relax SVN archive

Added more to the XEasy support test.

Now, the test fails when reaching the first residue with a non HN/N assignment. In fact, the reading
of this residue is fine, but no intensity is extracted... hence the failure of the test.

Now, what do we want to do ? Do we want to support side chain assignments mixed with backbone
assignments ? In other words, do we want to support multiuple assignment types in a single
analysis ?

Passed more arguments to the det_dimensions() function and removed 'self.' instances.

The test for the support of a XEasy peak list now passes, although there still may be some bugs
present...

Corrected a name clash.

This originates from a post by Edward at:
https://mail.gna.org/public/relax-devel/2008-10/msg00060.html (message ID:
7f080ed10810151446p58ab78f1u93cb1bc4afbeb202@...).

I hope this fixes the problem...

Import fixes and clean ups and addition of module docstrings.

Merged revisions 7708-7738 via svnmerge from
svn+ssh://bugman@.../svn/relax/1.3

........
r7728 | semor | 2008-10-15 23:18:55 +0200 (Wed, 15 Oct 2008) | 5 lines

Passed the 'file_data' variable to the det_dimensions() function and removed some 'self.' instances.

The system test for XEasy peak list support now goes further... However, more work is still needed.
........
r7730 | semor | 2008-10-16 00:13:40 +0200 (Thu, 16 Oct 2008) | 3 lines

Added a missing 'cdp' definition...
........
r7731 | semor | 2008-10-16 00:14:47 +0200 (Thu, 16 Oct 2008) | 3 lines

Added a missing import.
........
r7733 | semor | 2008-10-16 00:17:00 +0200 (Thu, 16 Oct 2008) | 3 lines

Changed a normalization force flag to boolean.
........

Manually merged the last of the multi_processor branch.

The command used was:
svn merge -r3274:3296 svn+ssh://bugman@.../svn/relax/branches/multi_processor .

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r3296 | varioustoxins | 2007-05-16 23:46:21 +0200 (Wed, 16 May 2007) | 2 lines
Changed paths:
M /branches/multi_processor/multi/processor.py

more documentation strings (completed if buggy for multi.processor)

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r3295 | varioustoxins | 2007-05-15 23:12:10 +0200 (Tue, 15 May 2007) | 2 lines
Changed paths:
M /branches/multi_processor/multi/multi_processor.py
M /branches/multi_processor/multi/processor.py
M /branches/multi_processor/specific_fns/model_free.py

minor improvements and much documentation of the Processor class

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r3283 | varioustoxins | 2007-05-08 21:45:48 +0200 (Tue, 08 May 2007) | 3 lines
Changed paths:
M /branches/multi_processor/multi/mpi4py_processor.py
M /branches/multi_processor/multi/multi_processor.py
M /branches/multi_processor/multi/processor.py
M /branches/multi_processor/relax

final separation between the multi framework and relax and initial
documentation of multi.processor

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r3280 | varioustoxins | 2007-05-04 01:07:07 +0200 (Fri, 04 May 2007) | 3 lines
Changed paths:
D /branches/multi_processor/multi/PrependStringIO.py
M /branches/multi_processor/multi/commands.py
M /branches/multi_processor/multi/mpi4py_processor.py
M /branches/multi_processor/multi/multi_processor.py
A /branches/multi_processor/multi/prependStringIO.py (from /branches/multi_processor/multi/PrependStringIO.py:3275)
M /branches/multi_processor/multi/processor.py
M /branches/multi_processor/multi/uni_processor.py

threaded multi processor support written, multi is now beta!
multi now supports three substrates: mpi4py, uniprocessor, and threads

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r3279 | varioustoxins | 2007-05-02 00:23:25 +0200 (Wed, 02 May 2007) | 3 lines
Changed paths:
M /branches/multi_processor/multi/commands.py
M /branches/multi_processor/multi/mpi4py_processor.py
A /branches/multi_processor/multi/multi_processor.py
M /branches/multi_processor/multi/processor.py
M /branches/multi_processor/multi/uni_processor.py

major restructuring to create generic multiprocessor framework legacy
string based exception handling supported

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r3278 | varioustoxins | 2007-05-01 00:24:05 +0200 (Tue, 01 May 2007) | 3 lines
Changed paths:
M /branches/multi_processor/multi/mpi4py_processor.py
M /branches/multi_processor/multi/processor.py
M /branches/multi_processor/multi/uni_processor.py
M /branches/multi_processor/relax

correct use of -n command line option, work to give general processor
base class and simple processor implimentations

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r3277 | varioustoxins | 2007-04-30 15:40:54 +0200 (Mon, 30 Apr 2007) | 3 lines
Changed paths:
M /branches/multi_processor/multi/mpi4py_processor.py
M /branches/multi_processor/multi/processor.py
M /branches/multi_processor/multi/uni_processor.py
M /branches/multi_processor/relax

Addition of processor based intro string, correction of error in
Application_callback exceptio_handler named error_handler

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r3276 | varioustoxins | 2007-04-29 23:20:42 +0200 (Sun, 29 Apr 2007) | 4 lines
Changed paths:
M /branches/multi_processor/multi/commands.py
M /branches/multi_processor/multi/mpi4py_processor.py
M /branches/multi_processor/multi/processor.py
M /branches/multi_processor/multi/uni_processor.py
M /branches/multi_processor/relax

modifications to make the multi hierachy indepndant of relax; multi can
now be used to run other multiprocessor tasks (uni processor and mpi
work)

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r3275 | varioustoxins | 2007-04-28 19:59:04 +0200 (Sat, 28 Apr 2007) | 2 lines
Changed paths:
M /branches/multi_processor/minimise/generic.py
M /branches/multi_processor/multi/PrependStringIO.py
M /branches/multi_processor/multi/commands.py
M /branches/multi_processor/multi/mpi4py_processor.py
M /branches/multi_processor/multi/processor.py

improved output and exception handling
.....

Manually ported r3274 from the multi_processor branch.

The command used was:
svn merge -r3273:3274 svn+ssh://bugman@.../svn/relax/branches/multi_processor .

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r3274 | varioustoxins | 2007-04-27 23:58:18 +0200 (Fri, 27 Apr 2007) | 2 lines
Changed paths:
M /branches/multi_processor/minimise/generic.py
M /branches/multi_processor/multi/PrependStringIO.py
M /branches/multi_processor/multi/commands.py
M /branches/multi_processor/multi/mpi4py_processor.py
M /branches/multi_processor/multi/processor.py
M /branches/multi_processor/relax

correction to master slave output prefixes
.....

Manually ported r3269, r3270, and r3271 from the multi_processor branch.

The command used was:
svn merge -r3268:3271 svn+ssh://bugman@.../svn/relax/branches/multi_processor .

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r3271 | varioustoxins | 2007-04-23 13:06:57 +0200 (Mon, 23 Apr 2007) | 3 lines
Changed paths:
M /branches/multi_processor/multi/mpi4py_processor.py

threaded results output to _TRY_ to avoid starving multiprocessor while
waiting for stdio

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r3270 | varioustoxins | 2007-04-21 03:18:39 +0200 (Sat, 21 Apr 2007) | 2 lines
Changed paths:
M /branches/multi_processor/multi/mpi4py_processor.py

forgot to remove sys.exit used in testing

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r3269 | varioustoxins | 2007-04-21 03:17:26 +0200 (Sat, 21 Apr 2007) | 2 lines
Changed paths:
M /branches/multi_processor/multi/PrependStringIO.py
M /branches/multi_processor/multi/commands.py
M /branches/multi_processor/multi/mpi4py_processor.py
M /branches/multi_processor/multi/processor.py

batched retrun results and better sys.exit and exception handling behaviour
.....

Manually ported r3268 from the multi_processor branch.

The 2 commands used were:
svn merge -r3267:3268 svn+ssh://bugman@.../svn/relax/branches/multi_processor .
svn merge -r3267:3268 svn+ssh://bugman@.../svn/relax/branches/multi_processor/specific_fns/model_free.py specific_fns/model_free/mf_minimise.py

.....
r3268 | varioustoxins | 2007-04-17 14:39:25 +0200 (Tue, 17 Apr 2007) | 2 lines
Changed paths:
M /branches/multi_processor/multi/commands.py
M /branches/multi_processor/multi/mpi4py_processor.py
M /branches/multi_processor/multi/processor.py
M /branches/multi_processor/multi/uni_processor.py
M /branches/multi_processor/specific_fns/model_free.py

almost feature complete mpi4py and uni processor versions of relax
.....

Merged all that could be merged from r3267.

The 2 commands used were:
svn merge -r3266:3267 svn+ssh://bugman@.../svn/relax/branches/multi_processor .
svn merge -r3266:3267 svn+ssh://bugman@.../svn/relax/branches/multi_processor/specific_fns/model_free.py specific_fns/model_free/mf_minimise.py

The grid search code was skipped as it is in minfx (https://gna.org/projects/minfx/).

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r3267 | varioustoxins | 2007-04-17 00:54:48 +0200 (Tue, 17 Apr 2007) | 2 lines
Changed paths:
M /branches/multi_processor/minimise/generic.py
M /branches/multi_processor/minimise/grid.py
M /branches/multi_processor/multi/commands.py
M /branches/multi_processor/specific_fns/model_free.py

fully operative grid search (uniprocessor broken)
.....