Author: bugman
Date: Fri Mar 24 02:49:35 2006
New Revision: 2402
URL: http://svn.gna.org/viewcvs/relax?rev=2402view=rev
Log:
Set notation fix: Changed the square and round brackets to curly brackets and
replaced ':' with '='.
Modified:
1.2/prompt/diffusion_tensor.py
Author: bugman
Date: Fri Mar 24 03:17:11 2006
New Revision: 2403
URL: http://svn.gna.org/viewcvs/relax?rev=2403view=rev
Log:
Shifted the test suite from the directory 'testing' to 'test_suite'.
Added:
1.2/test_suite/
- copied from r2399, 1.2/testing/
Removed:
1.2/testing/
Author: bugman
Date: Mon Mar 27 08:27:40 2006
New Revision: 2410
URL: http://svn.gna.org/viewcvs/relax?rev=2410view=rev
Log:
Created the web site, mailing list, and bug report sections of the web chapter
of the manual.
Modified:
1.2/docs/latex/web.tex
1.2/docs/relax.pdf
Modified:
.
If the commit is a bug fix reported by someone else or if the commit
originates from a patch posted by someone else, the next lines should be
reserved for crediting. The name of the person and their obfuscated email
address (for example edward at nmr-relax.com) should be included
Author: bugman
Date: Thu Mar 30 03:28:38 2006
New Revision: 2434
URL: http://svn.gna.org/viewcvs/relax?rev=2434view=rev
Log:
Removed the acknowledgment section of the manual.
Modified:
1.2/docs/latex/relax.tex
1.2/docs/relax.pdf
Modified: 1.2/docs/latex/relax.tex
URL:
/relax/1.2/COMMITTERS?rev=2435r1=2434r2=2435view=diff
==
--- 1.2/COMMITTERS (original)
+++ 1.2/COMMITTERS Thu Mar 30 08:09:25 2006
@@ -1,4 +1,19 @@
-Full access committers:
+Project Administrator
+~
-Edward
@@
+###
+# #
+# Copyright (C) 2006 Edward d'Auvergne#
+# #
+# This file is part
Author: bugman
Date: Wed Apr 5 06:57:46 2006
New Revision: 2443
URL: http://svn.gna.org/viewcvs/relax?rev=2443view=rev
Log:
Fix to bug #5660.
The bug report is located at https://gna.org/bugs/?func=detailitemitem_id=5660.
To fix the bug, a function in the base class of the specific functions
Author: bugman
Date: Wed Apr 5 09:45:10 2006
New Revision: 2446
URL: http://svn.gna.org/viewcvs/relax?rev=2446view=rev
Log:
Stored the runs which form the hybrid in self.relax.data.hybrid_runs[].
This code is for task #3122 located at
https://gna.org/task/?func=detailitemitem_id=3122.
Author: bugman
Date: Fri Apr 7 04:26:16 2006
New Revision: 2452
URL: http://svn.gna.org/viewcvs/relax?rev=2452view=rev
Log:
The run type 'hybrid' model-statistic returning function now handles numerous
instances.
Modified:
1.2/specific_fns/hybrid.py
1.2/specific_fns/model_free.py
Author: bugman
Date: Fri Apr 7 06:15:19 2006
New Revision: 2453
URL: http://svn.gna.org/viewcvs/relax?rev=2453view=rev
Log:
Added Gary Thompson to the list of full access committers.
Modified:
1.2/COMMITTERS
Modified: 1.2/COMMITTERS
URL:
Author: bugman
Date: Sat May 6 13:06:40 2006
New Revision: 2496
URL: http://svn.gna.org/viewcvs/relax?rev=2496view=rev
Log:
Editing of all chapters of the manual and a few large changes.
The data analysis chapter has been split into four. The new chapters include
the NOE chapter, the
Author: bugman
Date: Sat May 6 13:20:21 2006
New Revision: 2497
URL: http://svn.gna.org/viewcvs/relax?rev=2497view=rev
Log:
Added the model m0 to the sample scripts.
Modified:
1.2/sample_scripts/mf_multimodel.py
1.2/sample_scripts/modsel.py
Modified:
Author: bugman
Date: Wed Jul 19 05:19:59 2006
New Revision: 2507
URL: http://svn.gna.org/viewcvs/relax?rev=2507view=rev
Log:
Spell check of the development chapter of the relax manual.
Modified:
1.2/docs/latex/develop.tex
1.2/docs/relax.pdf
Modified: 1.2/docs/latex/develop.tex
URL:
Author: bugman
Date: Wed Jul 19 05:48:19 2006
New Revision: 2508
URL: http://svn.gna.org/viewcvs/relax?rev=2508view=rev
Log:
Fix to bug #6288.
The report is located at https://gna.org/bugs/?func=detailitemitem_id=6288.
The fix was to catch the value of None and hence not preform the 'float()'
Author: bugman
Date: Wed Jul 19 07:13:44 2006
New Revision: 2511
URL: http://svn.gna.org/viewcvs/relax?rev=2511view=rev
Log:
Fix to bug #5806.
The bug is located at https://gna.org/bugs/?func=detailitemitem_id=5806.
To remove the bug, tests for the presence of relaxation data have been added to
Author: bugman
Date: Thu Jul 20 07:03:38 2006
New Revision: 2519
URL: http://svn.gna.org/viewcvs/relax?rev=2519view=rev
Log:
relax version 1.2.5.
This is mainly a bugfix release. A large number of bugs have been eliminated
including bug #5977,
bug #6288, bug #6383, bug #5806, bug #6384, bug
Author: bugman
Date: Thu Jul 20 09:08:09 2006
New Revision: 2521
URL: http://svn.gna.org/viewcvs/relax?rev=2521view=rev
Log:
Fixed the Clore 1990 reference in the manual, changed the rsync command in the
release checklist,
and updated the manual.
Modified:
1.2/docs/Release_Checklist
Author: bugman
Date: Fri Jul 21 05:09:18 2006
New Revision: 2524
URL: http://svn.gna.org/viewcvs/relax?rev=2524view=rev
Log:
Updated the CHANGES file for relax version 1.2.6, the fatal devnull import
failure fix.
Modified:
1.2/docs/CHANGES
Modified: 1.2/docs/CHANGES
URL:
Author: bugman
Date: Wed Aug 9 07:28:47 2006
New Revision: 2528
URL: http://svn.gna.org/viewcvs/relax?rev=2528view=rev
Log:
Made a private branch of the 1.2 line to test proposed NaN catching code.
Added:
branches/nan_catch_test/
- copied from r2527, 1.2/
Author: bugman
Date: Wed Aug 9 07:48:36 2006
New Revision: 2530
URL: http://svn.gna.org/viewcvs/relax?rev=2530view=rev
Log:
Fix for the RelaxInfError and RelaxNaNError.
Modified:
branches/nan_catch_test/specific_fns/model_free.py
Modified:
Author: bugman
Date: Thu Aug 10 12:15:24 2006
New Revision: 2532
URL: http://svn.gna.org/viewcvs/relax?rev=2532view=rev
Log:
Created the RelaxWarning subsystem. The standard 'RelaxWarning' and the
'RelaxZeroVectorWarning'
warning classes have been created.
Modified:
Author: bugman
Date: Sat Aug 12 07:51:03 2006
New Revision: 2536
URL: http://svn.gna.org/viewcvs/relax?rev=2536view=rev
Log:
Significant improvements to the new error/warning system.
The idea of this system was suggested in two threads which commence at:
Author: bugman
Date: Tue Aug 15 07:12:05 2006
New Revision: 2537
URL: http://svn.gna.org/viewcvs/relax?rev=2537view=rev
Log:
Modified the sys.exit() statements to return 1 to the shell to indicate failure.
Modified:
1.2/errors.py
Modified: 1.2/errors.py
URL:
Author: bugman
Date: Fri Sep 1 13:50:52 2006
New Revision: 2548
URL: http://svn.gna.org/viewcvs/relax?rev=2548view=rev
Log:
Added a try statement to catch the ImportError failure of the 'lstat' and
'symlink' functions of the
'os' module within the 'sconstruct' script.
This is a fix for bug
Author: bugman
Date: Sun Sep 3 08:48:21 2006
New Revision: 2551
URL: http://svn.gna.org/viewcvs/relax?rev=2551view=rev
Log:
Commented out the calls to 'isnan()' and 'isinf()' in the model-free code.
Modified:
branches/nan_catch_test/specific_fns/model_free.py
Modified:
Author: bugman
Date: Sun Sep 3 10:28:49 2006
New Revision: 2553
URL: http://svn.gna.org/viewcvs/relax?rev=2553view=rev
Log:
Merged the 'nan_catch_test' branch (r2552) into the 1.2 line (r2552).
The command used was:
svn merge svn+ssh://[EMAIL PROTECTED]/svn/relax/[EMAIL PROTECTED]
Author: bugman
Date: Mon Sep 4 09:23:26 2006
New Revision: 2554
URL: http://svn.gna.org/viewcvs/relax?rev=2554view=rev
Log:
Removed the 'Popen3' class, UNIX only dependency from relax by commenting out
two import statements.
This was in response to Daniel Perez's post at
.
string = Copyright (C) 2001-2006 Edward d'Auvergne
-self.intro_string = self.intro_string + self.spacing(string) + '\n\n'
-
-# Program licence and help.
-self.intro_string = self.intro_string + This is free software which
you are welcome to modify and redistribute under
Author: bugman
Date: Wed Sep 13 12:44:23 2006
New Revision: 2557
URL: http://svn.gna.org/viewcvs/relax?rev=2557view=rev
Log:
A number of cosmetic changes to the 'error.py' file (addition of comments and
removal of spaces).
I mentioned these changes within the post located at
Author: bugman
Date: Thu Sep 14 08:25:40 2006
New Revision: 2560
URL: http://svn.gna.org/viewcvs/relax?rev=2560view=rev
Log:
Added a few comments to the Windows batch file and added the clear screen
command 'cls'.
Modified:
1.2/relax.bat
Modified: 1.2/relax.bat
URL:
Author: bugman
Date: Fri Sep 15 06:58:28 2006
New Revision: 2564
URL: http://svn.gna.org/viewcvs/relax?rev=2564view=rev
Log:
Modified the LaTeX manual compilation section of the sconstruct script so that
scons does not fail
when the PS or PDF files are missing.
Modified:
1.2/sconstruct
Author: bugman
Date: Mon Sep 18 07:53:37 2006
New Revision: 2566
URL: http://svn.gna.org/viewcvs/relax?rev=2566view=rev
Log:
Updated the CHANGES file for relax version 1.2.7, the MS Windows release.
Modified:
1.2/docs/CHANGES
Modified: 1.2/docs/CHANGES
URL:
Author: bugman
Date: Mon Sep 18 09:00:43 2006
New Revision: 2567
URL: http://svn.gna.org/viewcvs/relax?rev=2567view=rev
Log:
relax version 1.2.7.
This is the MS Windows compatibility release. To allow relax to function
properly on MS Windows a number of changes were necessary. This includes a
Author: bugman
Date: Mon Sep 18 10:58:39 2006
New Revision: 2568
URL: http://svn.gna.org/viewcvs/relax?rev=2568view=rev
Log:
Added MS Windows installation instructions to the manual.
Modified:
1.2/docs/latex/install.tex
1.2/docs/relax.pdf
Modified: 1.2/docs/latex/install.tex
URL:
Author: bugman
Date: Mon Sep 18 11:02:38 2006
New Revision: 2569
URL: http://svn.gna.org/viewcvs/relax?rev=2569view=rev
Log:
Merged in the MS Windows installation instructions from the 1.2 line.
The command used was 'svn merge -r2567:2568 svn+ssh://[EMAIL
PROTECTED]/svn/relax/1.2'.
Modified:
Author: bugman
Date: Tue Sep 19 05:39:43 2006
New Revision: 2570
URL: http://svn.gna.org/viewcvs/relax?rev=2570view=rev
Log:
Updated the manual and changed the version number to 1.2.7.
Modified:
tags/1.2.7/docs/latex/relax_version.tex
tags/1.2.7/docs/relax.pdf
tags/1.2.7/version.py
Author: bugman
Date: Tue Sep 19 10:30:20 2006
New Revision: 2571
URL: http://svn.gna.org/viewcvs/relax?rev=2571view=rev
Log:
Readded the machine name to the GNU/Linux binary distribution package which was
accidentally lost.
Modified:
1.2/sconstruct
Modified: 1.2/sconstruct
URL:
Author: bugman
Date: Wed Sep 20 10:25:54 2006
New Revision: 2580
URL: http://svn.gna.org/viewcvs/relax?rev=2580view=rev
Log:
Removed a few lines of sconstruct code which had been commented out and are no
longer used.
Modified:
1.2/sconstruct
Modified: 1.2/sconstruct
URL:
Author: bugman
Date: Sat Sep 30 07:40:48 2006
New Revision: 2583
URL: http://svn.gna.org/viewcvs/relax?rev=2583view=rev
Log:
Changes to Chapter 2 of the manual (sample scripts and the test suite).
These changes complete task #3781 (https://gna.org/task/?3781).
The sample script section has been
Author: bugman
Date: Sat Sep 30 10:50:54 2006
New Revision: 2587
URL: http://svn.gna.org/viewcvs/relax?rev=2587view=rev
Log:
Fix for bug #7224 (https://gna.org/bugs/?7224).
The problem was simply that the run name was being replaced by None.
Modified:
1.2/generic_fns/angles.py
Modified:
Author: bugman
Date: Sat Sep 30 15:20:34 2006
New Revision: 2588
URL: http://svn.gna.org/viewcvs/relax?rev=2588view=rev
Log:
Modified the Modelfree4 execution code to test the return status when a PDB
file is used.
Modified:
1.2/generic_fns/palmer.py
Modified: 1.2/generic_fns/palmer.py
@@
###
# #
-# Copyright (C) 2003-2005 Edward d'Auvergne #
+# Copyright (C) 2003-2006 Edward d'Auvergne #
# #
# This file is part of the program relax
Author: bugman
Date: Sat Sep 30 16:07:51 2006
New Revision: 2590
URL: http://svn.gna.org/viewcvs/relax?rev=2590view=rev
Log:
Added tests for the Dasha, Molmol, Grace, and OpenDX executables.
This is an extension of the ideas introduced to fix bug #7225
(https://gna.org/bugs/?7225). This
change
Author: bugman
Date: Sat Sep 30 16:51:33 2006
New Revision: 2591
URL: http://svn.gna.org/viewcvs/relax?rev=2591view=rev
Log:
An attempt at fixing bug #7241 (https://gna.org/bugs/?7241).
The algorithm I've implemented is to first check for and use peptide chains,
then check for and use
Author: bugman
Date: Sun Oct 1 05:54:27 2006
New Revision: 2592
URL: http://svn.gna.org/viewcvs/relax?rev=2592view=rev
Log:
Fix for bug #7226 (https://gna.org/bugs/?7226).
This bug was reported by Alex Hansen. The problem was caused by the model-free
results file reading
function,
Author: bugman
Date: Wed Oct 4 07:11:26 2006
New Revision: 2599
URL: http://svn.gna.org/viewcvs/relax?rev=2599view=rev
Log:
Changed all references to Sconstruct in the manual to SCons. The program is
really called SCons!
Modified:
1.2/docs/latex/develop.tex
Author: bugman
Date: Wed Oct 4 07:36:41 2006
New Revision: 2600
URL: http://svn.gna.org/viewcvs/relax?rev=2600view=rev
Log:
Fix for bug #7297 (https://gna.org/bugs/index.php?7297).
This bug was reported by Alex Hansen. The problem was that relax was being too
strict with the
checking of the
/pdb.py (original)
+++ 1.3/prompt/pdb.py Fri Oct 6 08:55:01 2006
@@ -1,6 +1,6 @@
###
# #
-# Copyright (C) 2003, 2004 Edward d'Auvergne
Author: bugman
Date: Sat Oct 7 10:49:58 2006
New Revision: 2602
URL: http://svn.gna.org/viewcvs/relax?rev=2602view=rev
Log:
Ported r2599 from the 1.2 line.
The command used was:
$ svn merge -r2598:2599 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This changes 'Sconstruct' to 'SCons' in the relax
Author: bugman
Date: Sat Oct 7 10:52:57 2006
New Revision: 2603
URL: http://svn.gna.org/viewcvs/relax?rev=2603view=rev
Log:
Ported r2600 from the 1.2 line.
The command used was:
svn merge -r2599:2600 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This fixes bug #7297
Author: bugman
Date: Sat Oct 7 13:28:39 2006
New Revision: 2604
URL: http://svn.gna.org/viewcvs/relax?rev=2604view=rev
Log:
Created the JOBS file. This file describes the roles of the relax manager
positions.
Added:
1.3/docs/JOBS
Added: 1.3/docs/JOBS
URL:
Author: bugman
Date: Sat Oct 7 17:32:17 2006
New Revision: 2605
URL: http://svn.gna.org/viewcvs/relax?rev=2605view=rev
Log:
Fix for bug #7277 (https://gna.org/bugs/?7277).
This bug was reported by Alex Hansen. The problem was that the
'self.relax.generic_fns.palmer.create()' function was
Author: bugman
Date: Sat Oct 7 17:35:24 2006
New Revision: 2606
URL: http://svn.gna.org/viewcvs/relax?rev=2606view=rev
Log:
Ported r2605 from the 1.2 line.
The command used was:
$ svn merge -r2604:2605 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This fixes bug #7277 (https://gna.org/bugs/?7277).
Author: bugman
Date: Sat Oct 7 19:13:42 2006
New Revision: 2607
URL: http://svn.gna.org/viewcvs/relax?rev=2607view=rev
Log:
Fix for bug #7333 (https://gna.org/bugs/index.php?7333).
The three tests of the test-suite have been modified to use the correct PDB
functions. A few calls
to the user
Author: bugman
Date: Sat Oct 7 19:37:56 2006
New Revision: 2609
URL: http://svn.gna.org/viewcvs/relax?rev=2609view=rev
Log:
Fix for bug #7335 (https://gna.org/bugs/index.php?7335).
The code which tests that the proton and heteronucleus have not been set to the
same atom name has
been moved
Author: bugman
Date: Wed Oct 11 12:08:35 2006
New Revision: 2611
URL: http://svn.gna.org/viewcvs/relax?rev=2611view=rev
Log:
Created the directory 'scons' for splitting up the 'sconstruct' script into
multiple Python modules.
Added:
1.2/scons/
Author: bugman
Date: Thu Oct 12 05:20:26 2006
New Revision: 2613
URL: http://svn.gna.org/viewcvs/relax?rev=2613view=rev
Log:
Ported r2611 from the 1.2 line.
The command used was:
$ svn merge -r2610:2611 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This adds the directory for Scons Python modules
Author: bugman
Date: Thu Oct 12 05:23:22 2006
New Revision: 2614
URL: http://svn.gna.org/viewcvs/relax?rev=2614view=rev
Log:
Ported r2612 from the 1.2 line.
The command used was:
$ svn merge -r2611:2612 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This completes the fixing of bug #7241
Author: bugman
Date: Thu Oct 12 05:43:31 2006
New Revision: 2616
URL: http://svn.gna.org/viewcvs/relax?rev=2616view=rev
Log:
Deletion of the file 'maths_fns/test.c_chi.py'.
This file is an ancient file last touched in 2004. It serves no purpose so has
been removed.
Removed:
Author: bugman
Date: Thu Oct 12 05:46:16 2006
New Revision: 2617
URL: http://svn.gna.org/viewcvs/relax?rev=2617view=rev
Log:
Ported r2616 from the 1.2 line.
The command used was:
$ svn merge -r2615:2616 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This removes the ancient unused file
Author: bugman
Date: Thu Oct 12 06:02:01 2006
New Revision: 2618
URL: http://svn.gna.org/viewcvs/relax?rev=2618view=rev
Log:
A number of large changes to the Scons system.
The package initialisation file '__init__.py' has been added to the 'scons'
directory.
The 'sconstruct' script has been
Author: bugman
Date: Thu Oct 12 06:32:18 2006
New Revision: 2619
URL: http://svn.gna.org/viewcvs/relax?rev=2619view=rev
Log:
Fixed a bug in the 'self.package()' target function.
The variable 'file_name' was being accessed when the variable should have been
called
env['DIST_FILE'].
Modified:
Author: bugman
Date: Thu Oct 12 07:08:18 2006
New Revision: 2621
URL: http://svn.gna.org/viewcvs/relax?rev=2621view=rev
Log:
Complete overhaul of the relax manual targets.
The relax manual is now referred to as the user manaul (to allow a developers
manual in the future).
The functions for
Author: bugman
Date: Thu Oct 12 07:13:24 2006
New Revision: 2622
URL: http://svn.gna.org/viewcvs/relax?rev=2622view=rev
Log:
Created a single custom builder (using the dummy function) for all the standard
manual targets.
Modified:
1.2/sconstruct
Modified: 1.2/sconstruct
URL:
Author: bugman
Date: Thu Oct 12 07:18:12 2006
New Revision: 2623
URL: http://svn.gna.org/viewcvs/relax?rev=2623view=rev
Log:
Removed the Adobe Acrobat dependancy from the standard manual targets.
This allows for the removal of the target 'user_manual_pdf_dist' as the only
difference between
Author: bugman
Date: Thu Oct 12 07:19:57 2006
New Revision: 2624
URL: http://svn.gna.org/viewcvs/relax?rev=2624view=rev
Log:
Created a new standard manual target called 'user_manual_html_nofetch'.
Modified:
1.2/sconstruct
Modified: 1.2/sconstruct
URL:
Author: bugman
Date: Thu Oct 12 07:21:15 2006
New Revision: 2625
URL: http://svn.gna.org/viewcvs/relax?rev=2625view=rev
Log:
Removed all traces of Adobe Acrobat Reader (deleted the acro() function, etc.).
Modified:
1.2/scons/manuals.py
Modified: 1.2/scons/manuals.py
URL:
Author: bugman
Date: Thu Oct 12 08:33:45 2006
New Revision: 2626
URL: http://svn.gna.org/viewcvs/relax?rev=2626view=rev
Log:
Added the API documentation creation (using Epydoc) to the Scons scripts.
The Scons target to create the HTML API documentation is called
'api_manual_html'. The
(epydoc_cmd)
+
+
+# Modify the CSS file.
+##
+
+# Open the file.
+css_file = open(target + '/epydoc.css', 'a')
+
+# Header.
+css_file.write(\n\n\n\n/* Edward */\n\n)
+
+# Append the new link style to the end.
+css_file.write(a { text-decoration:none
Author: bugman
Date: Thu Oct 12 09:05:36 2006
New Revision: 2628
URL: http://svn.gna.org/viewcvs/relax?rev=2628view=rev
Log:
Changed the comments and docstrings of the Scons manual targets.
The PDF or HMTL version is now in brackets after the 'user manual' and 'API
documentation manual'
parts.
Author: bugman
Date: Thu Oct 12 09:07:31 2006
New Revision: 2629
URL: http://svn.gna.org/viewcvs/relax?rev=2629view=rev
Log:
Fixed an incorrect comment in the 'compile_user_manual_html()' Scons build
target function.
Modified:
1.2/scons/manuals.py
Modified: 1.2/scons/manuals.py
URL:
Author: bugman
Date: Thu Oct 12 09:33:35 2006
New Revision: 2630
URL: http://svn.gna.org/viewcvs/relax?rev=2630view=rev
Log:
A completely new Scons help message has been created.
The message (produced after typing 'scons --help') has been formatted to be in
the same style as the
relax help
Author: bugman
Date: Thu Oct 12 09:34:28 2006
New Revision: 2631
URL: http://svn.gna.org/viewcvs/relax?rev=2631view=rev
Log:
Changed the C module compilation Scons help message.
Modified:
1.2/sconstruct
Modified: 1.2/sconstruct
URL:
Author: bugman
Date: Thu Oct 12 09:36:12 2006
New Revision: 2632
URL: http://svn.gna.org/viewcvs/relax?rev=2632view=rev
Log:
Fixed a very minor bug in the Scons source packaging target.
The relax version was not being checked because the Depends statement was using
'package_bin' rather
than
Author: bugman
Date: Thu Oct 12 09:43:25 2006
New Revision: 2633
URL: http://svn.gna.org/viewcvs/relax?rev=2633view=rev
Log:
Ported r2618 to r2632 from the 1.2 line.
The command used was:
$ svn merge -r2617:2632 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
These changes all relate to the Scons
Author: bugman
Date: Thu Oct 12 11:04:46 2006
New Revision: 2635
URL: http://svn.gna.org/viewcvs/relax?rev=2635view=rev
Log:
Shifted the Scons distribution target functions from 'sconstruct' to
'scons/distrib.py'.
The functions 'self.package' and 'self.gpg_sign' have been shifted into their
Author: bugman
Date: Fri Oct 13 07:33:29 2006
New Revision: 2637
URL: http://svn.gna.org/viewcvs/relax?rev=2637view=rev
Log:
Fixed a bug in the Scons distribution target functions.
The relax version number variable 'version' which exists in the base
'sconstruct' module doesn't
exist within the
Author: bugman
Date: Fri Oct 13 07:38:50 2006
New Revision: 2638
URL: http://svn.gna.org/viewcvs/relax?rev=2638view=rev
Log:
The fix of the previous revision has been redone.
Rather than 'sconstruct' passing in the relax version number as an
environmental variable, the file
'scons/distrib.py'
Author: bugman
Date: Fri Oct 13 07:40:19 2006
New Revision: 2639
URL: http://svn.gna.org/viewcvs/relax?rev=2639view=rev
Log:
Shifted the 'install' and 'uninstall' target functions into their own module in
the 'scons' dir.
Added:
1.2/scons/install.py
- copied, changed from r2635,
Author: bugman
Date: Fri Oct 13 07:43:59 2006
New Revision: 2640
URL: http://svn.gna.org/viewcvs/relax?rev=2640view=rev
Log:
Removal of the installation targets and changing of the initialisation of the
system path variables.
The installation target functions 'self.install()' and
Author: bugman
Date: Fri Oct 13 07:59:18 2006
New Revision: 2641
URL: http://svn.gna.org/viewcvs/relax?rev=2641view=rev
Log:
Fix for the documentation bug #7402 (https://gna.org/bugs/?7402).
This fixes the sigma(NOE) equations in section 8.8.1 of the relax user manual.
Alex Hansen reported
Author: bugman
Date: Mon Oct 16 10:02:49 2006
New Revision: 2642
URL: http://svn.gna.org/viewcvs/relax?rev=2642view=rev
Log:
Modified the infrastructure chapter of the user manual.
Each mailing list has been given their own subsections.
A warning about the thread breaking caused by changing the
Author: bugman
Date: Mon Oct 16 10:11:12 2006
New Revision: 2643
URL: http://svn.gna.org/viewcvs/relax?rev=2643view=rev
Log:
Two small formatting changes to the model-free file.
Modified:
1.2/specific_fns/model_free.py
Modified: 1.2/specific_fns/model_free.py
URL:
Author: bugman
Date: Mon Oct 16 10:25:47 2006
New Revision: 2644
URL: http://svn.gna.org/viewcvs/relax?rev=2644view=rev
Log:
A large expansion of the relax development chapter.
The title has been changed from 'Development of relax' to 'relax development'.
Many sections have been
Author: bugman
Date: Tue Oct 17 06:45:34 2006
New Revision: 2646
URL: http://svn.gna.org/viewcvs/relax?rev=2646view=rev
Log:
Added a number of model-free optimisation tests to the test-suite.
These tests use the synthetic data back calculated for the model-free parameter
values of {S2=0.970,
Author: bugman
Date: Tue Oct 17 07:09:57 2006
New Revision: 2649
URL: http://svn.gna.org/viewcvs/relax?rev=2649view=rev
Log:
Ported r2635 from the 1.2 line.
The command used was:
$ svn merge -r2634:2635 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This involves a few functions moving to the new
Author: bugman
Date: Tue Oct 17 07:13:09 2006
New Revision: 2650
URL: http://svn.gna.org/viewcvs/relax?rev=2650view=rev
Log:
Ported r2637 to r2640 from the 1.2 line.
The command used was:
$ svn merge -r2636:2640 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This includes a number of changes to the
Author: bugman
Date: Tue Oct 17 07:22:34 2006
New Revision: 2653
URL: http://svn.gna.org/viewcvs/relax?rev=2653view=rev
Log:
Ported r2643 from the 1.2 line.
The command used was:
$ svn merge -r2642:2643 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This includes a few small formatting changes to
Author: bugman
Date: Fri Oct 20 13:57:49 2006
New Revision: 2655
URL: http://svn.gna.org/viewcvs/relax?rev=2655view=rev
Log:
This fixes a bug in the compile re function.
The bug was reported by Alex Hansen at
https://mail.gna.org/public/relax-devel/2006-10/msg00112.html
(Message-id: [EMAIL
Author: bugman
Date: Sun Oct 22 06:18:02 2006
New Revision: 2658
URL: http://svn.gna.org/viewcvs/relax?rev=2658view=rev
Log:
Completion of task #4002 (https://gna.org/task/index.php?4002).
This task was created in response to Daniel Perez's (daniel dot perez at mol
dot biol dot ethz dot
ch)
Author: bugman
Date: Sun Oct 22 11:51:57 2006
New Revision: 2659
URL: http://svn.gna.org/viewcvs/relax?rev=2659view=rev
Log:
Ported r2658 from the 1.2 line.
The command used was:
$ svn merge -r2657:2658 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
These changes complete task #4002
Author: bugman
Date: Mon Oct 23 10:28:26 2006
New Revision: 2661
URL: http://svn.gna.org/viewcvs/relax?rev=2661view=rev
Log:
Ported r2660 from the 1.2 line.
The command used was:
$ svn merge -r2659:2660 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.2
This fixes an error when trying to plot the MC
Author: bugman
Date: Thu Oct 26 07:50:36 2006
New Revision: 2666
URL: http://svn.gna.org/viewcvs/relax?rev=2666view=rev
Log:
Created functions for calculating the center of mass of the selected residues.
The function 'self.center_of_mass()' in the file 'generic_fns/pdb.py' has been
created to
Author: bugman
Date: Thu Oct 26 08:08:47 2006
New Revision: 2667
URL: http://svn.gna.org/viewcvs/relax?rev=2667view=rev
Log:
Creation of a rudimentary PDB file for representing the diffusion tensor.
The new function 'self.write_pdb_file()' has been added which creates a
properly formatted PDB
Author: bugman
Date: Thu Oct 26 09:52:51 2006
New Revision: 2668
URL: http://svn.gna.org/viewcvs/relax?rev=2668view=rev
Log:
Fixed a bug whereby the match re function had not been imported.
Modified:
1.3/generic_fns/pdb.py
Modified: 1.3/generic_fns/pdb.py
URL:
Author: bugman
Date: Sat Nov 25 03:49:40 2006
New Revision: 2884
URL: http://svn.gna.org/viewcvs/relax?rev=2884view=rev
Log:
Fix for bug #7845 (https://gna.org/bugs/?7845).
This bug was reported by Sébastien Morin (https://gna.org/users/semor).
The fix was to increase the precision of the
Author: bugman
Date: Sat Nov 25 03:57:19 2006
New Revision: 2885
URL: http://svn.gna.org/viewcvs/relax?rev=2885view=rev
Log:
Ported r2884 from the 1.3 line to fix bug #7845 (https://gna.org/bugs/?7845).
The command used was:
svn merge -r2883:2884 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
This
Author: bugman
Date: Sat Nov 25 08:09:36 2006
New Revision: 2886
URL: http://svn.gna.org/viewcvs/relax?rev=2886view=rev
Log:
Removed the PDF user manual from the repository.
As the file is a large (2.6 Mb) binary file and changes often, it has been
removed from the
repository. This should stop
Author: bugman
Date: Sat Nov 25 08:14:34 2006
New Revision: 2887
URL: http://svn.gna.org/viewcvs/relax?rev=2887view=rev
Log:
Ported r2886 from the 1.3 line.
The command used was:
svn merge -r2885:2886 svn+ssh://[EMAIL PROTECTED]/svn/relax/1.3
This removes the PDF manual from the repository.
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