user functions.
This arg is not really a flag, and it is the verbosity level, so this
@@
###
# #
-# Copyright (C) 2003-2007 Edward d'Auvergne #
+# Copyright (C) 2003-2008 Edward d'Auvergne
Author: bugman
Date: Wed Jan 9 11:25:14 2008
New Revision: 4526
URL: http://svn.gna.org/viewcvs/relax?rev=4526view=rev
Log:
Changed all references to 'print_flag' to 'verbosity' in the user function arg
unit tests.
Modified:
1.3/test_suite/unit_tests/_prompt/test_minimisation.py
Author: bugman
Date: Wed Jan 9 11:26:16 2008
New Revision: 4527
URL: http://svn.gna.org/viewcvs/relax?rev=4527view=rev
Log:
Changed all the bin minimisation arg unit tests to tests for boolean args.
Modified:
1.3/test_suite/unit_tests/_prompt/test_minimisation.py
Modified:
@@
###
# #
-# Copyright (C) 2003-2007 Edward d'Auvergne #
+# Copyright (C) 2003-2008 Edward d'Auvergne #
# #
# This file is part of the program relax
Author: bugman
Date: Wed Jan 9 11:37:04 2008
New Revision: 4529
URL: http://svn.gna.org/viewcvs/relax?rev=4529view=rev
Log:
Removal of all the old threading code!!!
This will all eventually be replaced by Gary Thompson's multi_processor code,
once it is ported to
the new relax design. This
+1,6 @@
###
# #
-# Copyright (C) 2003-2006 Edward d'Auvergne #
+# Copyright (C) 2003-2008 Edward d'Auvergne
Author: bugman
Date: Wed Jan 9 11:50:27 2008
New Revision: 4532
URL: http://svn.gna.org/viewcvs/relax?rev=4532view=rev
Log:
Added the return info to the relax_io.extract_data() function docstring.
Modified:
1.3/relax_io.py
Modified: 1.3/relax_io.py
URL:
Author: bugman
Date: Wed Jan 9 11:54:11 2008
New Revision: 4533
URL: http://svn.gna.org/viewcvs/relax?rev=4533view=rev
Log:
Updated the relax_io.log() function.
The compression flag has been dropped as it is automatically determined,
changed the 'print_flag'
arg to 'verbosity', and updated the
Author: bugman
Date: Wed Jan 9 11:56:14 2008
New Revision: 4534
URL: http://svn.gna.org/viewcvs/relax?rev=4534view=rev
Log:
Updated the relax_io.mkdir_nofail() function.
Changed the 'print_flag' arg to 'verbosity' and updated the docstring to epydoc
format.
Modified:
1.3/relax_io.py
Author: bugman
Date: Wed Jan 9 11:58:30 2008
New Revision: 4535
URL: http://svn.gna.org/viewcvs/relax?rev=4535view=rev
Log:
Updated the relax_io.open_read_file() function.
Changed the 'print_flag' arg to 'verbosity' and updated the docstring to epydoc
format.
Modified:
1.3/relax_io.py
Author: bugman
Date: Wed Jan 9 12:06:00 2008
New Revision: 4536
URL: http://svn.gna.org/viewcvs/relax?rev=4536view=rev
Log:
Spun out the compression determining code of open_read_file() into its own
function.
The new function is called determine_compression().
Modified:
1.3/relax_io.py
Author: bugman
Date: Wed Jan 9 12:06:46 2008
New Revision: 4537
URL: http://svn.gna.org/viewcvs/relax?rev=4537view=rev
Log:
Converted the devnull_import variable from a bin value to a boolean.
Modified:
1.3/relax_io.py
Modified: 1.3/relax_io.py
URL:
Author: bugman
Date: Wed Jan 9 12:26:39 2008
New Revision: 4538
URL: http://svn.gna.org/viewcvs/relax?rev=4538view=rev
Log:
Updated the relax_io.open_write_file() function.
The docstring has been updated for epydoc, the 'print_flag' arg changed to
'verbosity', and a
printed warning shifted to
Author: bugman
Date: Wed Jan 9 14:13:07 2008
New Revision: 4541
URL: http://svn.gna.org/viewcvs/relax?rev=4541view=rev
Log:
Bug fix. The compress_type arg is no longer accepted.
Modified:
1.3/generic_fns/state.py
Modified: 1.3/generic_fns/state.py
URL:
)
+++ 1.3/generic_fns/state.py Wed Jan 9 14:16:22 2008
@@ -1,6 +1,6 @@
###
# #
-# Copyright (C) 2003-2004, 2007 Edward d'Auvergne
Author: bugman
Date: Wed Jan 9 14:19:47 2008
New Revision: 4543
URL: http://svn.gna.org/viewcvs/relax?rev=4543view=rev
Log:
Updated the generic_fns.state.save_state() function.
The docstring has been converted to epydoc format and the 'force' arg converted
to a bool.
Modified:
Author: bugman
Date: Wed Jan 9 14:24:45 2008
New Revision: 4544
URL: http://svn.gna.org/viewcvs/relax?rev=4544view=rev
Log:
Bug fix. The relax_io.determine_compression() function now returns the full
file path.
Modified:
1.3/relax_io.py
Modified: 1.3/relax_io.py
URL:
Author: bugman
Date: Wed Jan 9 14:12:14 2008
New Revision: 4540
URL: http://svn.gna.org/viewcvs/relax?rev=4540view=rev
Log:
Bug fix. The compress_type arg is no longer accepted.
Modified:
1.3/relax_io.py
Modified: 1.3/relax_io.py
URL:
Author: bugman
Date: Wed Jan 9 14:10:13 2008
New Revision: 4539
URL: http://svn.gna.org/viewcvs/relax?rev=4539view=rev
Log:
Updated the docstring of the relax_io.open_write_file() function for epydoc.
Modified:
1.3/relax_io.py
Modified: 1.3/relax_io.py
URL:
Author: bugman
Date: Wed Jan 9 14:30:40 2008
New Revision: 4547
URL: http://svn.gna.org/viewcvs/relax?rev=4547view=rev
Log:
Updated the force arg unit test of the state.save() user function.
The arg is now a boolean.
Modified:
1.3/test_suite/unit_tests/_prompt/test_state.py
Modified:
Author: bugman
Date: Wed Jan 9 14:38:00 2008
New Revision: 4549
URL: http://svn.gna.org/viewcvs/relax?rev=4549view=rev
Log:
Changed all instances of the 'print_flag' arg to 'verbosity' in the
generic_fns.minimise module.
Modified:
1.3/generic_fns/minimise.py
Modified:
Author: bugman
Date: Wed Jan 9 14:39:09 2008
New Revision: 4550
URL: http://svn.gna.org/viewcvs/relax?rev=4550view=rev
Log:
Removed some unused imports.
Modified:
1.3/generic_fns/minimise.py
Modified: 1.3/generic_fns/minimise.py
URL:
Author: bugman
Date: Wed Jan 9 14:42:52 2008
New Revision: 4553
URL: http://svn.gna.org/viewcvs/relax?rev=4553view=rev
Log:
Merged revisions 4549-4551 via svnmerge from
svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
r4549 | bugman | 2008-01-09 14:38:00 +0100 (Wed, 09 Jan 2008) | 3 lines
Author: bugman
Date: Wed Jan 9 14:42:23 2008
New Revision: 4552
URL: http://svn.gna.org/viewcvs/relax?rev=4552view=rev
Log:
Updated the call to the generic_minimse() function as 'print_flag' no longer
exists.
Modified:
branches/N_state_model/specific_fns/n_state_model.py
Modified:
Author: bugman
Date: Wed Jan 9 14:33:53 2008
New Revision: 4548
URL: http://svn.gna.org/viewcvs/relax?rev=4548view=rev
Log:
Merged revisions 4529-4547 via svnmerge from
svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
r4529 | bugman | 2008-01-09 11:37:04 +0100 (Wed, 09 Jan 2008) | 6 lines
Author: bugman
Date: Wed Jan 9 15:13:44 2008
New Revision: 4554
URL: http://svn.gna.org/viewcvs/relax?rev=4554view=rev
Log:
Added a stub for the assemble_param_vector() method. It doesn't create the
vector yet.
Modified:
branches/N_state_model/specific_fns/n_state_model.py
Modified:
Author: bugman
Date: Wed Jan 9 15:54:59 2008
New Revision: 4557
URL: http://svn.gna.org/viewcvs/relax?rev=4557view=rev
Log:
Changed the 'label' arg back to the original 'tensor' arg.
Modified:
branches/N_state_model/test_suite/system_tests/scripts/5_state_xz.py
Modified:
Author: bugman
Date: Wed Jan 9 15:21:47 2008
New Revision: 4555
URL: http://svn.gna.org/viewcvs/relax?rev=4555view=rev
Log:
Complete change of the 5-state system test for the N-state model.
The current design for integrating the N-state model into relax was not
workable. This system test
/n_state_model.py (added)
+++ branches/N_state_model/prompt/n_state_model.py Wed Jan 9 16:57:28 2008
@@ -1,0 +1,45 @@
+###
+# #
+# Copyright (C) 2008 Edward
Author: bugman
Date: Wed Jan 9 17:01:13 2008
New Revision: 4561
URL: http://svn.gna.org/viewcvs/relax?rev=4561view=rev
Log:
Modified the 5-state system test.
The SVD and matrix angles user functions have been shifted back to the
align_tensor user function
base class. To compensate, the
Author: bugman
Date: Wed Jan 9 16:52:27 2008
New Revision: 4559
URL: http://svn.gna.org/viewcvs/relax?rev=4559view=rev
Log:
Yet another design change for the N-state model (as coded in the 5-state system
test)!
Modified:
branches/N_state_model/test_suite/system_tests/scripts/5_state_xz.py
Author: bugman
Date: Wed Jan 9 17:30:22 2008
New Revision: 4563
URL: http://svn.gna.org/viewcvs/relax?rev=4563view=rev
Log:
Wrote the interface of the n_state_model.set_domain() user function.
Modified:
branches/N_state_model/prompt/n_state_model.py
Modified:
@@
+###
+# #
+# Copyright (C) 2008 Edward d'Auvergne#
+# #
+# This file is part of the program relax
Author: bugman
Date: Wed Jan 9 17:54:22 2008
New Revision: 4568
URL: http://svn.gna.org/viewcvs/relax?rev=4568view=rev
Log:
Wrote 2 unit tests for the arguments of the n_state_model.set_domain() user
function.
Modified:
Author: bugman
Date: Wed Jan 9 17:58:12 2008
New Revision: 4570
URL: http://svn.gna.org/viewcvs/relax?rev=4570view=rev
Log:
Wrote 2 unit tests for the arguments of the n_state_model.set_type() user
function.
Modified:
Author: bugman
Date: Thu Jan 10 14:30:10 2008
New Revision: 4584
URL: http://svn.gna.org/viewcvs/relax?rev=4584view=rev
Log:
Fix for bug #8997 (https://gna.org/bugs/index.php?8997).
This bug was reported by Carl Diehl (carl dot diehl at bpc dot lu dot se).
The problem was because of a change
Changed almost all instances of the 'print_flag' arg to 'verbosity' in the
specific_fns directory.
Exceptions were made for instances in generic_minimise() functions where
'print_flag=print_flag'
becomes 'print_flag=verbosity'.
This was pointed out in a post by Edward d'Auvergne
Author: bugman
Date: Thu Jan 10 15:57:08 2008
New Revision: 4588
URL: http://svn.gna.org/viewcvs/relax?rev=4588view=rev
Log:
Removed the empty AlignTensorData.__init__() method and shifted its docstring
to that of the class.
Modified:
branches/N_state_model/data/align_tensor.py
Modified:
@@ -1,6 +1,6 @@
###
# #
-# Copyright (C) 2003-2004, 2006-2007 Edward d'Auvergne#
+# Copyright (C) 2003-2004, 2006-2008
Author: bugman
Date: Thu Jan 10 16:06:50 2008
New Revision: 4589
URL: http://svn.gna.org/viewcvs/relax?rev=4589view=rev
Log:
Wrote the AlignTensorList class for storing all of the alignment tensors for a
single data pipe.
Modified:
branches/N_state_model/data/align_tensor.py
Modified:
Author: bugman
Date: Thu Jan 10 16:08:25 2008
New Revision: 4590
URL: http://svn.gna.org/viewcvs/relax?rev=4590view=rev
Log:
Recreated the AlignTensorData.__init__() method to allow the tensor name to be
set.
Modified:
branches/N_state_model/data/align_tensor.py
Modified:
Author: bugman
Date: Thu Jan 10 16:13:56 2008
New Revision: 4592
URL: http://svn.gna.org/viewcvs/relax?rev=4592view=rev
Log:
Bug fix for the alignment tensor unit tests. AlignTensorData initialisation
requires a tensor name!
Modified:
Author: bugman
Date: Thu Jan 10 16:15:51 2008
New Revision: 4593
URL: http://svn.gna.org/viewcvs/relax?rev=4593view=rev
Log:
Allowed the alignment tensor name structure 'name' to be modifiable.
Modified:
branches/N_state_model/data/align_tensor.py
Modified:
Author: bugman
Date: Thu Jan 10 16:26:14 2008
New Revision: 4595
URL: http://svn.gna.org/viewcvs/relax?rev=4595view=rev
Log:
Updated the generic_fns.align_tensor.align_data_exists() method for the new
data structure.
Modified:
branches/N_state_model/generic_fns/align_tensor.py
Modified:
Author: bugman
Date: Thu Jan 10 16:28:08 2008
New Revision: 4596
URL: http://svn.gna.org/viewcvs/relax?rev=4596view=rev
Log:
Updated the matrix_angles() and svd() functions for the new alignment tensor
structure.
Modified:
branches/N_state_model/generic_fns/align_tensor.py
Modified:
Author: bugman
Date: Thu Jan 10 16:20:52 2008
New Revision: 4594
URL: http://svn.gna.org/viewcvs/relax?rev=4594view=rev
Log:
The AlignTensorData instance is now passed into the set() function.
This also fixes a bug in the setting of the Euler angles as they were
previously placed in the
Author: bugman
Date: Thu Jan 10 16:29:49 2008
New Revision: 4597
URL: http://svn.gna.org/viewcvs/relax?rev=4597view=rev
Log:
Updated the alignment tensor init() unit test to match the new structure.
Modified:
branches/N_state_model/test_suite/unit_tests/align_tensor_testing_base.py
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