Author: bugman
Date: Thu Mar 15 20:32:16 2012
New Revision: 15494
URL: http://svn.gna.org/viewcvs/relax?rev=15494&view=rev
Log:
Changed all the http://nmr-relax.com links to http://www.nmr-relax.com.
This is to possibly help with search engine indexing of the website.
Modified:
1.3/data/__init__.py
1.3/docs/Release_Checklist
1.3/docs/latex/develop.tex
1.3/docs/latex/infrastruct.tex
1.3/docs/latex/relax.tex
1.3/generic_fns/exp_info.py
1.3/info.py
1.3/sample_scripts/model_free/dauvergne_protocol.py
1.3/scons/manuals.py
1.3/test_suite/system_tests/scripts/bmrb_rw.py
1.3/test_suite/system_tests/scripts/model_free/dauvergne_protocol.py
1.3/test_suite/system_tests/scripts/model_free/full_analysis_trunc.py
Modified: 1.3/data/__init__.py
URL:
http://svn.gna.org/viewcvs/relax/1.3/data/__init__.py?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/data/__init__.py (original)
+++ 1.3/data/__init__.py Thu Mar 15 20:32:16 2012
@@ -380,7 +380,7 @@
xmldoc = xml.dom.minidom.Document()
# Create the top level element, including the relax URL.
- top_element = xmldoc.createElementNS('http://nmr-relax.com', 'relax')
+ top_element = xmldoc.createElementNS('http://www.nmr-relax.com',
'relax')
# Append the element.
xmldoc.appendChild(top_element)
Modified: 1.3/docs/Release_Checklist
URL:
http://svn.gna.org/viewcvs/relax/1.3/docs/Release_Checklist?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/docs/Release_Checklist (original)
+++ 1.3/docs/Release_Checklist Thu Mar 15 20:32:16 2012
@@ -91,7 +91,7 @@
-* Modify the http://nmr-relax.com download page to point to the newest
version of relax. Update the MD5 checksums and file sizes on the download
page. Commit the updates.
+* Modify the http://www.nmr-relax.com download page to point to the newest
version of relax. Update the MD5 checksums and file sizes on the download
page. Commit the updates.
@@ -99,7 +99,7 @@
$ scons user_manual_html
-Replace the old manual with the new in the http://nmr-relax.com SVN
repository (http://svn.gna.org/viewcvs/relax/website) and commit the new
manual.
+Replace the old manual with the new in the http://www.nmr-relax.com SVN
repository (http://svn.gna.org/viewcvs/relax/website) and commit the new
manual.
@@ -107,7 +107,7 @@
$ scons api_manual_html
-Replace the old API documentation in the http://nmr-relax.com SVN repository
(http://svn.gna.org/viewcvs/relax/website) and commit the new files.
+Replace the old API documentation in the http://www.nmr-relax.com SVN
repository (http://svn.gna.org/viewcvs/relax/website) and commit the new
files.
Modified: 1.3/docs/latex/develop.tex
URL:
http://svn.gna.org/viewcvs/relax/1.3/docs/latex/develop.tex?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/docs/latex/develop.tex (original)
+++ 1.3/docs/latex/develop.tex Thu Mar 15 20:32:16 2012
@@ -37,7 +37,7 @@
\section{Coding conventions}
-The following conventions should be followed at all times for any code to be
accepted into the relax repository. A Python script which tests if code
meets relax's coding conventions can be downloaded from
\href{http://nmr-relax.com/scripts/code\_validator}{http://nmr-relax.com/scripts/code\_validator}.
The main reason for these conventions is for readability. By using a
consistent coding style and a high comment ratio, the code becomes much
easier to read for non-coders and those new to Python. It significantly
decreases the barrier of entry into the relax source code for NMR
spectroscopists.
+The following conventions should be followed at all times for any code to be
accepted into the relax repository. A Python script which tests if code
meets relax's coding conventions can be downloaded from
\href{http://www.nmr-relax.com/scripts/code\_validator}{http://www.nmr-relax.com/scripts/code\_validator}.
The main reason for these conventions is for readability. By using a
consistent coding style and a high comment ratio, the code becomes much
easier to read for non-coders and those new to Python. It significantly
decreases the barrier of entry into the relax source code for NMR
spectroscopists.
@@ -254,7 +254,7 @@
% Comments.
\subsection{Comments}
-Comments are a very important component within relax. In the current source
code the percentage of comment lines relative to lines of code ranges from
15\% to over 30\% for different files. The average comment density would be
close to 25\%. The purpose of having so many comment lines, much more than
you would expect from source code, is so that the relax's code is fully self
documented. It allows someone who is not familiar with the codebase to read
the code and quickly understand what is happening. It simplifies the process
of learning and allows NMR spectroscopists who are not coders to dive into
the code. If writing code for relax, please attempt to maintain the
tradition by aiming towards a 25\% comment ratio. The comment should be
descriptive of what the code below it is supposed to do. Most importantly
the comment explains why that code exists. The script
\href{http://nmr-relax.com/scripts/code\_validator}{http://nmr-relax.com/scripts/code\_validator}
can be used to check the comment density.
+Comments are a very important component within relax. In the current source
code the percentage of comment lines relative to lines of code ranges from
15\% to over 30\% for different files. The average comment density would be
close to 25\%. The purpose of having so many comment lines, much more than
you would expect from source code, is so that the relax's code is fully self
documented. It allows someone who is not familiar with the codebase to read
the code and quickly understand what is happening. It simplifies the process
of learning and allows NMR spectroscopists who are not coders to dive into
the code. If writing code for relax, please attempt to maintain the
tradition by aiming towards a 25\% comment ratio. The comment should be
descriptive of what the code below it is supposed to do. Most importantly
the comment explains why that code exists. The script
\href{http://www.nmr-relax.com/scripts/code\_validator}{http://www.nmr-relax.com/scripts/code\_validator}
can be used to check the comment density.
@@ -763,5 +763,5 @@
% Search engine indexing.
\subsection{Search engine indexing}
-Having a large web of links across relax's infrastructure aids in the search
engine indexing of the mailing list archives and the
\href{http://nmr-relax.com}{http://nmr-relax.com} web site. The web of links
is useful for catching those Google bots. That way the Google searching of
the mailing list archives located on the
\href{http://nmr-relax.com/communication.html}{communication web page} will
be more up to date. However to increase the search engine ranking of the web
site, links to \href{http://nmr-relax.com}{http://nmr-relax.com} from
external sites is required. This is one reason why relax is a registered
\href{http://freshmeat.net/projects/nmr-relax}{freshmeat} project.
-
+Having a large web of links across relax's infrastructure aids in the search
engine indexing of the mailing list archives and the
\href{http://www.nmr-relax.com}{http://www.nmr-relax.com} web site. The web
of links is useful for catching those Google bots. That way the Google
searching of the mailing list archives located on the
\href{http://www.nmr-relax.com/communication.html}{communication web page}
will be more up to date. However to increase the search engine ranking of
the web site, links to
\href{http://www.nmr-relax.com}{http://www.nmr-relax.com} from external sites
is required. This is one reason why relax is a registered
\href{http://freshmeat.net/projects/nmr-relax}{freshmeat} project.
+
Modified: 1.3/docs/latex/infrastruct.tex
URL:
http://svn.gna.org/viewcvs/relax/1.3/docs/latex/infrastruct.tex?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/docs/latex/infrastruct.tex (original)
+++ 1.3/docs/latex/infrastruct.tex Thu Mar 15 20:32:16 2012
@@ -11,7 +11,7 @@
\section{The relax web sites}
\index{web site|textbf}
-The main web site for relax is
\href{http://nmr-relax.com}{http://nmr-relax.com}. From these pages general
information about the program, links to the latest documentation, links to
the most current software releases, and information about the mailing
lists\index{mailing list} are available. There are also Google\index{Google}
search capabilities built into the pages for searching both the HTML
version\index{manual!HTML} of the manual and the archives of the mailing
lists\index{mailing list!archive}.
+The main web site for relax is
\href{http://www.nmr-relax.com}{http://www.nmr-relax.com}. From these pages
general information about the program, links to the latest documentation,
links to the most current software releases, and information about the
mailing lists\index{mailing list} are available. There are also
Google\index{Google} search capabilities built into the pages for searching
both the HTML version\index{manual!HTML} of the manual and the archives of
the mailing lists\index{mailing list!archive}.
The relax web site is hosted by the Gna!\ project\index{Gna}
(\href{https://gna.org/}{https://gna.org/}) which is described as ``a central
point for development, distribution and maintenance of Libre Software (Free
Software) projects''. relax is a registered Gna!\ project and its primary
Gna!\ web site is
\href{https://gna.org/projects/relax}{https://gna.org/projects/relax}. This
site contains many more technical details than the main web site.
Modified: 1.3/docs/latex/relax.tex
URL:
http://svn.gna.org/viewcvs/relax/1.3/docs/latex/relax.tex?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/docs/latex/relax.tex (original)
+++ 1.3/docs/latex/relax.tex Thu Mar 15 20:32:16 2012
@@ -76,7 +76,7 @@
% latex2html stuff.
\usepackage{html}
-\htmladdtonavigation{\htmladdnormallink{\htmladdimg{http://nmr-relax.com/images/relax_logo_nav.png}}{http://nmr-relax.com}}
+\htmladdtonavigation{\htmladdnormallink{\htmladdimg{http://www.nmr-relax.com/images/relax_logo_nav.png}}{http://www.nmr-relax.com}}
% Make the index.
\makeindex
Modified: 1.3/generic_fns/exp_info.py
URL:
http://svn.gna.org/viewcvs/relax/1.3/generic_fns/exp_info.py?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/generic_fns/exp_info.py (original)
+++ 1.3/generic_fns/exp_info.py Thu Mar 15 20:32:16 2012
@@ -50,7 +50,7 @@
SOFTWARE['relax'] = Software_store()
SOFTWARE['relax'].name = "relax"
SOFTWARE['relax'].authors = "The relax development team"
-SOFTWARE['relax'].url = "http://nmr-relax.com";
+SOFTWARE['relax'].url = "http://www.nmr-relax.com";
SOFTWARE['relax'].tasks = ["data processing"]
# NMRPipe software and citation.
Modified: 1.3/info.py
URL:
http://svn.gna.org/viewcvs/relax/1.3/info.py?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/info.py (original)
+++ 1.3/info.py Thu Mar 15 20:32:16 2012
@@ -62,7 +62,7 @@
self.version = version
# The relax website.
- self.website = "http://nmr-relax.com";
+ self.website = "http://www.nmr-relax.com";
# Program description.
self.desc = "Molecular dynamics by NMR data analysis"
Modified: 1.3/sample_scripts/model_free/dauvergne_protocol.py
URL:
http://svn.gna.org/viewcvs/relax/1.3/sample_scripts/model_free/dauvergne_protocol.py?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/sample_scripts/model_free/dauvergne_protocol.py (original)
+++ 1.3/sample_scripts/model_free/dauvergne_protocol.py Thu Mar 15 20:32:16
2012
@@ -24,7 +24,7 @@
This script is designed for those who appreciate black-boxes or those who
appreciate complex code. Importantly data at multiple magnetic field
strengths is essential for this analysis. The script will need to be heavily
tailored to the molecule in question by changing the variables just below
this documentation. If you would like to change how model-free analysis is
performed, the code in the class Main can be changed as needed. For a
description of object-oriented coding in python using classes,
functions/methods, self, etc., see the python tutorial.
-If you have obtained this script without the program relax, please visit
http://nmr-relax.com.
+If you have obtained this script without the program relax, please visit
http://www.nmr-relax.com.
References
Modified: 1.3/scons/manuals.py
URL:
http://svn.gna.org/viewcvs/relax/1.3/scons/manuals.py?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/scons/manuals.py (original)
+++ 1.3/scons/manuals.py Thu Mar 15 20:32:16 2012
@@ -128,13 +128,13 @@
# url
# The documented project's URL.
- url = 'http://nmr-relax.com'
+ url = 'http://www.nmr-relax.com'
# link
# HTML code for the project link in the navigation bar. If left
# unspecified, the project link will be generated based on the
# project's name and URL.
- #link = '<a href="http://nmr-relax.com";>relax</a>'
+ #link = '<a href="http://www.nmr-relax.com";>relax</a>'
# top
# The "top" page for the documentation. Can be a URL, the name
Modified: 1.3/test_suite/system_tests/scripts/bmrb_rw.py
URL:
http://svn.gna.org/viewcvs/relax/1.3/test_suite/system_tests/scripts/bmrb_rw.py?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/test_suite/system_tests/scripts/bmrb_rw.py (original)
+++ 1.3/test_suite/system_tests/scripts/bmrb_rw.py Thu Mar 15 20:32:16 2012
@@ -49,7 +49,7 @@
bmrb.software_select('NMRPipe')
bmrb.software_select('Sparky', version='3.106')
bmrb.citation(cite_id='test', authors=[["Edward", "d'Auvergne", "E.", "J."],
["Paul", "Gooley", "P.", "R."]], doi="10.1039/b702202f",
pubmed_id="17579774", full_citation="d'Auvergne E. J., Gooley P. R. (2007).
Set theory formulation of the model-free problem and the diffusion seeded
model-free paradigm. Mol. Biosyst., 3(7), 483-494.", title="Set theory
formulation of the model-free problem and the diffusion seeded model-free
paradigm.", status="published", type="journal", journal_abbrev="Mol.
Biosyst.", journal_full="Molecular Biosystems", volume=3, issue=7,
page_first=483, page_last=498, year=2007)
-bmrb.software(name='X', url='http://nmr-relax.com', vendor_name='me',
cite_ids=['test'], tasks=['procrastinating', 'nothing much', 'wasting time'])
+bmrb.software(name='X', url='http://www.nmr-relax.com', vendor_name='me',
cite_ids=['test'], tasks=['procrastinating', 'nothing much', 'wasting time'])
bmrb.script(file='noe.py', dir=status.install_path+sep+'sample_scripts',
analysis_type='noe', engine='relax')
bmrb.script(file='relax_fit.py',
dir=status.install_path+sep+'sample_scripts', analysis_type='relax_fit',
engine='relax')
bmrb.script(file='dauvergne_protocol.py',
dir=status.install_path+sep+'sample_scripts'+sep+'model_free',
analysis_type='mf', model_selection='AIC', engine='relax', model_elim=True,
universal_solution=True)
Modified: 1.3/test_suite/system_tests/scripts/model_free/dauvergne_protocol.py
URL:
http://svn.gna.org/viewcvs/relax/1.3/test_suite/system_tests/scripts/model_free/dauvergne_protocol.py?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/test_suite/system_tests/scripts/model_free/dauvergne_protocol.py
(original)
+++ 1.3/test_suite/system_tests/scripts/model_free/dauvergne_protocol.py Thu
Mar 15 20:32:16 2012
@@ -24,7 +24,7 @@
This script is designed for those who appreciate black-boxes or those who
appreciate complex code. Importantly data at multiple magnetic field
strengths is essential for this analysis. The script will need to be heavily
tailored to the molecule in question by changing the variables just below
this documentation. If you would like to change how model-free analysis is
performed, the code in the class Main can be changed as needed. For a
description of object-oriented coding in python using classes,
functions/methods, self, etc., see the python tutorial.
-If you have obtained this script without the program relax, please visit
http://nmr-relax.com.
+If you have obtained this script without the program relax, please visit
http://www.nmr-relax.com.
References
Modified:
1.3/test_suite/system_tests/scripts/model_free/full_analysis_trunc.py
URL:
http://svn.gna.org/viewcvs/relax/1.3/test_suite/system_tests/scripts/model_free/full_analysis_trunc.py?rev=15494&r1=15493&r2=15494&view=diff
==============================================================================
--- 1.3/test_suite/system_tests/scripts/model_free/full_analysis_trunc.py
(original)
+++ 1.3/test_suite/system_tests/scripts/model_free/full_analysis_trunc.py Thu
Mar 15 20:32:16 2012
@@ -24,7 +24,7 @@
This script is designed for those who appreciate black-boxes or those who
appreciate complex code. Importantly data at multiple magnetic field
strengths is essential for this analysis. The script will need to be heavily
tailored to the molecule in question by changing the variables just below
this documentation. If you would like to change how model-free analysis is
performed, the code in the class Main can be changed as needed. For a
description of object-oriented coding in python using classes,
functions/methods, self, etc., see the python tutorial.
-If you have obtained this script without the program relax, please visit
http://nmr-relax.com.
+If you have obtained this script without the program relax, please visit
http://www.nmr-relax.com.
References
r15494 - in /1.3: ./ data/ docs/ docs/latex/ generic_fns/ sample_scripts/model_free/ scons/ test_suite/system_tests/scripts/...
