r22202 - /trunk/docs/latex/relax.tex
Author: bugman
Date: Wed Feb 19 10:15:16 2014
New Revision: 22202
URL: http://svn.gna.org/viewcvs/relax?rev=22202view=rev
Log:
Improvement to the formatting of the GUI menu item text in the manual.
The text can now have a line break between the items, just after the arrows.
This significantly
improves the paragraph layout in the manual.
Modified:
trunk/docs/latex/relax.tex
Modified: trunk/docs/latex/relax.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/relax.tex?rev=22202r1=22201r2=22202view=diff
==
--- trunk/docs/latex/relax.tex (original)
+++ trunk/docs/latex/relax.tex Wed Feb 19 10:15:16 2014
@@ -89,8 +89,8 @@
\newcommand{\gui}[1]{``{\small \textsf{#1}}''}
\newcommand{\guibutton}[1]{``{\small \textsf{#1}}''}
\newcommand{\guimenuitemone}[1]{``{\small \textsf{#1}}''}
-\newcommand{\guimenuitemtwo}[2]{``{\small \textsf{#1$\to$#2}}''}
-\newcommand{\guimenuitemthree}[3]{``{\small \textsf{#1$\to$#2$\to$#3}}''}
+\newcommand{\guimenuitemtwo}[2]{``{\small \textsf{#1$\to$\linebreak[0]#2}}''}
+\newcommand{\guimenuitemthree}[3]{``{\small
\textsf{#1$\to$\linebreak[0]#2$\to$\linebreak[0]#3}}''}
\newcommand{\guistring}[1]{``{\small \textsf{#1}}''}
\newcommand{\directory}[1]{\texttt{#1}}
\newcommand{\file}[1]{\texttt{#1}}
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r22203 - /trunk/docs/latex/relax.tex
Author: bugman
Date: Wed Feb 19 10:37:18 2014
New Revision: 22203
URL: http://svn.gna.org/viewcvs/relax?rev=22203view=rev
Log:
Created two new LaTeX commands for improving the layout of the relax manual.
These are \ossep and \osus which will be used to format the file and directory
separator character
and the underscore character respectively. They will be used in the \file{}
and \directory{}
commands to add the '/\linebreak[0]' and '\_\linebreak[0]' text to allow for
better line breaking.
Modified:
trunk/docs/latex/relax.tex
Modified: trunk/docs/latex/relax.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/relax.tex?rev=22203r1=22202r2=22203view=diff
==
--- trunk/docs/latex/relax.tex (original)
+++ trunk/docs/latex/relax.tex Wed Feb 19 10:37:18 2014
@@ -95,6 +95,8 @@
\newcommand{\directory}[1]{\texttt{#1}}
\newcommand{\file}[1]{\texttt{#1}}
\newcommand{\module}[1]{\texttt{#1}}
+\newcommand{\ossep}{/\linebreak[0]}
+\newcommand{\osus}{\_\linebreak[0]}
\newcommand{\pycode}[1]{{\small \texttt{#1}}}
\newcommand{\pystring}[1]{`{\small \texttt{#1}}'}
\newcommand{\software}[1]{\texttt{#1}}
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r22204 - /trunk/docs/latex/
Author: bugman Date: Wed Feb 19 11:13:22 2014 New Revision: 22204 URL: http://svn.gna.org/viewcvs/relax?rev=22204view=rev Log: Converted all LaTeX files of the manual to use the new \ossep and \osus commands. This will result in better formatting of the manual by making the linebreaking after '/' and '_' characters consistent and universal. Modified: trunk/docs/latex/citations.tex trunk/docs/latex/consistency_tests.tex trunk/docs/latex/curvefit.tex trunk/docs/latex/develop.tex trunk/docs/latex/dispersion.tex trunk/docs/latex/install.tex trunk/docs/latex/intro.tex trunk/docs/latex/model-free.tex trunk/docs/latex/noe.tex [This mail would be too long, it was shortened to contain the URLs only.] Modified: trunk/docs/latex/citations.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/citations.tex?rev=22204r1=22203r2=22204view=diff Modified: trunk/docs/latex/consistency_tests.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/consistency_tests.tex?rev=22204r1=22203r2=22204view=diff Modified: trunk/docs/latex/curvefit.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/curvefit.tex?rev=22204r1=22203r2=22204view=diff Modified: trunk/docs/latex/develop.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/develop.tex?rev=22204r1=22203r2=22204view=diff Modified: trunk/docs/latex/dispersion.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/dispersion.tex?rev=22204r1=22203r2=22204view=diff Modified: trunk/docs/latex/install.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/install.tex?rev=22204r1=22203r2=22204view=diff Modified: trunk/docs/latex/intro.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/intro.tex?rev=22204r1=22203r2=22204view=diff Modified: trunk/docs/latex/model-free.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/model-free.tex?rev=22204r1=22203r2=22204view=diff Modified: trunk/docs/latex/noe.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/noe.tex?rev=22204r1=22203r2=22204view=diff ___ relax (http://www.nmr-relax.com) This is the relax-commits mailing list relax-commits@gna.org To unsubscribe from this list, get a password reminder, or change your subscription options, visit the list information page at https://mail.gna.org/listinfo/relax-commits
r22205 - /trunk/docs/latex/
Author: bugman
Date: Wed Feb 19 11:53:42 2014
New Revision: 22205
URL: http://svn.gna.org/viewcvs/relax?rev=22205view=rev
Log:
Created two new LaTeX commands for improving the layout of user functions in
the relax manual.
These are \ufsep and \ufus which will be used to format the user function
separator character and
the underscore character respectively. They are used in the \uf{} commands to
add the
'.\linebreak[0]' and '\_\linebreak[0]' text to allow for improved and
consistent line breaking.
Modified:
trunk/docs/latex/consistency_tests.tex
trunk/docs/latex/curvefit.tex
trunk/docs/latex/data_model.tex
trunk/docs/latex/dispersion.tex
trunk/docs/latex/intro.tex
trunk/docs/latex/jw_mapping.tex
trunk/docs/latex/model-free.tex
trunk/docs/latex/noe.tex
trunk/docs/latex/optimisation.tex
trunk/docs/latex/relax.tex
[This mail would be too long, it was shortened to contain the URLs only.]
Modified: trunk/docs/latex/consistency_tests.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/consistency_tests.tex?rev=22205r1=22204r2=22205view=diff
Modified: trunk/docs/latex/curvefit.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/curvefit.tex?rev=22205r1=22204r2=22205view=diff
Modified: trunk/docs/latex/data_model.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/data_model.tex?rev=22205r1=22204r2=22205view=diff
Modified: trunk/docs/latex/dispersion.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/dispersion.tex?rev=22205r1=22204r2=22205view=diff
Modified: trunk/docs/latex/intro.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/intro.tex?rev=22205r1=22204r2=22205view=diff
Modified: trunk/docs/latex/jw_mapping.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/jw_mapping.tex?rev=22205r1=22204r2=22205view=diff
Modified: trunk/docs/latex/model-free.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/model-free.tex?rev=22205r1=22204r2=22205view=diff
Modified: trunk/docs/latex/noe.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/noe.tex?rev=22205r1=22204r2=22205view=diff
Modified: trunk/docs/latex/optimisation.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/optimisation.tex?rev=22205r1=22204r2=22205view=diff
Modified: trunk/docs/latex/relax.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/relax.tex?rev=22205r1=22204r2=22205view=diff
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r22206 - in /trunk/test_suite/unit_tests/_specific_analyses/_relax_disp: ./ __init__.py test___init__.py
Author: bugman Date: Wed Feb 19 13:59:52 2014 New Revision: 22206 URL: http://svn.gna.org/viewcvs/relax?rev=22206view=rev Log: Added the unit test infrastructure for testing the specific_analyses.relax_disp package. This currently includes the package __all__ list unit test. Added: trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/ trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/__init__.py - copied, changed from r22205, trunk/test_suite/unit_tests/_specific_analyses/_model_free/__init__.py trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test___init__.py - copied, changed from r22205, trunk/test_suite/unit_tests/_specific_analyses/_model_free/test___init__.py Copied: trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/__init__.py (from r22205, trunk/test_suite/unit_tests/_specific_analyses/_model_free/__init__.py) URL: http://svn.gna.org/viewcvs/relax/trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/__init__.py?p2=trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/__init__.pyp1=trunk/test_suite/unit_tests/_specific_analyses/_model_free/__init__.pyr1=22205r2=22206rev=22206view=diff == --- trunk/test_suite/unit_tests/_specific_analyses/_model_free/__init__.py (original) +++ trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/__init__.py Wed Feb 19 13:59:52 2014 @@ -1,6 +1,6 @@ ### # # -# Copyright (C) 2008 Edward d'Auvergne# +# Copyright (C) 2008-2014 Edward d'Auvergne # # # # This file is part of the program relax (http://www.nmr-relax.com). # # # Copied: trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test___init__.py (from r22205, trunk/test_suite/unit_tests/_specific_analyses/_model_free/test___init__.py) URL: http://svn.gna.org/viewcvs/relax/trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test___init__.py?p2=trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test___init__.pyp1=trunk/test_suite/unit_tests/_specific_analyses/_model_free/test___init__.pyr1=22205r2=22206rev=22206view=diff == --- trunk/test_suite/unit_tests/_specific_analyses/_model_free/test___init__.py (original) +++ trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test___init__.py Wed Feb 19 13:59:52 2014 @@ -1,6 +1,6 @@ ### # # -# Copyright (C) 2009-2013 Edward d'Auvergne # +# Copyright (C) 2009-2014 Edward d'Auvergne # # # # This file is part of the program relax (http://www.nmr-relax.com). # # # @@ -25,15 +25,15 @@ # relax module imports. from test_suite.unit_tests.package_checking import PackageTestCase -from specific_analyses import model_free +from specific_analyses import relax_disp class Test___init__(PackageTestCase): -Unit tests for the specific_analyses.model_free package. +Unit tests for the specific_analyses.relax_disp package. def setUp(self): Set up for the package checking. -self.package = model_free -self.package_name = 'specific_analyses.model_free' -self.package_path = sys.path[0] + sep + 'specific_analyses' + sep + 'model_free' +self.package = relax_disp +self.package_name = 'specific_analyses.relax_disp' +self.package_path = sys.path[0] + sep + 'specific_analyses' + sep + 'relax_disp' ___ relax (http://www.nmr-relax.com) This is the relax-commits mailing list relax-commits@gna.org To unsubscribe from this list, get a password reminder, or change your subscription options, visit the list information page at https://mail.gna.org/listinfo/relax-commits
r22207 - /trunk/specific_analyses/relax_disp/__init__.py
Author: bugman Date: Wed Feb 19 14:02:56 2014 New Revision: 22207 URL: http://svn.gna.org/viewcvs/relax?rev=22207view=rev Log: Updated the specific_analyses.relax_disp package __all__ list. This was identified in the previously committed unit test. Modified: trunk/specific_analyses/relax_disp/__init__.py Modified: trunk/specific_analyses/relax_disp/__init__.py URL: http://svn.gna.org/viewcvs/relax/trunk/specific_analyses/relax_disp/__init__.py?rev=22207r1=22206r2=22207view=diff == --- trunk/specific_analyses/relax_disp/__init__.py (original) +++ trunk/specific_analyses/relax_disp/__init__.py Wed Feb 19 14:02:56 2014 @@ -1,6 +1,6 @@ ### # # -# Copyright (C) 2004-2013 Edward d'Auvergne # +# Copyright (C) 2004-2014 Edward d'Auvergne # # Copyright (C) 2009 Sebastien Morin # # # # This file is part of the program relax (http://www.nmr-relax.com). # @@ -30,6 +30,9 @@ 'checks', 'cpmgfit', 'disp_data', +'nessy', +'optimisation', 'parameters', +'sherekhan', 'variables' ] ___ relax (http://www.nmr-relax.com) This is the relax-commits mailing list relax-commits@gna.org To unsubscribe from this list, get a password reminder, or change your subscription options, visit the list information page at https://mail.gna.org/listinfo/relax-commits
r22208 - /trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py
Author: bugman
Date: Wed Feb 19 14:09:31 2014
New Revision: 22208
URL: http://svn.gna.org/viewcvs/relax?rev=22208view=rev
Log:
Added the infrastructure for the unit tests of the
specific_analyses.relax_disp.disp_data module.
This is in response to the post
http://thread.gmane.org/gmane.science.nmr.relax.scm/19963/focus=5046
by Troels, and is described in my response at
http://thread.gmane.org/gmane.science.nmr.relax.scm/19963/focus=5048.
Added:
trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py
- copied, changed from r22205,
trunk/test_suite/unit_tests/_specific_analyses/_model_free/test_main.py
Copied:
trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py
(from r22205,
trunk/test_suite/unit_tests/_specific_analyses/_model_free/test_main.py)
URL:
http://svn.gna.org/viewcvs/relax/trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py?p2=trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.pyp1=trunk/test_suite/unit_tests/_specific_analyses/_model_free/test_main.pyr1=22205r2=22208rev=22208view=diff
==
--- trunk/test_suite/unit_tests/_specific_analyses/_model_free/test_main.py
(original)
+++
trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py
Wed Feb 19 14:09:31 2014
@@ -1,6 +1,6 @@
###
# #
-# Copyright (C) 2008-2013 Edward d'Auvergne #
+# Copyright (C) 2008-2014 Edward d'Auvergne #
# #
# This file is part of the program relax (http://www.nmr-relax.com). #
# #
@@ -24,97 +24,17 @@
# relax module imports.
from data_store import Relax_data_store; ds = Relax_data_store()
-from pipe_control import pipes, results, structure
-from lib.errors import RelaxError
-from specific_analyses.model_free import main
+from pipe_control import state
+from specific_analyses.relax_disp.disp_data import
loop_exp_frq_offset_point_time
from status import Status; status = Status()
from test_suite.unit_tests.base_classes import UnitTestCase
-class Test_main(UnitTestCase):
-Unit tests for the class methods of
specific_analyses.model_free.main.Model_free_main.
-
-# Instantiate the class.
-inst = main.Model_free_main()
-
+class Test_disp_data(UnitTestCase):
+Unit tests for the functions of the
specific_analyses.relax_disp.disp_data module.
def setUp(self):
Setup some structures for the unit tests.
-# Create a model-free data pipe.
-ds.add(pipe_name='orig', pipe_type='mf')
-
-
-def test_duplicate_data1(self):
-Test the model-free duplicate_data() method.
-
-# Duplicate the data.
-self.inst.duplicate_data('orig', 'new', model_info=0)
-
-
-def test_duplicate_data2(self):
-Test the model-free duplicate_data() method.
-
-# Read a model-free results file.
-results.read(file='final_results_trunc_1.3_v2',
dir=status.install_path +
sep+'test_suite'+sep+'shared_data'+sep+'model_free'+sep+'OMP')
-
-# Duplicate the data.
-self.inst.duplicate_data('orig', 'new', model_info=0)
-
-
-def test_duplicate_data3(self):
-Test the model-free duplicate_data() method.
-
-# Read a model-free results file.
-results.read(file='final_results_trunc_1.3_v2',
dir=status.install_path +
sep+'test_suite'+sep+'shared_data'+sep+'model_free'+sep+'OMP')
-
-# Load a structure.
-structure.main.read_pdb(file='Ap4Aase_res1-12.pdb',
dir=status.install_path + sep+'test_suite'+sep+'shared_data'+sep+'structures',
read_model=1)
-
-# Duplicate the data.
-self.inst.duplicate_data('orig', 'new', model_info=0)
-
-# Check the original data.
-self.assert_(hasattr(pipes.get_pipe('orig'), 'structure'))
-
-# Check the duplication.
-self.assert_(hasattr(pipes.get_pipe('new'), 'structure'))
-
-
-def test_duplicate_data_single_mf_model(self):
-Test the model-free duplicate_data() method.
-
-# Read a model-free results file.
-results.read(file='final_results_trunc_1.3_v2',
dir=status.install_path +
sep+'test_suite'+sep+'shared_data'+sep+'model_free'+sep+'OMP')
-
-# Load a structure.
-structure.main.read_pdb(file='Ap4Aase_res1-12.pdb',
dir=status.install_path + sep+'test_suite'+sep+'shared_data'+sep+'structures',
read_model=1)
-
-# Duplicate the data, model by model.
-self.inst.duplicate_data('orig', 'new', model_info=0)
-self.inst.duplicate_data('orig', 'new', model_info=1)
-
r22209 - in /trunk/docs/latex: develop.tex dispersion.tex intro.tex model-free.tex relax.tex
Author: bugman
Date: Wed Feb 19 14:27:48 2014
New Revision: 22209
URL: http://svn.gna.org/viewcvs/relax?rev=22209view=rev
Log:
Created two new LaTeX commands for improving the layout of Python code in the
relax manual.
These are \pysep and \pyus which will be used to format the Python module
separator character and
the Python underscore character respectively. They are used in the \module{},
\pycode{}, etc.
commands to add the '.\linebreak[0]' and '\_\linebreak[0]' text to allow for
improved and consistent
line breaking.
Modified:
trunk/docs/latex/develop.tex
trunk/docs/latex/dispersion.tex
trunk/docs/latex/intro.tex
trunk/docs/latex/model-free.tex
trunk/docs/latex/relax.tex
Modified: trunk/docs/latex/develop.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/develop.tex?rev=22209r1=22208r2=22209view=diff
==
--- trunk/docs/latex/develop.tex (original)
+++ trunk/docs/latex/develop.tex Wed Feb 19 14:27:48 2014
@@ -654,7 +654,7 @@
\item[Generic code:] This code includes classes and functions which are
independent of the UI and not specific to a certain data pipe type, for example
not being involved in model-free analysis, relaxation curve-fitting, the NOE
calculation, and reduced spectral density mapping. All this code is located in
the directory \directory{pipe\osus{}control\ossep{}}.
-\item[Specific setup:] This code implements the internal interface between
the generic and specific code. The generic code calls the specific setup
asking for a specific function for the given data pipe type. For example by
asking for the minimise function when the data pipe type is model-free analysis
the model-free specific \module{minimise()} method is returned. Although the
generic code accesses the specific code solely through this interface the
specific code can access the generic code directly. The code is located in the
file \file{specific\osus{}fns\ossep{}specific\osus{}setup.py}.
+\item[Specific setup:] This code implements the internal interface between
the generic and specific code. The generic code calls the specific setup
asking for a specific function for the given data pipe type. For example by
asking for the minimise function when the data pipe type is model-free analysis
the model-free specific \pycode{minimise()} method is returned. Although the
generic code accesses the specific code solely through this interface the
specific code can access the generic code directly. The code is located in the
file \file{specific\osus{}fns\ossep{}specific\osus{}setup.py}.
\item[Specific code:] This is the code which is specific to the data pipe
type -- model-free analysis, relaxation curve-fitting, reduced spectral density
mapping, and the NOE calculation. Each type is located in a separate file in
the directory \directory{specific\osus{}fns\ossep{}}.
Modified: trunk/docs/latex/dispersion.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/dispersion.tex?rev=22209r1=22208r2=22209view=diff
==
--- trunk/docs/latex/dispersion.tex (original)
+++ trunk/docs/latex/dispersion.tex Wed Feb 19 14:27:48 2014
@@ -512,7 +512,7 @@
It is selected by setting the model to `NS CPMG 2-site expanded'.
The simple constraint $\pA \pB$ is used to halve the optimisation space, as
both sides of the limit are mirror image spaces.
-This model will give the same results as the other numerical solutions whereby
$\RtwozeroA = \RtwozeroB$. The following is the set of equations of the
expansion used in relax. It has been modified from the original for speed.
See the \module{lib.dispersion.ns\_cpmg\_2site\_expanded} module for more
details including the original code. Further simplifications can be found in
the code.
+This model will give the same results as the other numerical solutions whereby
$\RtwozeroA = \RtwozeroB$. The following is the set of equations of the
expansion used in relax. It has been modified from the original for speed.
See the
\module{lib\pysep{}dispersion\pysep{}ns\pyus{}cpmg\pyus{}2site\pyus{}expanded}
module for more details including the original code. Further simplifications
can be found in the code.
\begin{subequations}
\renewcommand{\theequation}{\theparentequation .\arabic{equation}}
@@ -2421,7 +2421,7 @@
%~~~
\subsection{Dispersion script mode -- execution}
-Once the data has set up and you have modified your script to match your
analysis needs, then the data pipe, pipe bundle and analysis variables are
passed into the \module{Relax\linebreak[0]{}\_disp} class. This is the final
lines of the script:
+Once the data has set up and you have modified your script to match your
analysis needs, then the data pipe, pipe bundle and analysis variables are
passed into the \module{Relax\pyus{}disp} class. This is the final lines of
the script:
r22210 - /trunk/docs/latex/
Author: bugman Date: Wed Feb 19 15:37:07 2014 New Revision: 22210 URL: http://svn.gna.org/viewcvs/relax?rev=22210view=rev Log: Complete reformatting of the base LaTeX files. The paragraph structure has been changed so that each sentence now starts on a new line. This is for better tracking of changes (via 'svn diff' for example), for better searchability of certain text elements using command line tools such as 'grep', and for easier easier use of the 'sed' tool. The change tracking is most important as it allows for finer granularity - a small change will now only be shown as a change in one sentence rather than the whole paragraph, allowing the change to be identified more easily. It also allows for easier commit maintenance. Modified: trunk/docs/latex/citations.tex trunk/docs/latex/consistency_tests.tex trunk/docs/latex/curvefit.tex trunk/docs/latex/data_model.tex trunk/docs/latex/develop.tex trunk/docs/latex/dispersion.tex trunk/docs/latex/functions.tex trunk/docs/latex/infrastruct.tex trunk/docs/latex/install.tex trunk/docs/latex/intro.tex trunk/docs/latex/jw_mapping.tex trunk/docs/latex/licence.tex trunk/docs/latex/maths.tex trunk/docs/latex/model-free.tex trunk/docs/latex/noe.tex trunk/docs/latex/optimisation.tex [This mail would be too long, it was shortened to contain the URLs only.] Modified: trunk/docs/latex/citations.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/citations.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/consistency_tests.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/consistency_tests.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/curvefit.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/curvefit.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/data_model.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/data_model.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/develop.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/develop.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/dispersion.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/dispersion.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/functions.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/functions.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/infrastruct.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/infrastruct.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/install.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/install.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/intro.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/intro.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/jw_mapping.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/jw_mapping.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/licence.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/licence.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/maths.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/maths.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/model-free.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/model-free.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/noe.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/noe.tex?rev=22210r1=22209r2=22210view=diff Modified: trunk/docs/latex/optimisation.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/optimisation.tex?rev=22210r1=22209r2=22210view=diff ___ relax (http://www.nmr-relax.com) This is the relax-commits mailing list relax-commits@gna.org To unsubscribe from this list, get a password reminder, or change your subscription options, visit the list information page at https://mail.gna.org/listinfo/relax-commits
r22211 - /trunk/docs/latex/
Author: bugman Date: Wed Feb 19 16:43:05 2014 New Revision: 22211 URL: http://svn.gna.org/viewcvs/relax?rev=22211view=rev Log: Reformatting of all of the LaTeX code for the figures in the relax manual. This is related to commit r22210. The aim is to have as many parts as possible on separate lines to allow for better control of changes in the subversion repository and for improved usage of command line tools. Modified: trunk/docs/latex/consistency_tests.tex trunk/docs/latex/curvefit.tex trunk/docs/latex/data_model.tex trunk/docs/latex/develop.tex trunk/docs/latex/dispersion.tex trunk/docs/latex/intro.tex trunk/docs/latex/maths.tex trunk/docs/latex/model-free.tex trunk/docs/latex/noe.tex trunk/docs/latex/relax.tex [This mail would be too long, it was shortened to contain the URLs only.] Modified: trunk/docs/latex/consistency_tests.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/consistency_tests.tex?rev=22211r1=22210r2=22211view=diff Modified: trunk/docs/latex/curvefit.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/curvefit.tex?rev=22211r1=22210r2=22211view=diff Modified: trunk/docs/latex/data_model.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/data_model.tex?rev=22211r1=22210r2=22211view=diff Modified: trunk/docs/latex/develop.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/develop.tex?rev=22211r1=22210r2=22211view=diff Modified: trunk/docs/latex/dispersion.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/dispersion.tex?rev=22211r1=22210r2=22211view=diff Modified: trunk/docs/latex/intro.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/intro.tex?rev=22211r1=22210r2=22211view=diff Modified: trunk/docs/latex/maths.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/maths.tex?rev=22211r1=22210r2=22211view=diff Modified: trunk/docs/latex/model-free.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/model-free.tex?rev=22211r1=22210r2=22211view=diff Modified: trunk/docs/latex/noe.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/noe.tex?rev=22211r1=22210r2=22211view=diff Modified: trunk/docs/latex/relax.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/relax.tex?rev=22211r1=22210r2=22211view=diff ___ relax (http://www.nmr-relax.com) This is the relax-commits mailing list relax-commits@gna.org To unsubscribe from this list, get a password reminder, or change your subscription options, visit the list information page at https://mail.gna.org/listinfo/relax-commits
r22212 - /trunk/docs/latex/
Author: bugman Date: Wed Feb 19 17:09:37 2014 New Revision: 22212 URL: http://svn.gna.org/viewcvs/relax?rev=22212view=rev Log: Reformatting of all of the LaTeX code for the itemize and description lists in the relax manual. This is to regularise the LaTeX code throughout the *.tex files of the manual. All items are now indented for easier viewing. And leading empty lines before the lists have all been removed. Modified: trunk/docs/latex/citations.tex trunk/docs/latex/consistency_tests.tex trunk/docs/latex/curvefit.tex trunk/docs/latex/data_model.tex trunk/docs/latex/develop.tex trunk/docs/latex/dispersion.tex trunk/docs/latex/fetch_docstrings.py trunk/docs/latex/install.tex trunk/docs/latex/intro.tex trunk/docs/latex/model-free.tex trunk/docs/latex/optimisation.tex trunk/docs/latex/relax.tex [This mail would be too long, it was shortened to contain the URLs only.] Modified: trunk/docs/latex/citations.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/citations.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/consistency_tests.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/consistency_tests.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/curvefit.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/curvefit.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/data_model.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/data_model.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/develop.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/develop.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/dispersion.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/dispersion.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/fetch_docstrings.py URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/fetch_docstrings.py?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/install.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/install.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/intro.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/intro.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/model-free.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/model-free.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/optimisation.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/optimisation.tex?rev=22212r1=22211r2=22212view=diff Modified: trunk/docs/latex/relax.tex URL: http://svn.gna.org/viewcvs/relax/trunk/docs/latex/relax.tex?rev=22212r1=22211r2=22212view=diff ___ relax (http://www.nmr-relax.com) This is the relax-commits mailing list relax-commits@gna.org To unsubscribe from this list, get a password reminder, or change your subscription options, visit the list information page at https://mail.gna.org/listinfo/relax-commits
r22213 - /trunk/docs/latex/fetch_docstrings.py
Author: bugman
Date: Wed Feb 19 17:20:58 2014
New Revision: 22213
URL: http://svn.gna.org/viewcvs/relax?rev=22213view=rev
Log:
The docstring fetching script for the manual now formats lists as in commit
r22212.
Modified:
trunk/docs/latex/fetch_docstrings.py
Modified: trunk/docs/latex/fetch_docstrings.py
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/fetch_docstrings.py?rev=22213r1=22212r2=22213view=diff
==
--- trunk/docs/latex/fetch_docstrings.py (original)
+++ trunk/docs/latex/fetch_docstrings.py Wed Feb 19 17:20:58 2014
@@ -975,7 +975,7 @@
item = self.word_formatting(item)
# Write to file.
-self.file.write(\\item[]%s\n % item)
+self.file.write( \\item[]%s\n % item)
# End the environment.
self.file.write(\\end{itemize}\n\n)
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r22214 - /trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py
Author: tlinnet
Date: Wed Feb 19 17:23:35 2014
New Revision: 22214
URL: http://svn.gna.org/viewcvs/relax?rev=22214view=rev
Log:
Implemented unit test for catching the correct return of
loop_exp_frq_offset_point_time.
Regarding bug #21665, (https://gna.org/bugs/?21665) - Running a CPMG analysis
with two fields at two delay times.
Modified:
trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py
Modified:
trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py
URL:
http://svn.gna.org/viewcvs/relax/trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py?rev=22214r1=22213r2=22214view=diff
==
---
trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py
(original)
+++
trunk/test_suite/unit_tests/_specific_analyses/_relax_disp/test_disp_data.py
Wed Feb 19 17:23:35 2014
@@ -38,3 +38,31 @@
# Create a dispersion data pipe.
ds.add(pipe_name='orig', pipe_type='relax_disp')
+
+
+def test_bug_21665_cpmg_two_fields_two_delaytimes_fail_calc(self):
+U{Bug #21665https://gna.org/bugs/?21665} catch, the failure due
to a a CPMG analysis recorded at two fields at two delay times, using calc().
+
+# Load the state.
+statefile = status.install_path +
sep+'test_suite'+sep+'shared_data'+sep+'dispersion'+sep+'bug_21665.bz2'
+state.load_state(statefile, force=True)
+
+# Original data
+ncyc_1 = [20, 16, 10, 36, 2, 12, 4, 22, 18, 40, 14, 26, 8, 32, 24, 6,
28]
+sfrq_1 = 499.86214*1E6
+time_T2_1 = 0.04
+cpmg_1 = [ncyc/time_T2_1 for ncyc in ncyc_1]
+cpmg_1.sort()
+
+ncyc_2 = [28, 4, 32, 60, 2, 10, 16, 8, 20, 52, 18, 40, 6, 12, 24, 14]
+sfrq_2 = 599.8908587*1E6
+time_T2_2 = 0.06
+cpmg_2 = [ncyc/time_T2_2 for ncyc in ncyc_2]
+cpmg_2.sort()
+
+# Test the loop function.
+for exp_type, frq, offset, point, time, ei, mi, oi, di, ti in
loop_exp_frq_offset_point_time(return_indices=True):
+if frq == sfrq_1:
+self.assertEqual(time, time_T2_1)
+if frq == sfrq_2:
+self.assertEqual(time, time_T2_2)
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r22215 - in /trunk: docs/latex/develop.tex user_functions/bmrb.py
Author: bugman
Date: Wed Feb 19 17:25:39 2014
New Revision: 22215
URL: http://svn.gna.org/viewcvs/relax?rev=22215view=rev
Log:
Grammar corrections - changed the 'eg.' abbreviation to 'e.g.' in a couple of
places.
Modified:
trunk/docs/latex/develop.tex
trunk/user_functions/bmrb.py
Modified: trunk/docs/latex/develop.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/develop.tex?rev=22215r1=22214r2=22215view=diff
==
--- trunk/docs/latex/develop.tex (original)
+++ trunk/docs/latex/develop.tex Wed Feb 19 17:25:39 2014
@@ -140,7 +140,7 @@
% Variable, function, and class names.
\subsection{Variable, function, and class names}
-In relax a mixture of both camel case (eg. CamelCase)\index{camel case} and
lower case with underscores is used.
+In relax a mixture of both camel case (e.g. CamelCase)\index{camel case} and
lower case with underscores is used.
Despite the variability there are fixed rules which should be adhered to.
These naming conventions should be observed at all times.
Modified: trunk/user_functions/bmrb.py
URL:
http://svn.gna.org/viewcvs/relax/trunk/user_functions/bmrb.py?rev=22215r1=22214r2=22215view=diff
==
--- trunk/user_functions/bmrb.py (original)
+++ trunk/user_functions/bmrb.py Wed Feb 19 17:25:39 2014
@@ -1,6 +1,6 @@
###
# #
-# Copyright (C) 2003-2013 Edward d'Auvergne #
+# Copyright (C) 2003-2014 Edward d'Auvergne #
# #
# This file is part of the program relax (http://www.nmr-relax.com). #
# #
@@ -430,7 +430,7 @@
# Description.
uf.desc.append(Desc_container())
uf.desc[-1].add_paragraph(This user function allows the software used in the
analysis to be specified in full detail.)
-uf.desc[-1].add_paragraph(For the tasks list, this should be a python list of
strings (eg. ['spectral processing']). Although not restricted to these, the
values suggested by the BMRB are:)
+uf.desc[-1].add_paragraph(For the tasks list, this should be a python list of
strings (e.g. ['spectral processing']). Although not restricted to these, the
values suggested by the BMRB are:)
uf.desc[-1].add_list_element('chemical shift assignment',)
uf.desc[-1].add_list_element('chemical shift calculation',)
uf.desc[-1].add_list_element('collection',)
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r22217 - in /trunk: docs/latex/ graphics/screenshots/dispersion_analysis/
Author: bugman
Date: Wed Feb 19 17:58:23 2014
New Revision: 22217
URL: http://svn.gna.org/viewcvs/relax?rev=22217view=rev
Log:
Added more to the dispersion GUI analysis tutorial.
This includes a screenshot showing the use of the 'Spin isotope' button in the
GUI. Descriptions
for all five 'metadata' buttons have been added as well.
Added:
trunk/graphics/screenshots/dispersion_analysis/spin_isotope.eps.gz (with
props)
trunk/graphics/screenshots/dispersion_analysis/spin_isotope.png (with
props)
Modified:
trunk/docs/latex/dispersion.tex
Modified: trunk/docs/latex/dispersion.tex
URL:
http://svn.gna.org/viewcvs/relax/trunk/docs/latex/dispersion.tex?rev=22217r1=22216r2=22217view=diff
==
--- trunk/docs/latex/dispersion.tex (original)
+++ trunk/docs/latex/dispersion.tex Wed Feb 19 17:58:23 2014
@@ -2574,7 +2574,7 @@
\newpage
\section{The relaxation dispersion auto-analysis in the GUI}
-The following demonstration of the relaxation dispersion analysis in the
graphical user interface (GUI) uses the experimental data from Flemming Hansen
located in the relax directory
\directory{test\osus{}suite\ossep{}shared\osus{}data\ossep{}dispersion\ossep{}Hansen}.
+The following demonstration of the relaxation dispersion analysis in the
graphical user interface (GUI) uses the experimental single quantum (SQ)
CPMG-type data from Flemming Hansen located in the relax directory
\directory{test\osus{}suite\ossep{}shared\osus{}data\ossep{}dispersion\ossep{}Hansen}.
This is the data from the paper:
\begin{itemize}
\item \bibentry{Hansen08}
@@ -2703,3 +2703,34 @@
Now all spins from these two files will be deselected and skipped in the
analysis.
+% Metadata setup.
+%
+
+\subsection{Dispersion GUI mode -- metadata setup}
+
+The next step is to set up the metadata for the analysis.
+This is performed by clicking on the buttons between the \gui{Spin cluster ID}
and \gui{Spectra list} GUI elements.
+The buttons are as follows:
+\begin{description}
+ \item[Spin isotope:] This is needed to specify the spin isotope information
for each spin in the system, for example if the data is from $^{15}$N,
$^{13}$C, $^1$H, etc.
+ \item[$\Rone$ relaxation data:] This is used to load a text file containing
$\Rone$ relaxation data for each spin of interest.
+The button launches the \uf{relax\_data.read} user function (see
section~\ref{uf: relax_data.read} on page~\pageref{uf: relax_data.read}).
+It is currently only used for properly handling off-resonance effects in
the $\Ronerho$-type dispersion data.
+ \item[Chemical shift:] Again this is for properly handling off-resonance
effects in the $\Ronerho$-type dispersion data.
+The button launches the \uf{chemical\_shift.read} user function (see
section~\ref{uf: chemical_shift.read} on page~\pageref{uf:
chemical_shift.read}).
+ \item[Interatomic interaction:] This button launches the
\uf{interatom.define} user function (see section~\ref{uf: interatom.define} on
page~\pageref{uf: interatom.define}).
+This is needed to link, for example, $^1$H to $^{15}$N spins into a spin
system so that MMQ-type data, which relies on a multiple-spin system, can be
handled.
+ \item[Value setting:] When one of the parameters of the dispersion model is
already known, its value can be set by clicking on this button which launches
the \uf{value.set} user function (see section~\ref{uf: value.set} on
page~\pageref{uf: value.set}).
+Setting a parameter value will fix the parameter in the initial grid
search.
+However it will be free to vary in the non-linear least squares
optimisation to refine its value.
+\end{description}
+
+For SQ CPMG-type dispersion data, only the spin isotope information is
required.
+
+\begin{minipage}[h]{\linewidth}
+\centerline{\includegraphics[width=0.8\textwidth, bb=14 14 1065
802]{graphics/screenshots/dispersion_analysis/spin_isotope}}
+\end{minipage}
+
+In this case, all spins are $^{15}$N so simply leave the values to the
defaults and click on \guibutton{OK}.
+The other buttons can be ignored.
+
Added: trunk/graphics/screenshots/dispersion_analysis/spin_isotope.eps.gz
URL:
http://svn.gna.org/viewcvs/relax/trunk/graphics/screenshots/dispersion_analysis/spin_isotope.eps.gz?rev=22217view=auto
==
Binary file - no diff available.
Propchange: trunk/graphics/screenshots/dispersion_analysis/spin_isotope.eps.gz
--
svn:mime-type = application/octet-stream
Added: trunk/graphics/screenshots/dispersion_analysis/spin_isotope.png
URL:
http://svn.gna.org/viewcvs/relax/trunk/graphics/screenshots/dispersion_analysis/spin_isotope.png?rev=22217view=auto
==
Binary file - no diff available.
Propchange:
r22218 - in /branches/double_rotor: ./ docs/latex/ graphics/screenshots/dispersion_analysis/ gui/ specific_analyses/relax_di...
Author: bugman
Date: Wed Feb 19 18:01:13 2014
New Revision: 22218
URL: http://svn.gna.org/viewcvs/relax?rev=22218view=rev
Log:
Merged revisions 22196-22217 via svnmerge from
svn+ssh://bug...@svn.gna.org/svn/relax/trunk
r22196 | bugman | 2014-02-17 17:59:18 +0100 (Mon, 17 Feb 2014) | 3 lines
Updated the copyright statement shown in the GUI for 2014.
r22197 | tlinnet | 2014-02-18 12:05:54 +0100 (Tue, 18 Feb 2014) | 3 lines
Save state added for bug #21665.
Regarding bug #21665, (https://gna.org/bugs/?21665) - Running a CPMG analysis
with two fields at two delay times.
r22198 | tlinnet | 2014-02-18 12:19:41 +0100 (Tue, 18 Feb 2014) | 3 lines
Added systemtest to catch bug: relax -s
Relax_disp.test_bug_21665_cpmg_two_fields_two_delaytimes_fail
Regarding bug #21665, (https://gna.org/bugs/?21665) - Running a CPMG analysis
with two fields at two delay times.
r22199 | tlinnet | 2014-02-18 15:26:45 +0100 (Tue, 18 Feb 2014) | 3 lines
Added a systemtest for using both calc() and a systemtest for relax_disp auto
analysis.
Regarding bug #21665, (https://gna.org/bugs/?21665) - Running a CPMG analysis
with two fields at two delay times.
r22200 | bugman | 2014-02-18 18:55:33 +0100 (Tue, 18 Feb 2014) | 6 lines
Added some initial screenshots of the dispersion GUI analysis.
These will be used to create a tutorial for using the relaxation dispersion
analysis in the GUI to
be added to the dispersion chapter of the relax manual.
r22201 | bugman | 2014-02-18 19:07:44 +0100 (Tue, 18 Feb 2014) | 6 lines
Started to create the tutorial in the manual for using the dispersion GUI.
This is at the end of the relaxation dispersion chapter of the manual and
covers the basic setup of
spin systems. It includes the recently added screenshots.
r22202 | bugman | 2014-02-19 10:15:16 +0100 (Wed, 19 Feb 2014) | 6 lines
Improvement to the formatting of the GUI menu item text in the manual.
The text can now have a line break between the items, just after the arrows.
This significantly
improves the paragraph layout in the manual.
r22203 | bugman | 2014-02-19 10:37:18 +0100 (Wed, 19 Feb 2014) | 7 lines
Created two new LaTeX commands for improving the layout of the relax manual.
These are \ossep and \osus which will be used to format the file and
directory separator character
and the underscore character respectively. They will be used in the \file{}
and \directory{}
commands to add the '/\linebreak[0]' and '\_\linebreak[0]' text to allow for
better line breaking.
r22204 | bugman | 2014-02-19 11:13:22 +0100 (Wed, 19 Feb 2014) | 6 lines
Converted all LaTeX files of the manual to use the new \ossep and \osus
commands.
This will result in better formatting of the manual by making the
linebreaking after '/' and '_'
characters consistent and universal.
r22205 | bugman | 2014-02-19 11:53:42 +0100 (Wed, 19 Feb 2014) | 7 lines
Created two new LaTeX commands for improving the layout of user functions in
the relax manual.
These are \ufsep and \ufus which will be used to format the user function
separator character and
the underscore character respectively. They are used in the \uf{} commands
to add the
'.\linebreak[0]' and '\_\linebreak[0]' text to allow for improved and
consistent line breaking.
r22206 | bugman | 2014-02-19 13:59:52 +0100 (Wed, 19 Feb 2014) | 5 lines
Added the unit test infrastructure for testing the
specific_analyses.relax_disp package.
This currently includes the package __all__ list unit test.
r22207 | bugman | 2014-02-19 14:02:56 +0100 (Wed, 19 Feb 2014) | 5 lines
Updated the specific_analyses.relax_disp package __all__ list.
This was identified in the previously committed unit test.
r22208 | bugman | 2014-02-19 14:09:31 +0100 (Wed, 19 Feb 2014) | 7 lines
Added the infrastructure for the unit tests of the
specific_analyses.relax_disp.disp_data module.
This is in response to the post
http://thread.gmane.org/gmane.science.nmr.relax.scm/19963/focus=5046
by Troels, and is described in my response at
http://thread.gmane.org/gmane.science.nmr.relax.scm/19963/focus=5048.
r22209 | bugman | 2014-02-19 14:27:48 +0100 (Wed, 19 Feb 2014) | 8 lines
Created two new LaTeX commands for improving the layout of Python code in the
relax manual.
These are \pysep and \pyus which will be used to format the Python module
separator character and
the Python underscore character respectively. They are used in the
\module{}, \pycode{}, etc.
commands to add the '.\linebreak[0]' and '\_\linebreak[0]' text to allow for
improved and consistent
line breaking.
r22210 | bugman | 2014-02-19 15:37:07 +0100 (Wed, 19 Feb 2014) | 10 lines
Complete reformatting of the base LaTeX files.
The paragraph structure has been
