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apply version 2.7 copyright
author
jprocter
<jprocter@compbio.dundee.ac.uk>
Tue, 27 Sep 2011 08:15:20 +0000
(09:15 +0100)
committer
jprocter
<jprocter@compbio.dundee.ac.uk>
Tue, 27 Sep 2011 08:15:20 +0000
(09:15 +0100)
756 files changed:
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diff --git
a/RELEASE
b/RELEASE
index
8bd893d
..
a0d1141
100644
(file)
--- a/
RELEASE
+++ b/
RELEASE
@@
-1,3
+1,3
@@
-jalview.release=-r Release_2_6_Branch
\r
-jalview.version=2.6.1
\r
+jalview.release=-b Release_2_7_Branch
\r
+jalview.version=2.7
\r
\r
\r
diff --git
a/THIRDPARTYLIBS
b/THIRDPARTYLIBS
index
5918fc2
..
e777ead
100644
(file)
--- a/
THIRDPARTYLIBS
+++ b/
THIRDPARTYLIBS
@@
-31,3
+31,8
@@
wsdl4j.jar
xercesImpl.jar
xml-apis.jar
xercesImpl.jar
xml-apis.jar
+Additional dependencies
+
+examples/javascript/deployJava.js : http://java.com/js/deployJava.js
+examples/javascript/jquery*.js : BSD license
+examples/javascript/jshashtable-2.1.js : Apache License
diff --git
a/build.xml
b/build.xml
index
7d63c56
..
e9528fc
100755
(executable)
--- a/
build.xml
+++ b/
build.xml
@@
-1,7
+1,7
@@
<?xml version="1.0"?>
<!--
<?xml version="1.0"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/doc/AddingGroovySupport.html
b/doc/AddingGroovySupport.html
index
1487b1c
..
5dfa54f
100644
(file)
--- a/
doc/AddingGroovySupport.html
+++ b/
doc/AddingGroovySupport.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/doc/building.html
b/doc/building.html
index
5202400
..
dfb21a2
100755
(executable)
--- a/
doc/building.html
+++ b/
doc/building.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/doc/developing.html
b/doc/developing.html
index
dcda08c
..
a5fc4a3
100644
(file)
--- a/
doc/developing.html
+++ b/
doc/developing.html
@@
-1,7
+1,7
@@
<!DOCTYPE html SYSTEM "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
\r
<!--
\r
<!DOCTYPE html SYSTEM "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/doc/index.html
b/doc/index.html
index
fcc01fe
..
4b43977
100644
(file)
--- a/
doc/index.html
+++ b/
doc/index.html
@@
-1,7
+1,7
@@
<!DOCTYPE html SYSTEM "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
\r
<!--
\r
<!DOCTYPE html SYSTEM "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/doc/newdmobj.html
b/doc/newdmobj.html
index
1c0fdd4
..
5521d00
100644
(file)
--- a/
doc/newdmobj.html
+++ b/
doc/newdmobj.html
@@
-1,7
+1,7
@@
<html>
\r
<!--
\r
<html>
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/examples/javascript/deployJava.js
b/examples/javascript/deployJava.js
index
b172855
..
b0e9559
100644
(file)
--- a/
examples/javascript/deployJava.js
+++ b/
examples/javascript/deployJava.js
@@
-1,4
+1,7
@@
-
\r
+/*********
\r
+ * downloaded from http://java.com/js/deployJava.js
\r
+ * Probably copyright Oracle nee Sun 2011,2010,2009.
\r
+ */
\r
var deployJava={debug:null,firefoxJavaVersion:null,myInterval:null,preInstallJREList:null,returnPage:null,brand:null,locale:null,installType:null,EAInstallEnabled:false,EarlyAccessURL:null,getJavaURL:'http://java.sun.com/webapps/getjava/BrowserRedirect?host=java.com',appleRedirectPage:'http://www.apple.com/support/downloads/',oldMimeType:'application/npruntime-scriptable-plugin;DeploymentToolkit',mimeType:'application/java-deployment-toolkit',launchButtonPNG:'http://java.sun.com/products/jfc/tsc/articles/swing2d/webstart.png',browserName:null,browserName2:null,getJREs:function(){var list=new Array();if(deployJava.isPluginInstalled()){var plugin=deployJava.getPlugin();var VMs=plugin.jvms;for(var i=0;i<VMs.getLength();i++){list[i]=VMs.get(i).version;}}else{var browser=deployJava.getBrowser();if(browser=='MSIE'){if(deployJava.testUsingActiveX('1.7.0')){list[0]='1.7.0';}else if(deployJava.testUsingActiveX('1.6.0')){list[0]='1.6.0';}else if(deployJava.testUsingActiveX('1.5.0')){list[0]='1.5.0';}else if(deployJava.testUsingActiveX('1.4.2')){list[0]='1.4.2';}else if(deployJava.testForMSVM()){list[0]='1.1';}}else if(browser=='Netscape Family'){deployJava.getJPIVersionUsingMimeType();if(deployJava.firefoxJavaVersion!=null){list[0]=deployJava.firefoxJavaVersion;}else if(deployJava.testUsingMimeTypes('1.7')){list[0]='1.7.0';}else if(deployJava.testUsingMimeTypes('1.6')){list[0]='1.6.0';}else if(deployJava.testUsingMimeTypes('1.5')){list[0]='1.5.0';}else if(deployJava.testUsingMimeTypes('1.4.2')){list[0]='1.4.2';}else if(deployJava.browserName2=='Safari'){if(deployJava.testUsingPluginsArray('1.7.0')){list[0]='1.7.0';}else if(deployJava.testUsingPluginsArray('1.6')){list[0]='1.6.0';}else if(deployJava.testUsingPluginsArray('1.5')){list[0]='1.5.0';}else if(deployJava.testUsingPluginsArray('1.4.2')){list[0]='1.4.2';}}}}
\r
if(deployJava.debug){for(var i=0;i<list.length;++i){alert('We claim to have detected Java SE '+list[i]);}}
\r
return list;},installJRE:function(requestVersion){var ret=false;if(deployJava.isPluginInstalled()){if(deployJava.getPlugin().installJRE(requestVersion)){deployJava.refresh();if(deployJava.returnPage!=null){document.location=deployJava.returnPage;}
\r
var deployJava={debug:null,firefoxJavaVersion:null,myInterval:null,preInstallJREList:null,returnPage:null,brand:null,locale:null,installType:null,EAInstallEnabled:false,EarlyAccessURL:null,getJavaURL:'http://java.sun.com/webapps/getjava/BrowserRedirect?host=java.com',appleRedirectPage:'http://www.apple.com/support/downloads/',oldMimeType:'application/npruntime-scriptable-plugin;DeploymentToolkit',mimeType:'application/java-deployment-toolkit',launchButtonPNG:'http://java.sun.com/products/jfc/tsc/articles/swing2d/webstart.png',browserName:null,browserName2:null,getJREs:function(){var list=new Array();if(deployJava.isPluginInstalled()){var plugin=deployJava.getPlugin();var VMs=plugin.jvms;for(var i=0;i<VMs.getLength();i++){list[i]=VMs.get(i).version;}}else{var browser=deployJava.getBrowser();if(browser=='MSIE'){if(deployJava.testUsingActiveX('1.7.0')){list[0]='1.7.0';}else if(deployJava.testUsingActiveX('1.6.0')){list[0]='1.6.0';}else if(deployJava.testUsingActiveX('1.5.0')){list[0]='1.5.0';}else if(deployJava.testUsingActiveX('1.4.2')){list[0]='1.4.2';}else if(deployJava.testForMSVM()){list[0]='1.1';}}else if(browser=='Netscape Family'){deployJava.getJPIVersionUsingMimeType();if(deployJava.firefoxJavaVersion!=null){list[0]=deployJava.firefoxJavaVersion;}else if(deployJava.testUsingMimeTypes('1.7')){list[0]='1.7.0';}else if(deployJava.testUsingMimeTypes('1.6')){list[0]='1.6.0';}else if(deployJava.testUsingMimeTypes('1.5')){list[0]='1.5.0';}else if(deployJava.testUsingMimeTypes('1.4.2')){list[0]='1.4.2';}else if(deployJava.browserName2=='Safari'){if(deployJava.testUsingPluginsArray('1.7.0')){list[0]='1.7.0';}else if(deployJava.testUsingPluginsArray('1.6')){list[0]='1.6.0';}else if(deployJava.testUsingPluginsArray('1.5')){list[0]='1.5.0';}else if(deployJava.testUsingPluginsArray('1.4.2')){list[0]='1.4.2';}}}}
\r
if(deployJava.debug){for(var i=0;i<list.length;++i){alert('We claim to have detected Java SE '+list[i]);}}
\r
return list;},installJRE:function(requestVersion){var ret=false;if(deployJava.isPluginInstalled()){if(deployJava.getPlugin().installJRE(requestVersion)){deployJava.refresh();if(deployJava.returnPage!=null){document.location=deployJava.returnPage;}
\r
diff --git
a/examples/javascript/jalview.js
b/examples/javascript/jalview.js
index
66c5a3e
..
5d648cc
100644
(file)
--- a/
examples/javascript/jalview.js
+++ b/
examples/javascript/jalview.js
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
// default console to report messages
\r
var _console = document.getElementById("stdout");
\r
var _jvapps = new Array();
\r
// default console to report messages
\r
var _console = document.getElementById("stdout");
\r
var _jvapps = new Array();
\r
diff --git
a/help/helpTOC.xml
b/help/helpTOC.xml
index
6da4490
..
2bc4187
100755
(executable)
--- a/
help/helpTOC.xml
+++ b/
help/helpTOC.xml
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="ISO-8859-1" ?>
<!--
<?xml version="1.0" encoding="ISO-8859-1" ?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/consensus.html
b/help/html/calculations/consensus.html
index
6a22aef
..
5a962a4
100644
(file)
--- a/
help/html/calculations/consensus.html
+++ b/
help/html/calculations/consensus.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/conservation.html
b/help/html/calculations/conservation.html
index
ab2310f
..
ebba3ab
100755
(executable)
--- a/
help/html/calculations/conservation.html
+++ b/
help/html/calculations/conservation.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/pairwise.html
b/help/html/calculations/pairwise.html
index
627dccf
..
795450b
100755
(executable)
--- a/
help/html/calculations/pairwise.html
+++ b/
help/html/calculations/pairwise.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/pca.html
b/help/html/calculations/pca.html
index
9ec1fe8
..
9ae9e50
100755
(executable)
--- a/
help/html/calculations/pca.html
+++ b/
help/html/calculations/pca.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/quality.html
b/help/html/calculations/quality.html
index
3350733
..
4846acc
100755
(executable)
--- a/
help/html/calculations/quality.html
+++ b/
help/html/calculations/quality.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/recoverInputdata.html
b/help/html/calculations/recoverInputdata.html
index
6781e77
..
c09acbc
100644
(file)
--- a/
help/html/calculations/recoverInputdata.html
+++ b/
help/html/calculations/recoverInputdata.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/redundancy.html
b/help/html/calculations/redundancy.html
index
4b8fe7b
..
4ded83c
100755
(executable)
--- a/
help/html/calculations/redundancy.html
+++ b/
help/html/calculations/redundancy.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/sorting.html
b/help/html/calculations/sorting.html
index
29aaa12
..
d7cb9d1
100755
(executable)
--- a/
help/html/calculations/sorting.html
+++ b/
help/html/calculations/sorting.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/tree.html
b/help/html/calculations/tree.html
index
26a24c7
..
1579043
100755
(executable)
--- a/
help/html/calculations/tree.html
+++ b/
help/html/calculations/tree.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/calculations/treeviewer.html
b/help/html/calculations/treeviewer.html
index
514b8c8
..
fe6dbbc
100755
(executable)
--- a/
help/html/calculations/treeviewer.html
+++ b/
help/html/calculations/treeviewer.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/abovePID.html
b/help/html/colourSchemes/abovePID.html
index
75ae927
..
406fdde
100755
(executable)
--- a/
help/html/colourSchemes/abovePID.html
+++ b/
help/html/colourSchemes/abovePID.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/annotationColouring.html
b/help/html/colourSchemes/annotationColouring.html
index
e8c87e1
..
6f2f59d
100755
(executable)
--- a/
help/html/colourSchemes/annotationColouring.html
+++ b/
help/html/colourSchemes/annotationColouring.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/blosum.html
b/help/html/colourSchemes/blosum.html
index
5f4231e
..
bad9d30
100755
(executable)
--- a/
help/html/colourSchemes/blosum.html
+++ b/
help/html/colourSchemes/blosum.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/buried.html
b/help/html/colourSchemes/buried.html
index
2a91baf
..
1367245
100755
(executable)
--- a/
help/html/colourSchemes/buried.html
+++ b/
help/html/colourSchemes/buried.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/clustal.html
b/help/html/colourSchemes/clustal.html
index
0e57626
..
9f3e04c
100755
(executable)
--- a/
help/html/colourSchemes/clustal.html
+++ b/
help/html/colourSchemes/clustal.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/conservation.html
b/help/html/colourSchemes/conservation.html
index
1affe45
..
4d53a57
100755
(executable)
--- a/
help/html/colourSchemes/conservation.html
+++ b/
help/html/colourSchemes/conservation.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/helix.html
b/help/html/colourSchemes/helix.html
index
9013253
..
2d2804a
100755
(executable)
--- a/
help/html/colourSchemes/helix.html
+++ b/
help/html/colourSchemes/helix.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/hydrophobic.html
b/help/html/colourSchemes/hydrophobic.html
index
75ccc6f
..
09cf5d3
100755
(executable)
--- a/
help/html/colourSchemes/hydrophobic.html
+++ b/
help/html/colourSchemes/hydrophobic.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/index.html
b/help/html/colourSchemes/index.html
index
79a6012
..
70d74ee
100755
(executable)
--- a/
help/html/colourSchemes/index.html
+++ b/
help/html/colourSchemes/index.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/nucleotide.html
b/help/html/colourSchemes/nucleotide.html
index
8e2aa8b
..
a0d4c8c
100755
(executable)
--- a/
help/html/colourSchemes/nucleotide.html
+++ b/
help/html/colourSchemes/nucleotide.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/pid.html
b/help/html/colourSchemes/pid.html
index
c2a7b9f
..
58e8489
100755
(executable)
--- a/
help/html/colourSchemes/pid.html
+++ b/
help/html/colourSchemes/pid.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/strand.html
b/help/html/colourSchemes/strand.html
index
79704ba
..
33f1d34
100755
(executable)
--- a/
help/html/colourSchemes/strand.html
+++ b/
help/html/colourSchemes/strand.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/taylor.html
b/help/html/colourSchemes/taylor.html
index
9202c85
..
41edf24
100755
(executable)
--- a/
help/html/colourSchemes/taylor.html
+++ b/
help/html/colourSchemes/taylor.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/textcolour.html
b/help/html/colourSchemes/textcolour.html
index
dc2b5ec
..
de18633
100644
(file)
--- a/
help/html/colourSchemes/textcolour.html
+++ b/
help/html/colourSchemes/textcolour.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/turn.html
b/help/html/colourSchemes/turn.html
index
98a25aa
..
928c5ee
100755
(executable)
--- a/
help/html/colourSchemes/turn.html
+++ b/
help/html/colourSchemes/turn.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
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*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/user.html
b/help/html/colourSchemes/user.html
index
9617bee
..
1f48afa
100755
(executable)
--- a/
help/html/colourSchemes/user.html
+++ b/
help/html/colourSchemes/user.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/colourSchemes/zappo.html
b/help/html/colourSchemes/zappo.html
index
743ccb2
..
327c9b1
100755
(executable)
--- a/
help/html/colourSchemes/zappo.html
+++ b/
help/html/colourSchemes/zappo.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/editing/index.html
b/help/html/editing/index.html
index
dc6164e
..
1a1bc31
100755
(executable)
--- a/
help/html/editing/index.html
+++ b/
help/html/editing/index.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/annotation.html
b/help/html/features/annotation.html
index
7e0d23b
..
4e4ea73
100755
(executable)
--- a/
help/html/features/annotation.html
+++ b/
help/html/features/annotation.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/annotationsFormat.html
b/help/html/features/annotationsFormat.html
index
682edfd
..
3705569
100755
(executable)
--- a/
help/html/features/annotationsFormat.html
+++ b/
help/html/features/annotationsFormat.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/clarguments.html
b/help/html/features/clarguments.html
index
88657f8
..
9a50c86
100644
(file)
--- a/
help/html/features/clarguments.html
+++ b/
help/html/features/clarguments.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/codingfeatures.html
b/help/html/features/codingfeatures.html
index
b71404a
..
5977ae5
100644
(file)
--- a/
help/html/features/codingfeatures.html
+++ b/
help/html/features/codingfeatures.html
@@
-1,7
+1,7
@@
<html>
\r
<!--
\r
<html>
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/help/html/features/commandline.html
b/help/html/features/commandline.html
index
b8f215b
..
0d6cd2f
100644
(file)
--- a/
help/html/features/commandline.html
+++ b/
help/html/features/commandline.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/creatinFeatures.html
b/help/html/features/creatinFeatures.html
index
52d4399
..
c820e45
100644
(file)
--- a/
help/html/features/creatinFeatures.html
+++ b/
help/html/features/creatinFeatures.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/cursorMode.html
b/help/html/features/cursorMode.html
index
b98bf50
..
b43e79e
100755
(executable)
--- a/
help/html/features/cursorMode.html
+++ b/
help/html/features/cursorMode.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/dasfeatures.html
b/help/html/features/dasfeatures.html
index
7b59a3d
..
9bd70ff
100644
(file)
--- a/
help/html/features/dasfeatures.html
+++ b/
help/html/features/dasfeatures.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/dassettings.html
b/help/html/features/dassettings.html
index
82aec55
..
b9fe144
100644
(file)
--- a/
help/html/features/dassettings.html
+++ b/
help/html/features/dassettings.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/editingFeatures.html
b/help/html/features/editingFeatures.html
index
f829df6
..
5439609
100644
(file)
--- a/
help/html/features/editingFeatures.html
+++ b/
help/html/features/editingFeatures.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/featuresFormat.html
b/help/html/features/featuresFormat.html
index
b322e20
..
8693756
100755
(executable)
--- a/
help/html/features/featuresFormat.html
+++ b/
help/html/features/featuresFormat.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/featureschemes.html
b/help/html/features/featureschemes.html
index
76bc154
..
e5b30ae
100644
(file)
--- a/
help/html/features/featureschemes.html
+++ b/
help/html/features/featureschemes.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/featuresettings.html
b/help/html/features/featuresettings.html
index
6a2d157
..
c1d08a9
100755
(executable)
--- a/
help/html/features/featuresettings.html
+++ b/
help/html/features/featuresettings.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/groovy.html
b/help/html/features/groovy.html
index
4f571dc
..
77888dd
100644
(file)
--- a/
help/html/features/groovy.html
+++ b/
help/html/features/groovy.html
@@
-1,7
+1,7
@@
<html>
\r
<!--
\r
<html>
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/help/html/features/hiddenRegions.html
b/help/html/features/hiddenRegions.html
index
046a326
..
3bfa293
100644
(file)
--- a/
help/html/features/hiddenRegions.html
+++ b/
help/html/features/hiddenRegions.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/jalarchive.html
b/help/html/features/jalarchive.html
index
c26393f
..
3694d07
100755
(executable)
--- a/
help/html/features/jalarchive.html
+++ b/
help/html/features/jalarchive.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/jmol.html
b/help/html/features/jmol.html
index
d23e1d6
..
93146a5
100644
(file)
--- a/
help/html/features/jmol.html
+++ b/
help/html/features/jmol.html
@@
-1,7
+1,7
@@
<html>
\r
<!--
\r
<html>
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/help/html/features/multipleViews.html
b/help/html/features/multipleViews.html
index
106cf4b
..
1e4852a
100644
(file)
--- a/
help/html/features/multipleViews.html
+++ b/
help/html/features/multipleViews.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/newkeystrokes.html
b/help/html/features/newkeystrokes.html
index
af2750c
..
4f93219
100644
(file)
--- a/
help/html/features/newkeystrokes.html
+++ b/
help/html/features/newkeystrokes.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/overview.html
b/help/html/features/overview.html
index
a0aa3af
..
c5dc93d
100755
(executable)
--- a/
help/html/features/overview.html
+++ b/
help/html/features/overview.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/pdbviewer.html
b/help/html/features/pdbviewer.html
index
5c81f40
..
743f2a9
100755
(executable)
--- a/
help/html/features/pdbviewer.html
+++ b/
help/html/features/pdbviewer.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/preferences.html
b/help/html/features/preferences.html
index
014de2e
..
61e3eb0
100755
(executable)
--- a/
help/html/features/preferences.html
+++ b/
help/html/features/preferences.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/search.html
b/help/html/features/search.html
index
8173f32
..
0c733e4
100755
(executable)
--- a/
help/html/features/search.html
+++ b/
help/html/features/search.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/seqfeatures.html
b/help/html/features/seqfeatures.html
index
d47a472
..
e77ec85
100755
(executable)
--- a/
help/html/features/seqfeatures.html
+++ b/
help/html/features/seqfeatures.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/seqfetch.html
b/help/html/features/seqfetch.html
index
c32d8fe
..
cca5c66
100755
(executable)
--- a/
help/html/features/seqfetch.html
+++ b/
help/html/features/seqfetch.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/seqmappings.html
b/help/html/features/seqmappings.html
index
0137634
..
bb93c97
100644
(file)
--- a/
help/html/features/seqmappings.html
+++ b/
help/html/features/seqmappings.html
@@
-1,7
+1,7
@@
<html>
\r
<!--
\r
<html>
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/help/html/features/viewingpdbs.html
b/help/html/features/viewingpdbs.html
index
e9f28d5
..
fc12b3b
100755
(executable)
--- a/
help/html/features/viewingpdbs.html
+++ b/
help/html/features/viewingpdbs.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/features/wrap.html
b/help/html/features/wrap.html
index
bbb15bb
..
689d516
100755
(executable)
--- a/
help/html/features/wrap.html
+++ b/
help/html/features/wrap.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/index.html
b/help/html/index.html
index
cedc202
..
0957962
100755
(executable)
--- a/
help/html/index.html
+++ b/
help/html/index.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/io/export.html
b/help/html/io/export.html
index
bd0f708
..
b5a86da
100755
(executable)
--- a/
help/html/io/export.html
+++ b/
help/html/io/export.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/io/fileformats.html
b/help/html/io/fileformats.html
index
f701dd0
..
9172b28
100755
(executable)
--- a/
help/html/io/fileformats.html
+++ b/
help/html/io/fileformats.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/io/index.html
b/help/html/io/index.html
index
0cadedc
..
be803bb
100755
(executable)
--- a/
help/html/io/index.html
+++ b/
help/html/io/index.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/io/modellerpir.html
b/help/html/io/modellerpir.html
index
143d2e4
..
7d12827
100755
(executable)
--- a/
help/html/io/modellerpir.html
+++ b/
help/html/io/modellerpir.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/jalviewjnlp.html
b/help/html/jalviewjnlp.html
index
70cab61
..
6f31a7a
100755
(executable)
--- a/
help/html/jalviewjnlp.html
+++ b/
help/html/jalviewjnlp.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/keys.html
b/help/html/keys.html
index
4404da4
..
ee526e8
100755
(executable)
--- a/
help/html/keys.html
+++ b/
help/html/keys.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/memory.html
b/help/html/memory.html
index
857c29a
..
366c073
100755
(executable)
--- a/
help/html/memory.html
+++ b/
help/html/memory.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/alignmentMenu.html
b/help/html/menus/alignmentMenu.html
index
c628cf1
..
d6bd77e
100755
(executable)
--- a/
help/html/menus/alignmentMenu.html
+++ b/
help/html/menus/alignmentMenu.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/alwannotations.html
b/help/html/menus/alwannotations.html
index
b604c89
..
bd1eda6
100755
(executable)
--- a/
help/html/menus/alwannotations.html
+++ b/
help/html/menus/alwannotations.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/alwcalculate.html
b/help/html/menus/alwcalculate.html
index
01b84cd
..
444dfe3
100755
(executable)
--- a/
help/html/menus/alwcalculate.html
+++ b/
help/html/menus/alwcalculate.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/alwcolour.html
b/help/html/menus/alwcolour.html
index
10ec9c7
..
3093edd
100755
(executable)
--- a/
help/html/menus/alwcolour.html
+++ b/
help/html/menus/alwcolour.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/alwedit.html
b/help/html/menus/alwedit.html
index
9710de1
..
488e2f0
100755
(executable)
--- a/
help/html/menus/alwedit.html
+++ b/
help/html/menus/alwedit.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/alwfile.html
b/help/html/menus/alwfile.html
index
fd2ebe5
..
af3e105
100755
(executable)
--- a/
help/html/menus/alwfile.html
+++ b/
help/html/menus/alwfile.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/alwformat.html
b/help/html/menus/alwformat.html
index
d7e8908
..
62fdf93
100644
(file)
--- a/
help/html/menus/alwformat.html
+++ b/
help/html/menus/alwformat.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/alwselect.html
b/help/html/menus/alwselect.html
index
31809a2
..
6cbaad3
100644
(file)
--- a/
help/html/menus/alwselect.html
+++ b/
help/html/menus/alwselect.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/alwview.html
b/help/html/menus/alwview.html
index
75e3904
..
b533452
100755
(executable)
--- a/
help/html/menus/alwview.html
+++ b/
help/html/menus/alwview.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/desktopMenu.html
b/help/html/menus/desktopMenu.html
index
03502f5
..
4098c67
100755
(executable)
--- a/
help/html/menus/desktopMenu.html
+++ b/
help/html/menus/desktopMenu.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/index.html
b/help/html/menus/index.html
index
fa2b1a5
..
436dc35
100755
(executable)
--- a/
help/html/menus/index.html
+++ b/
help/html/menus/index.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/popupMenu.html
b/help/html/menus/popupMenu.html
index
e8c5101
..
f875672
100755
(executable)
--- a/
help/html/menus/popupMenu.html
+++ b/
help/html/menus/popupMenu.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/menus/wsmenu.html
b/help/html/menus/wsmenu.html
index
beb5443
..
a0449ad
100755
(executable)
--- a/
help/html/menus/wsmenu.html
+++ b/
help/html/menus/wsmenu.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/misc/aaproperties.html
b/help/html/misc/aaproperties.html
index
2a4266a
..
3c5221e
100755
(executable)
--- a/
help/html/misc/aaproperties.html
+++ b/
help/html/misc/aaproperties.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/misc/aminoAcids.html
b/help/html/misc/aminoAcids.html
index
7b7e6c4
..
494db99
100755
(executable)
--- a/
help/html/misc/aminoAcids.html
+++ b/
help/html/misc/aminoAcids.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/misc/geneticCode.html
b/help/html/misc/geneticCode.html
index
967b0ed
..
a57bc0a
100755
(executable)
--- a/
help/html/misc/geneticCode.html
+++ b/
help/html/misc/geneticCode.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/privacy.html
b/help/html/privacy.html
index
f46b528
..
b1e12c2
100644
(file)
--- a/
help/html/privacy.html
+++ b/
help/html/privacy.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/releases.html
b/help/html/releases.html
index
b67b69b
..
88bd1dc
100755
(executable)
--- a/
help/html/releases.html
+++ b/
help/html/releases.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/vamsas/index.html
b/help/html/vamsas/index.html
index
e91d114
..
20c0897
100644
(file)
--- a/
help/html/vamsas/index.html
+++ b/
help/html/vamsas/index.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/webServices/JABAWS.html
b/help/html/webServices/JABAWS.html
index
867299a
..
58950b9
100644
(file)
--- a/
help/html/webServices/JABAWS.html
+++ b/
help/html/webServices/JABAWS.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/webServices/dbreffetcher.html
b/help/html/webServices/dbreffetcher.html
index
1a03352
..
f62012c
100644
(file)
--- a/
help/html/webServices/dbreffetcher.html
+++ b/
help/html/webServices/dbreffetcher.html
@@
-1,7
+1,7
@@
<!DOCTYPE html SYSTEM "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
\r
<!--
\r
<!DOCTYPE html SYSTEM "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/help/html/webServices/index.html
b/help/html/webServices/index.html
index
82a1902
..
820d90b
100755
(executable)
--- a/
help/html/webServices/index.html
+++ b/
help/html/webServices/index.html
@@
-1,7
+1,7
@@
<!--
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/webServices/jnet.html
b/help/html/webServices/jnet.html
index
79320f0
..
3009823
100755
(executable)
--- a/
help/html/webServices/jnet.html
+++ b/
help/html/webServices/jnet.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/webServices/msaclient.html
b/help/html/webServices/msaclient.html
index
de12faa
..
5736258
100644
(file)
--- a/
help/html/webServices/msaclient.html
+++ b/
help/html/webServices/msaclient.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/webServices/shmr.html
b/help/html/webServices/shmr.html
index
4051ac5
..
58bacd9
100755
(executable)
--- a/
help/html/webServices/shmr.html
+++ b/
help/html/webServices/shmr.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/webServices/urllinks.html
b/help/html/webServices/urllinks.html
index
a0ceb84
..
dc01f71
100644
(file)
--- a/
help/html/webServices/urllinks.html
+++ b/
help/html/webServices/urllinks.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/webServices/webServicesParams.html
b/help/html/webServices/webServicesParams.html
index
3bec481
..
fd0acf6
100644
(file)
--- a/
help/html/webServices/webServicesParams.html
+++ b/
help/html/webServices/webServicesParams.html
@@
-1,7
+1,7
@@
<!--
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/webServices/webServicesPrefs.html
b/help/html/webServices/webServicesPrefs.html
index
2d5d3ee
..
1187204
100644
(file)
--- a/
help/html/webServices/webServicesPrefs.html
+++ b/
help/html/webServices/webServicesPrefs.html
@@
-1,7
+1,7
@@
<!--
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/help/html/whatsNew.html
b/help/html/whatsNew.html
index
88e8ee9
..
cf96d47
100755
(executable)
--- a/
help/html/whatsNew.html
+++ b/
help/html/whatsNew.html
@@
-1,7
+1,7
@@
<html>
<!--
<html>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6.1)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/jalview-jalopy.xml
b/jalview-jalopy.xml
index
6a65a0d
..
014f741
100755
(executable)
--- a/
jalview-jalopy.xml
+++ b/
jalview-jalopy.xml
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="UTF-8"?>
<!--
<?xml version="1.0" encoding="UTF-8"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/nbbuild.xml
b/nbbuild.xml
index
24cd5f3
..
830f355
100644
(file)
--- a/
nbbuild.xml
+++ b/
nbbuild.xml
@@
-1,4
+1,21
@@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version="1.0" encoding="UTF-8"?><!--
+ Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+
+ This file is part of Jalview.
+
+ Jalview is free software: you can redistribute it and/or
+ modify it under the terms of the GNU General Public License
+ as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+
+ Jalview is distributed in the hope that it will be useful, but
+ WITHOUT ANY WARRANTY; without even the implied warranty
+ of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ PURPOSE. See the GNU General Public License for more details.
+
+ You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ -->
+
<!-- You may freely edit this file. See commented blocks below for -->
<!-- some examples of how to customize the build. -->
<!-- (If you delete it and reopen the project it will be recreated.) -->
<!-- You may freely edit this file. See commented blocks below for -->
<!-- some examples of how to customize the build. -->
<!-- (If you delete it and reopen the project it will be recreated.) -->
diff --git
a/nbproject/genfiles.properties
b/nbproject/genfiles.properties
index
b52f0c2
..
3298729
100644
(file)
--- a/
nbproject/genfiles.properties
+++ b/
nbproject/genfiles.properties
@@
-1,3
+1,20
@@
+###############################################################################
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+###############################################################################
nbbuild.xml.data.CRC32=f5d3c6c2
nbbuild.xml.script.CRC32=307ee084
nbbuild.xml.stylesheet.CRC32=28e38971@1.43.1.45
nbbuild.xml.data.CRC32=f5d3c6c2
nbbuild.xml.script.CRC32=307ee084
nbbuild.xml.stylesheet.CRC32=28e38971@1.43.1.45
diff --git
a/nbproject/project.properties
b/nbproject/project.properties
index
87df84d
..
69d1428
100644
(file)
--- a/
nbproject/project.properties
+++ b/
nbproject/project.properties
@@
-1,3
+1,20
@@
+###############################################################################
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+###############################################################################
annotation.processing.enabled=true
annotation.processing.enabled.in.editor=false
annotation.processing.run.all.processors=true
annotation.processing.enabled=true
annotation.processing.enabled.in.editor=false
annotation.processing.run.all.processors=true
diff --git
a/nbproject/project.xml
b/nbproject/project.xml
index
73b5c3a
..
f3db653
100644
(file)
--- a/
nbproject/project.xml
+++ b/
nbproject/project.xml
@@
-1,4
+1,21
@@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version="1.0" encoding="UTF-8"?><!--
+ Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+
+ This file is part of Jalview.
+
+ Jalview is free software: you can redistribute it and/or
+ modify it under the terms of the GNU General Public License
+ as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+
+ Jalview is distributed in the hope that it will be useful, but
+ WITHOUT ANY WARRANTY; without even the implied warranty
+ of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ PURPOSE. See the GNU General Public License for more details.
+
+ You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ -->
+
<project xmlns="http://www.netbeans.org/ns/project/1">
<type>org.netbeans.modules.java.j2seproject</type>
<configuration>
<project xmlns="http://www.netbeans.org/ns/project/1">
<type>org.netbeans.modules.java.j2seproject</type>
<configuration>
diff --git
a/resources/embl_mapping.xml
b/resources/embl_mapping.xml
index
c7b2538
..
d3af6c7
100644
(file)
--- a/
resources/embl_mapping.xml
+++ b/
resources/embl_mapping.xml
@@
-1,7
+1,7
@@
<?xml version="1.0"?>
\r
<!--
\r
<?xml version="1.0"?>
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/resources/uniprot_mapping.xml
b/resources/uniprot_mapping.xml
index
5b0141e
..
bf971af
100755
(executable)
--- a/
resources/uniprot_mapping.xml
+++ b/
resources/uniprot_mapping.xml
@@
-1,7
+1,7
@@
<?xml version="1.0"?>
<!--
<?xml version="1.0"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/schemas/JalviewUserColours.xsd
b/schemas/JalviewUserColours.xsd
index
41d1d4a
..
1142745
100755
(executable)
--- a/
schemas/JalviewUserColours.xsd
+++ b/
schemas/JalviewUserColours.xsd
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="UTF-8"?>
<!--
<?xml version="1.0" encoding="UTF-8"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/schemas/JalviewWsParamSet.xsd
b/schemas/JalviewWsParamSet.xsd
index
72ed9ce
..
7238f18
100644
(file)
--- a/
schemas/JalviewWsParamSet.xsd
+++ b/
schemas/JalviewWsParamSet.xsd
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="UTF-8"?>
<!--
<?xml version="1.0" encoding="UTF-8"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/schemas/castor-mapping.xsd
b/schemas/castor-mapping.xsd
index
d129e7f
..
3d37852
100644
(file)
--- a/
schemas/castor-mapping.xsd
+++ b/
schemas/castor-mapping.xsd
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="UTF-8"?>
\r
<!--
\r
<?xml version="1.0" encoding="UTF-8"?>
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/schemas/jalview.nodesc.properties
b/schemas/jalview.nodesc.properties
index
2b221fd
..
ed37efc
100644
(file)
--- a/
schemas/jalview.nodesc.properties
+++ b/
schemas/jalview.nodesc.properties
@@
-1,3
+1,20
@@
+###############################################################################
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+###############################################################################
#
\r
# Property file for SourceCodeGenerator for jalview project XML for parsing without descriptors
\r
#
\r
#
\r
# Property file for SourceCodeGenerator for jalview project XML for parsing without descriptors
\r
#
\r
diff --git
a/schemas/jalview.properties
b/schemas/jalview.properties
index
1f8cf00
..
236a53f
100644
(file)
--- a/
schemas/jalview.properties
+++ b/
schemas/jalview.properties
@@
-1,3
+1,20
@@
+###############################################################################
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+###############################################################################
#
\r
# Property file for SourceCodeGenerator for jalview project XML
\r
#
\r
#
\r
# Property file for SourceCodeGenerator for jalview project XML
\r
#
\r
diff --git
a/schemas/jalview.xsd
b/schemas/jalview.xsd
index
5aae6ae
..
431fad5
100755
(executable)
--- a/
schemas/jalview.xsd
+++ b/
schemas/jalview.xsd
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="UTF-8"?>
<!--
<?xml version="1.0" encoding="UTF-8"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/schemas/jalviewJvV1.xsd
b/schemas/jalviewJvV1.xsd
index
a804a8a
..
7c562fb
100644
(file)
--- a/
schemas/jalviewJvV1.xsd
+++ b/
schemas/jalviewJvV1.xsd
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="UTF-8"?>
\r
<!--
\r
<?xml version="1.0" encoding="UTF-8"?>
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/schemas/vamsas.xsd
b/schemas/vamsas.xsd
index
3dd7d0d
..
f061b42
100755
(executable)
--- a/
schemas/vamsas.xsd
+++ b/
schemas/vamsas.xsd
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="UTF-8"?>
<!--
<?xml version="1.0" encoding="UTF-8"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/schemas/vamsasJvV1.xsd
b/schemas/vamsasJvV1.xsd
index
0284fb6
..
f8bfed0
100644
(file)
--- a/
schemas/vamsasJvV1.xsd
+++ b/
schemas/vamsasJvV1.xsd
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="UTF-8"?>
\r
<!--
\r
<?xml version="1.0" encoding="UTF-8"?>
\r
<!--
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/MCview/AppletPDBCanvas.java
b/src/MCview/AppletPDBCanvas.java
index
756f2a5
..
181d85f
100644
(file)
--- a/
src/MCview/AppletPDBCanvas.java
+++ b/
src/MCview/AppletPDBCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/AppletPDBViewer.java
b/src/MCview/AppletPDBViewer.java
index
00d8416
..
ae255e1
100755
(executable)
--- a/
src/MCview/AppletPDBViewer.java
+++ b/
src/MCview/AppletPDBViewer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/Atom.java
b/src/MCview/Atom.java
index
25a3dc6
..
9ab7e09
100755
(executable)
--- a/
src/MCview/Atom.java
+++ b/
src/MCview/Atom.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/Bond.java
b/src/MCview/Bond.java
index
c3a3b5d
..
9d22b6a
100755
(executable)
--- a/
src/MCview/Bond.java
+++ b/
src/MCview/Bond.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/MCMatrix.java
b/src/MCview/MCMatrix.java
index
abffac4
..
298fcc4
100755
(executable)
--- a/
src/MCview/MCMatrix.java
+++ b/
src/MCview/MCMatrix.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/PDBCanvas.java
b/src/MCview/PDBCanvas.java
index
ed4cc1b
..
fd1b764
100644
(file)
--- a/
src/MCview/PDBCanvas.java
+++ b/
src/MCview/PDBCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/PDBChain.java
b/src/MCview/PDBChain.java
index
65504e4
..
0004308
100755
(executable)
--- a/
src/MCview/PDBChain.java
+++ b/
src/MCview/PDBChain.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/PDBViewer.java
b/src/MCview/PDBViewer.java
index
6c3de37
..
a5f050d
100755
(executable)
--- a/
src/MCview/PDBViewer.java
+++ b/
src/MCview/PDBViewer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/PDBfile.java
b/src/MCview/PDBfile.java
index
30f7e42
..
3f9bc9d
100755
(executable)
--- a/
src/MCview/PDBfile.java
+++ b/
src/MCview/PDBfile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/Residue.java
b/src/MCview/Residue.java
index
b7639ec
..
cb3d221
100755
(executable)
--- a/
src/MCview/Residue.java
+++ b/
src/MCview/Residue.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/MCview/Zsort.java
b/src/MCview/Zsort.java
index
70913c2
..
fd2c210
100755
(executable)
--- a/
src/MCview/Zsort.java
+++ b/
src/MCview/Zsort.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/castor.properties
b/src/castor.properties
index
618cd87
..
0bb6494
100644
(file)
--- a/
src/castor.properties
+++ b/
src/castor.properties
@@
-1,3
+1,20
@@
+###############################################################################
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+###############################################################################
# THE CASTOR PROPERTIES FILE
\r
# This file specifies values for Castor run-time which may be configured
\r
# by the user.
\r
# THE CASTOR PROPERTIES FILE
\r
# This file specifies values for Castor run-time which may be configured
\r
# by the user.
\r
diff --git
a/src/ext/vamsas/IRegistry.java
b/src/ext/vamsas/IRegistry.java
index
80f811b
..
e952e53
100755
(executable)
--- a/
src/ext/vamsas/IRegistry.java
+++ b/
src/ext/vamsas/IRegistry.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/ext/vamsas/IRegistryService.java
b/src/ext/vamsas/IRegistryService.java
index
1f724e0
..
866fe88
100755
(executable)
--- a/
src/ext/vamsas/IRegistryService.java
+++ b/
src/ext/vamsas/IRegistryService.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/ext/vamsas/IRegistryServiceLocator.java
b/src/ext/vamsas/IRegistryServiceLocator.java
index
1e08074
..
d015f63
100755
(executable)
--- a/
src/ext/vamsas/IRegistryServiceLocator.java
+++ b/
src/ext/vamsas/IRegistryServiceLocator.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/ext/vamsas/Jpred.java
b/src/ext/vamsas/Jpred.java
index
8438998
..
06483a6
100755
(executable)
--- a/
src/ext/vamsas/Jpred.java
+++ b/
src/ext/vamsas/Jpred.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/ext/vamsas/JpredService.java
b/src/ext/vamsas/JpredService.java
index
fec4186
..
216f411
100755
(executable)
--- a/
src/ext/vamsas/JpredService.java
+++ b/
src/ext/vamsas/JpredService.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/ext/vamsas/JpredServiceLocator.java
b/src/ext/vamsas/JpredServiceLocator.java
index
355595c
..
b878c18
100755
(executable)
--- a/
src/ext/vamsas/JpredServiceLocator.java
+++ b/
src/ext/vamsas/JpredServiceLocator.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/ext/vamsas/JpredSoapBindingStub.java
b/src/ext/vamsas/JpredSoapBindingStub.java
index
7c80f57
..
03a2383
100755
(executable)
--- a/
src/ext/vamsas/JpredSoapBindingStub.java
+++ b/
src/ext/vamsas/JpredSoapBindingStub.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/ext/vamsas/MuscleWS.java
b/src/ext/vamsas/MuscleWS.java
index
bf18a1c
..
249c163
100755
(executable)
--- a/
src/ext/vamsas/MuscleWS.java
+++ b/
src/ext/vamsas/MuscleWS.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-15,24
+15,6
@@
*
* You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
*
* You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
-/*
- * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful,
- * but WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
- * GNU General Public License for more details.
- *
- * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
- */
package ext.vamsas;
public interface MuscleWS extends java.rmi.Remote
package ext.vamsas;
public interface MuscleWS extends java.rmi.Remote
diff --git
a/src/ext/vamsas/MuscleWSService.java
b/src/ext/vamsas/MuscleWSService.java
index
2b51392
..
752f622
100755
(executable)
--- a/
src/ext/vamsas/MuscleWSService.java
+++ b/
src/ext/vamsas/MuscleWSService.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-15,24
+15,6
@@
*
* You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
*
* You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
-/*
- * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful,
- * but WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
- * GNU General Public License for more details.
- *
- * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
- */
package ext.vamsas;
public interface MuscleWSService extends javax.xml.rpc.Service
package ext.vamsas;
public interface MuscleWSService extends javax.xml.rpc.Service
diff --git
a/src/ext/vamsas/MuscleWSServiceLocator.java
b/src/ext/vamsas/MuscleWSServiceLocator.java
index
8713ef1
..
c669d23
100755
(executable)
--- a/
src/ext/vamsas/MuscleWSServiceLocator.java
+++ b/
src/ext/vamsas/MuscleWSServiceLocator.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-15,24
+15,6
@@
*
* You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
*
* You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
-/*
- * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful,
- * but WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
- * GNU General Public License for more details.
- *
- * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
- */
package ext.vamsas;
public class MuscleWSServiceLocator extends org.apache.axis.client.Service
package ext.vamsas;
public class MuscleWSServiceLocator extends org.apache.axis.client.Service
diff --git
a/src/ext/vamsas/MuscleWSSoapBindingStub.java
b/src/ext/vamsas/MuscleWSSoapBindingStub.java
index
f732060
..
e582192
100755
(executable)
--- a/
src/ext/vamsas/MuscleWSSoapBindingStub.java
+++ b/
src/ext/vamsas/MuscleWSSoapBindingStub.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-15,24
+15,6
@@
*
* You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
*
* You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
-/*
- * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
- *
- * This program is free software; you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation; either version 2
- * of the License, or (at your option) any later version.
- *
- * This program is distributed in the hope that it will be useful,
- * but WITHOUT ANY WARRANTY; without even the implied warranty of
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
- * GNU General Public License for more details.
- *
- * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
- */
package ext.vamsas;
public class MuscleWSSoapBindingStub extends org.apache.axis.client.Stub
package ext.vamsas;
public class MuscleWSSoapBindingStub extends org.apache.axis.client.Stub
diff --git
a/src/ext/vamsas/RegistryServiceSoapBindingStub.java
b/src/ext/vamsas/RegistryServiceSoapBindingStub.java
index
7722d99
..
ca961e2
100755
(executable)
--- a/
src/ext/vamsas/RegistryServiceSoapBindingStub.java
+++ b/
src/ext/vamsas/RegistryServiceSoapBindingStub.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/ext/vamsas/SeqSearchI.java
b/src/ext/vamsas/SeqSearchI.java
index
91d96c8
..
3af0cf0
100644
(file)
--- a/
src/ext/vamsas/SeqSearchI.java
+++ b/
src/ext/vamsas/SeqSearchI.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/ext/vamsas/SeqSearchServiceLocator.java
b/src/ext/vamsas/SeqSearchServiceLocator.java
index
0c7bae5
..
bd70635
100644
(file)
--- a/
src/ext/vamsas/SeqSearchServiceLocator.java
+++ b/
src/ext/vamsas/SeqSearchServiceLocator.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/ext/vamsas/SeqSearchServiceService.java
b/src/ext/vamsas/SeqSearchServiceService.java
index
9fe0579
..
f476ec2
100644
(file)
--- a/
src/ext/vamsas/SeqSearchServiceService.java
+++ b/
src/ext/vamsas/SeqSearchServiceService.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/ext/vamsas/SeqSearchServiceSoapBindingStub.java
b/src/ext/vamsas/SeqSearchServiceSoapBindingStub.java
index
9b918fd
..
118c893
100644
(file)
--- a/
src/ext/vamsas/SeqSearchServiceSoapBindingStub.java
+++ b/
src/ext/vamsas/SeqSearchServiceSoapBindingStub.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/ext/vamsas/ServiceHandle.java
b/src/ext/vamsas/ServiceHandle.java
index
62a3af5
..
3a96d70
100755
(executable)
--- a/
src/ext/vamsas/ServiceHandle.java
+++ b/
src/ext/vamsas/ServiceHandle.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/ext/vamsas/ServiceHandles.java
b/src/ext/vamsas/ServiceHandles.java
index
e931d44
..
64687a1
100755
(executable)
--- a/
src/ext/vamsas/ServiceHandles.java
+++ b/
src/ext/vamsas/ServiceHandles.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/AAFrequency.java
b/src/jalview/analysis/AAFrequency.java
index
31cb7ad
..
aadd8f0
100755
(executable)
--- a/
src/jalview/analysis/AAFrequency.java
+++ b/
src/jalview/analysis/AAFrequency.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/AlignSeq.java
b/src/jalview/analysis/AlignSeq.java
index
a27c51b
..
3db4435
100755
(executable)
--- a/
src/jalview/analysis/AlignSeq.java
+++ b/
src/jalview/analysis/AlignSeq.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/AlignmentSorter.java
b/src/jalview/analysis/AlignmentSorter.java
index
797af0c
..
d78b5b3
100755
(executable)
--- a/
src/jalview/analysis/AlignmentSorter.java
+++ b/
src/jalview/analysis/AlignmentSorter.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/Conservation.java
b/src/jalview/analysis/Conservation.java
index
2ffb4de
..
2a065f6
100755
(executable)
--- a/
src/jalview/analysis/Conservation.java
+++ b/
src/jalview/analysis/Conservation.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/CrossRef.java
b/src/jalview/analysis/CrossRef.java
index
8682e8a
..
1420c9a
100644
(file)
--- a/
src/jalview/analysis/CrossRef.java
+++ b/
src/jalview/analysis/CrossRef.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/analysis/Dna.java
b/src/jalview/analysis/Dna.java
index
482c54a
..
49c37df
100644
(file)
--- a/
src/jalview/analysis/Dna.java
+++ b/
src/jalview/analysis/Dna.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/analysis/Finder.java
b/src/jalview/analysis/Finder.java
index
1179435
..
2dd6a74
100644
(file)
--- a/
src/jalview/analysis/Finder.java
+++ b/
src/jalview/analysis/Finder.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/Grouping.java
b/src/jalview/analysis/Grouping.java
index
2cb4753
..
57f1dcf
100644
(file)
--- a/
src/jalview/analysis/Grouping.java
+++ b/
src/jalview/analysis/Grouping.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/NJTree.java
b/src/jalview/analysis/NJTree.java
index
e5c1643
..
e9e1cd7
100644
(file)
--- a/
src/jalview/analysis/NJTree.java
+++ b/
src/jalview/analysis/NJTree.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/PCA.java
b/src/jalview/analysis/PCA.java
index
9be0e3c
..
ff4ed38
100755
(executable)
--- a/
src/jalview/analysis/PCA.java
+++ b/
src/jalview/analysis/PCA.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/ParseProperties.java
b/src/jalview/analysis/ParseProperties.java
index
3af6c24
..
3649a29
100644
(file)
--- a/
src/jalview/analysis/ParseProperties.java
+++ b/
src/jalview/analysis/ParseProperties.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/analysis/SeqsetUtils.java
b/src/jalview/analysis/SeqsetUtils.java
index
332f89f
..
f28fa05
100755
(executable)
--- a/
src/jalview/analysis/SeqsetUtils.java
+++ b/
src/jalview/analysis/SeqsetUtils.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-21,26
+21,6
@@
import java.util.*;
import jalview.datamodel.*;
import jalview.datamodel.*;
-/**
- * <p>
- * Title:
- * </p>
- *
- * <p>
- * Description:
- * </p>
- *
- * <p>
- * Copyright: Copyright (c) 2004
- * </p>
- *
- * <p>
- * Company: Dundee University
- * </p>
- *
- * @author not attributable
- * @version 1.0
- */
public class SeqsetUtils
{
public class SeqsetUtils
{
diff --git
a/src/jalview/analysis/SequenceIdMatcher.java
b/src/jalview/analysis/SequenceIdMatcher.java
index
5bde225
..
a8ce33d
100755
(executable)
--- a/
src/jalview/analysis/SequenceIdMatcher.java
+++ b/
src/jalview/analysis/SequenceIdMatcher.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-22,27
+22,10
@@
import java.util.*;
import jalview.datamodel.*;
/**
import jalview.datamodel.*;
/**
- * <p>
- * Title:
- * </p>
- * SequenceIdMatcher
- * <p>
- * Description:
- * </p>
- * Routine which does approximate Sequence Id resolution by name using string
+ * Routines for approximate Sequence Id resolution by name using string
* containment (on word boundaries) rather than equivalence. It also attempts to
* resolve ties where no exact match is available by picking the the id closest
* to the query.
* containment (on word boundaries) rather than equivalence. It also attempts to
* resolve ties where no exact match is available by picking the the id closest
* to the query.
- * <p>
- * Copyright: Copyright (c) 2004
- * </p>
- *
- * <p>
- * Company: Dundee University
- * </p>
- *
- * @author not attributable
- * @version 1.0
*/
public class SequenceIdMatcher
{
*/
public class SequenceIdMatcher
{
diff --git
a/src/jalview/api/AlignmentViewPanel.java
b/src/jalview/api/AlignmentViewPanel.java
index
fcda077
..
a7acc66
100644
(file)
--- a/
src/jalview/api/AlignmentViewPanel.java
+++ b/
src/jalview/api/AlignmentViewPanel.java
@@
-1,6
+1,21
@@
-/**
- *
- */
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
+
package jalview.api;
import jalview.datamodel.AlignmentI;
package jalview.api;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/api/FeatureRenderer.java
b/src/jalview/api/FeatureRenderer.java
index
14af09b
..
fe3786d
100644
(file)
--- a/
src/jalview/api/FeatureRenderer.java
+++ b/
src/jalview/api/FeatureRenderer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/api/SequenceRenderer.java
b/src/jalview/api/SequenceRenderer.java
index
37b43b5
..
a4ec373
100644
(file)
--- a/
src/jalview/api/SequenceRenderer.java
+++ b/
src/jalview/api/SequenceRenderer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/api/SequenceStructureBinding.java
b/src/jalview/api/SequenceStructureBinding.java
index
f4c9345
..
b5938bb
100644
(file)
--- a/
src/jalview/api/SequenceStructureBinding.java
+++ b/
src/jalview/api/SequenceStructureBinding.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/api/StructureSelectionManagerProvider.java
b/src/jalview/api/StructureSelectionManagerProvider.java
index
84f7457
..
e89aeb5
100644
(file)
--- a/
src/jalview/api/StructureSelectionManagerProvider.java
+++ b/
src/jalview/api/StructureSelectionManagerProvider.java
@@
-1,6
+1,21
@@
-/**
- *
- */
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
+
package jalview.api;
/**
package jalview.api;
/**
diff --git
a/src/jalview/appletgui/APopupMenu.java
b/src/jalview/appletgui/APopupMenu.java
index
9b14901
..
7e17cc5
100755
(executable)
--- a/
src/jalview/appletgui/APopupMenu.java
+++ b/
src/jalview/appletgui/APopupMenu.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/AlignFrame.java
b/src/jalview/appletgui/AlignFrame.java
index
0263d72
..
759075a
100644
(file)
--- a/
src/jalview/appletgui/AlignFrame.java
+++ b/
src/jalview/appletgui/AlignFrame.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/appletgui/AlignViewport.java
b/src/jalview/appletgui/AlignViewport.java
index
ba989ff
..
ff8f7df
100644
(file)
--- a/
src/jalview/appletgui/AlignViewport.java
+++ b/
src/jalview/appletgui/AlignViewport.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/AlignmentPanel.java
b/src/jalview/appletgui/AlignmentPanel.java
index
7104355
..
08d1f85
100644
(file)
--- a/
src/jalview/appletgui/AlignmentPanel.java
+++ b/
src/jalview/appletgui/AlignmentPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/AnnotationColourChooser.java
b/src/jalview/appletgui/AnnotationColourChooser.java
index
1e9668a
..
5463ed8
100755
(executable)
--- a/
src/jalview/appletgui/AnnotationColourChooser.java
+++ b/
src/jalview/appletgui/AnnotationColourChooser.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/AnnotationLabels.java
b/src/jalview/appletgui/AnnotationLabels.java
index
e383e9d
..
5140024
100755
(executable)
--- a/
src/jalview/appletgui/AnnotationLabels.java
+++ b/
src/jalview/appletgui/AnnotationLabels.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/AnnotationPanel.java
b/src/jalview/appletgui/AnnotationPanel.java
index
e959c5f
..
7d1333b
100755
(executable)
--- a/
src/jalview/appletgui/AnnotationPanel.java
+++ b/
src/jalview/appletgui/AnnotationPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/AppletJmol.java
b/src/jalview/appletgui/AppletJmol.java
index
0ff2467
..
7bf21a8
100644
(file)
--- a/
src/jalview/appletgui/AppletJmol.java
+++ b/
src/jalview/appletgui/AppletJmol.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/AppletJmolBinding.java
b/src/jalview/appletgui/AppletJmolBinding.java
index
ffe00b5
..
eca6406
100644
(file)
--- a/
src/jalview/appletgui/AppletJmolBinding.java
+++ b/
src/jalview/appletgui/AppletJmolBinding.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/CutAndPasteTransfer.java
b/src/jalview/appletgui/CutAndPasteTransfer.java
index
c09784e
..
e5b5e43
100755
(executable)
--- a/
src/jalview/appletgui/CutAndPasteTransfer.java
+++ b/
src/jalview/appletgui/CutAndPasteTransfer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/EditNameDialog.java
b/src/jalview/appletgui/EditNameDialog.java
index
2d6ef56
..
162750a
100644
(file)
--- a/
src/jalview/appletgui/EditNameDialog.java
+++ b/
src/jalview/appletgui/EditNameDialog.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/EmbmenuFrame.java
b/src/jalview/appletgui/EmbmenuFrame.java
index
bfc453a
..
005f4a3
100644
(file)
--- a/
src/jalview/appletgui/EmbmenuFrame.java
+++ b/
src/jalview/appletgui/EmbmenuFrame.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/appletgui/ExtJmol.java
b/src/jalview/appletgui/ExtJmol.java
index
e1734d0
..
b3d1a3c
100644
(file)
--- a/
src/jalview/appletgui/ExtJmol.java
+++ b/
src/jalview/appletgui/ExtJmol.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/FeatureColourChooser.java
b/src/jalview/appletgui/FeatureColourChooser.java
index
69f667a
..
a35cf49
100644
(file)
--- a/
src/jalview/appletgui/FeatureColourChooser.java
+++ b/
src/jalview/appletgui/FeatureColourChooser.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/FeatureRenderer.java
b/src/jalview/appletgui/FeatureRenderer.java
index
de03c03
..
39249cc
100755
(executable)
--- a/
src/jalview/appletgui/FeatureRenderer.java
+++ b/
src/jalview/appletgui/FeatureRenderer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/FeatureSettings.java
b/src/jalview/appletgui/FeatureSettings.java
index
fb8b37c
..
e137416
100755
(executable)
--- a/
src/jalview/appletgui/FeatureSettings.java
+++ b/
src/jalview/appletgui/FeatureSettings.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/Finder.java
b/src/jalview/appletgui/Finder.java
index
3a445a9
..
5f697ea
100755
(executable)
--- a/
src/jalview/appletgui/Finder.java
+++ b/
src/jalview/appletgui/Finder.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/FontChooser.java
b/src/jalview/appletgui/FontChooser.java
index
d4563d9
..
7a27df8
100755
(executable)
--- a/
src/jalview/appletgui/FontChooser.java
+++ b/
src/jalview/appletgui/FontChooser.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/IdCanvas.java
b/src/jalview/appletgui/IdCanvas.java
index
38a1310
..
58a4af1
100755
(executable)
--- a/
src/jalview/appletgui/IdCanvas.java
+++ b/
src/jalview/appletgui/IdCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/IdPanel.java
b/src/jalview/appletgui/IdPanel.java
index
a3955c0
..
1497616
100755
(executable)
--- a/
src/jalview/appletgui/IdPanel.java
+++ b/
src/jalview/appletgui/IdPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/IdwidthAdjuster.java
b/src/jalview/appletgui/IdwidthAdjuster.java
index
77c0ca8
..
047d657
100755
(executable)
--- a/
src/jalview/appletgui/IdwidthAdjuster.java
+++ b/
src/jalview/appletgui/IdwidthAdjuster.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/JVDialog.java
b/src/jalview/appletgui/JVDialog.java
index
a08e85c
..
eaf8255
100644
(file)
--- a/
src/jalview/appletgui/JVDialog.java
+++ b/
src/jalview/appletgui/JVDialog.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/OverviewPanel.java
b/src/jalview/appletgui/OverviewPanel.java
index
d740625
..
01b448c
100755
(executable)
--- a/
src/jalview/appletgui/OverviewPanel.java
+++ b/
src/jalview/appletgui/OverviewPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/PCAPanel.java
b/src/jalview/appletgui/PCAPanel.java
index
5d32373
..
8a39ad9
100755
(executable)
--- a/
src/jalview/appletgui/PCAPanel.java
+++ b/
src/jalview/appletgui/PCAPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/PaintRefresher.java
b/src/jalview/appletgui/PaintRefresher.java
index
889a7db
..
722dd32
100755
(executable)
--- a/
src/jalview/appletgui/PaintRefresher.java
+++ b/
src/jalview/appletgui/PaintRefresher.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/PairwiseAlignPanel.java
b/src/jalview/appletgui/PairwiseAlignPanel.java
index
beec55b
..
fe5e31d
100755
(executable)
--- a/
src/jalview/appletgui/PairwiseAlignPanel.java
+++ b/
src/jalview/appletgui/PairwiseAlignPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/RedundancyPanel.java
b/src/jalview/appletgui/RedundancyPanel.java
index
634c82e
..
b3c6a01
100755
(executable)
--- a/
src/jalview/appletgui/RedundancyPanel.java
+++ b/
src/jalview/appletgui/RedundancyPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/RotatableCanvas.java
b/src/jalview/appletgui/RotatableCanvas.java
index
34db801
..
fd63acf
100755
(executable)
--- a/
src/jalview/appletgui/RotatableCanvas.java
+++ b/
src/jalview/appletgui/RotatableCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/ScalePanel.java
b/src/jalview/appletgui/ScalePanel.java
index
28139fb
..
1f256fe
100755
(executable)
--- a/
src/jalview/appletgui/ScalePanel.java
+++ b/
src/jalview/appletgui/ScalePanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/SeqCanvas.java
b/src/jalview/appletgui/SeqCanvas.java
index
fd9d768
..
26da08b
100755
(executable)
--- a/
src/jalview/appletgui/SeqCanvas.java
+++ b/
src/jalview/appletgui/SeqCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/SeqPanel.java
b/src/jalview/appletgui/SeqPanel.java
index
cce8c23
..
b0de2ae
100644
(file)
--- a/
src/jalview/appletgui/SeqPanel.java
+++ b/
src/jalview/appletgui/SeqPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/SequenceRenderer.java
b/src/jalview/appletgui/SequenceRenderer.java
index
0215e55
..
857472b
100755
(executable)
--- a/
src/jalview/appletgui/SequenceRenderer.java
+++ b/
src/jalview/appletgui/SequenceRenderer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/SliderPanel.java
b/src/jalview/appletgui/SliderPanel.java
index
2326cae
..
4e6c2bf
100755
(executable)
--- a/
src/jalview/appletgui/SliderPanel.java
+++ b/
src/jalview/appletgui/SliderPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/Tooltip.java
b/src/jalview/appletgui/Tooltip.java
index
4806ba1
..
11020fc
100755
(executable)
--- a/
src/jalview/appletgui/Tooltip.java
+++ b/
src/jalview/appletgui/Tooltip.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/appletgui/TreeCanvas.java
b/src/jalview/appletgui/TreeCanvas.java
index
1cab8d8
..
5d5b7ba
100755
(executable)
--- a/
src/jalview/appletgui/TreeCanvas.java
+++ b/
src/jalview/appletgui/TreeCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/TreePanel.java
b/src/jalview/appletgui/TreePanel.java
index
7595a50
..
0351d14
100644
(file)
--- a/
src/jalview/appletgui/TreePanel.java
+++ b/
src/jalview/appletgui/TreePanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/appletgui/UserDefinedColours.java
b/src/jalview/appletgui/UserDefinedColours.java
index
188099a
..
7220321
100755
(executable)
--- a/
src/jalview/appletgui/UserDefinedColours.java
+++ b/
src/jalview/appletgui/UserDefinedColours.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/bin/Cache.java
b/src/jalview/bin/Cache.java
index
fab075e
..
d2f400d
100755
(executable)
--- a/
src/jalview/bin/Cache.java
+++ b/
src/jalview/bin/Cache.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/bin/Jalview.java
b/src/jalview/bin/Jalview.java
index
999e6ad
..
dd61e76
100755
(executable)
--- a/
src/jalview/bin/Jalview.java
+++ b/
src/jalview/bin/Jalview.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/bin/JalviewLite.java
b/src/jalview/bin/JalviewLite.java
index
ba21b97
..
52e7408
100644
(file)
--- a/
src/jalview/bin/JalviewLite.java
+++ b/
src/jalview/bin/JalviewLite.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/bin/JalviewLiteURLRetrieve.java
b/src/jalview/bin/JalviewLiteURLRetrieve.java
index
be952d4
..
a77186f
100644
(file)
--- a/
src/jalview/bin/JalviewLiteURLRetrieve.java
+++ b/
src/jalview/bin/JalviewLiteURLRetrieve.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/binding/Alignment.java
b/src/jalview/binding/Alignment.java
index
5b107b5
..
cc8f4dc
100644
(file)
--- a/
src/jalview/binding/Alignment.java
+++ b/
src/jalview/binding/Alignment.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Annotation.java
b/src/jalview/binding/Annotation.java
index
108d3ad
..
95447d3
100644
(file)
--- a/
src/jalview/binding/Annotation.java
+++ b/
src/jalview/binding/Annotation.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/AnnotationElement.java
b/src/jalview/binding/AnnotationElement.java
index
d133fe0
..
8b018c5
100644
(file)
--- a/
src/jalview/binding/AnnotationElement.java
+++ b/
src/jalview/binding/AnnotationElement.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Colour.java
b/src/jalview/binding/Colour.java
index
c041723
..
38f7740
100644
(file)
--- a/
src/jalview/binding/Colour.java
+++ b/
src/jalview/binding/Colour.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Feature.java
b/src/jalview/binding/Feature.java
index
d429df3
..
53beb10
100644
(file)
--- a/
src/jalview/binding/Feature.java
+++ b/
src/jalview/binding/Feature.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/FeatureSettings.java
b/src/jalview/binding/FeatureSettings.java
index
f3d06be
..
1a5a830
100644
(file)
--- a/
src/jalview/binding/FeatureSettings.java
+++ b/
src/jalview/binding/FeatureSettings.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Features.java
b/src/jalview/binding/Features.java
index
e50ae7c
..
4b807c1
100644
(file)
--- a/
src/jalview/binding/Features.java
+++ b/
src/jalview/binding/Features.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/JGroup.java
b/src/jalview/binding/JGroup.java
index
862eebd
..
1186169
100644
(file)
--- a/
src/jalview/binding/JGroup.java
+++ b/
src/jalview/binding/JGroup.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/JSeq.java
b/src/jalview/binding/JSeq.java
index
14b1f2f
..
407640a
100644
(file)
--- a/
src/jalview/binding/JSeq.java
+++ b/
src/jalview/binding/JSeq.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/JalviewModel.java
b/src/jalview/binding/JalviewModel.java
index
21f8be9
..
5c9be24
100644
(file)
--- a/
src/jalview/binding/JalviewModel.java
+++ b/
src/jalview/binding/JalviewModel.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/JalviewModelSequence.java
b/src/jalview/binding/JalviewModelSequence.java
index
5ebcee6
..
e4f6c5a
100644
(file)
--- a/
src/jalview/binding/JalviewModelSequence.java
+++ b/
src/jalview/binding/JalviewModelSequence.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/JalviewUserColours.java
b/src/jalview/binding/JalviewUserColours.java
index
9a6465b
..
3248adf
100644
(file)
--- a/
src/jalview/binding/JalviewUserColours.java
+++ b/
src/jalview/binding/JalviewUserColours.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Pdbentry.java
b/src/jalview/binding/Pdbentry.java
index
cac4cf6
..
9e01bf4
100644
(file)
--- a/
src/jalview/binding/Pdbentry.java
+++ b/
src/jalview/binding/Pdbentry.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/PdbentryItem.java
b/src/jalview/binding/PdbentryItem.java
index
83bc40a
..
316ace7
100644
(file)
--- a/
src/jalview/binding/PdbentryItem.java
+++ b/
src/jalview/binding/PdbentryItem.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Pdbids.java
b/src/jalview/binding/Pdbids.java
index
b4745a2
..
c95c80a
100644
(file)
--- a/
src/jalview/binding/Pdbids.java
+++ b/
src/jalview/binding/Pdbids.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Property.java
b/src/jalview/binding/Property.java
index
f1114f7
..
f8eea6f
100644
(file)
--- a/
src/jalview/binding/Property.java
+++ b/
src/jalview/binding/Property.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Sequence.java
b/src/jalview/binding/Sequence.java
index
9c8cbc2
..
1af7025
100644
(file)
--- a/
src/jalview/binding/Sequence.java
+++ b/
src/jalview/binding/Sequence.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/SequenceSet.java
b/src/jalview/binding/SequenceSet.java
index
13a9020
..
3f34069
100644
(file)
--- a/
src/jalview/binding/SequenceSet.java
+++ b/
src/jalview/binding/SequenceSet.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/SequenceType.java
b/src/jalview/binding/SequenceType.java
index
1bb2a62
..
0acbe9f
100644
(file)
--- a/
src/jalview/binding/SequenceType.java
+++ b/
src/jalview/binding/SequenceType.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Setting.java
b/src/jalview/binding/Setting.java
index
9cd84b4
..
80d22ee
100644
(file)
--- a/
src/jalview/binding/Setting.java
+++ b/
src/jalview/binding/Setting.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Tree.java
b/src/jalview/binding/Tree.java
index
5f138d0
..
846ed9d
100644
(file)
--- a/
src/jalview/binding/Tree.java
+++ b/
src/jalview/binding/Tree.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/UserColourScheme.java
b/src/jalview/binding/UserColourScheme.java
index
24c97ff
..
d57d24c
100644
(file)
--- a/
src/jalview/binding/UserColourScheme.java
+++ b/
src/jalview/binding/UserColourScheme.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/UserColours.java
b/src/jalview/binding/UserColours.java
index
bdefe05
..
02cf07f
100644
(file)
--- a/
src/jalview/binding/UserColours.java
+++ b/
src/jalview/binding/UserColours.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/VAMSAS.java
b/src/jalview/binding/VAMSAS.java
index
1c92bd3
..
4a04798
100644
(file)
--- a/
src/jalview/binding/VAMSAS.java
+++ b/
src/jalview/binding/VAMSAS.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/VamsasModel.java
b/src/jalview/binding/VamsasModel.java
index
5fda35e
..
220dec2
100644
(file)
--- a/
src/jalview/binding/VamsasModel.java
+++ b/
src/jalview/binding/VamsasModel.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/binding/Viewport.java
b/src/jalview/binding/Viewport.java
index
643c323
..
4be6b86
100644
(file)
--- a/
src/jalview/binding/Viewport.java
+++ b/
src/jalview/binding/Viewport.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/commands/ChangeCaseCommand.java
b/src/jalview/commands/ChangeCaseCommand.java
index
7ba4027
..
dc859f6
100644
(file)
--- a/
src/jalview/commands/ChangeCaseCommand.java
+++ b/
src/jalview/commands/ChangeCaseCommand.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/commands/CommandI.java
b/src/jalview/commands/CommandI.java
index
7611728
..
cebbfff
100644
(file)
--- a/
src/jalview/commands/CommandI.java
+++ b/
src/jalview/commands/CommandI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/commands/EditCommand.java
b/src/jalview/commands/EditCommand.java
index
5310838
..
d18cb62
100644
(file)
--- a/
src/jalview/commands/EditCommand.java
+++ b/
src/jalview/commands/EditCommand.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/commands/OrderCommand.java
b/src/jalview/commands/OrderCommand.java
index
bacca28
..
e45aaa1
100644
(file)
--- a/
src/jalview/commands/OrderCommand.java
+++ b/
src/jalview/commands/OrderCommand.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/commands/RemoveGapColCommand.java
b/src/jalview/commands/RemoveGapColCommand.java
index
b4331d7
..
83197d7
100644
(file)
--- a/
src/jalview/commands/RemoveGapColCommand.java
+++ b/
src/jalview/commands/RemoveGapColCommand.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/commands/RemoveGapsCommand.java
b/src/jalview/commands/RemoveGapsCommand.java
index
9165225
..
ef39ef0
100644
(file)
--- a/
src/jalview/commands/RemoveGapsCommand.java
+++ b/
src/jalview/commands/RemoveGapsCommand.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/commands/SlideSequencesCommand.java
b/src/jalview/commands/SlideSequencesCommand.java
index
60ba93d
..
e7126ee
100644
(file)
--- a/
src/jalview/commands/SlideSequencesCommand.java
+++ b/
src/jalview/commands/SlideSequencesCommand.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/commands/TrimRegionCommand.java
b/src/jalview/commands/TrimRegionCommand.java
index
2de3539
..
de94dd4
100644
(file)
--- a/
src/jalview/commands/TrimRegionCommand.java
+++ b/
src/jalview/commands/TrimRegionCommand.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/AlignedCodonFrame.java
b/src/jalview/datamodel/AlignedCodonFrame.java
index
207069a
..
9c2bd83
100644
(file)
--- a/
src/jalview/datamodel/AlignedCodonFrame.java
+++ b/
src/jalview/datamodel/AlignedCodonFrame.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/datamodel/Alignment.java
b/src/jalview/datamodel/Alignment.java
index
4e279d3
..
707eee8
100755
(executable)
--- a/
src/jalview/datamodel/Alignment.java
+++ b/
src/jalview/datamodel/Alignment.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/AlignmentAnnotation.java
b/src/jalview/datamodel/AlignmentAnnotation.java
index
483c821
..
1d624d4
100755
(executable)
--- a/
src/jalview/datamodel/AlignmentAnnotation.java
+++ b/
src/jalview/datamodel/AlignmentAnnotation.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/AlignmentI.java
b/src/jalview/datamodel/AlignmentI.java
index
2e0903d
..
be1bff7
100755
(executable)
--- a/
src/jalview/datamodel/AlignmentI.java
+++ b/
src/jalview/datamodel/AlignmentI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/AlignmentOrder.java
b/src/jalview/datamodel/AlignmentOrder.java
index
7bf2042
..
528fbfc
100755
(executable)
--- a/
src/jalview/datamodel/AlignmentOrder.java
+++ b/
src/jalview/datamodel/AlignmentOrder.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-19,26
+19,6
@@
package jalview.datamodel;
import java.util.*;
import java.util.*;
-/**
- * <p>
- * Title:
- * </p>
- *
- * <p>
- * Description:
- * </p>
- *
- * <p>
- * Copyright: Copyright (c) 2004
- * </p>
- *
- * <p>
- * Company: Dundee University
- * </p>
- *
- * @author not attributable
- * @version 1.0
- */
public class AlignmentOrder
{
// JBPNote : this method would return a vector containing all sequences in
public class AlignmentOrder
{
// JBPNote : this method would return a vector containing all sequences in
diff --git
a/src/jalview/datamodel/AlignmentView.java
b/src/jalview/datamodel/AlignmentView.java
index
ebe8301
..
4bd1ace
100644
(file)
--- a/
src/jalview/datamodel/AlignmentView.java
+++ b/
src/jalview/datamodel/AlignmentView.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/datamodel/Annotation.java
b/src/jalview/datamodel/Annotation.java
index
762a62c
..
609158d
100755
(executable)
--- a/
src/jalview/datamodel/Annotation.java
+++ b/
src/jalview/datamodel/Annotation.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/BinaryNode.java
b/src/jalview/datamodel/BinaryNode.java
index
cae0185
..
451e7b5
100755
(executable)
--- a/
src/jalview/datamodel/BinaryNode.java
+++ b/
src/jalview/datamodel/BinaryNode.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/BinarySequence.java
b/src/jalview/datamodel/BinarySequence.java
index
dd4bb60
..
9d6f5e8
100755
(executable)
--- a/
src/jalview/datamodel/BinarySequence.java
+++ b/
src/jalview/datamodel/BinarySequence.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/CigarArray.java
b/src/jalview/datamodel/CigarArray.java
index
3180298
..
78d34ed
100644
(file)
--- a/
src/jalview/datamodel/CigarArray.java
+++ b/
src/jalview/datamodel/CigarArray.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/datamodel/CigarBase.java
b/src/jalview/datamodel/CigarBase.java
index
d351603
..
df6f5f3
100644
(file)
--- a/
src/jalview/datamodel/CigarBase.java
+++ b/
src/jalview/datamodel/CigarBase.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/datamodel/CigarCigar.java
b/src/jalview/datamodel/CigarCigar.java
index
fbba60f
..
e31c818
100644
(file)
--- a/
src/jalview/datamodel/CigarCigar.java
+++ b/
src/jalview/datamodel/CigarCigar.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/datamodel/CigarSimple.java
b/src/jalview/datamodel/CigarSimple.java
index
fd20bfe
..
6aa9988
100644
(file)
--- a/
src/jalview/datamodel/CigarSimple.java
+++ b/
src/jalview/datamodel/CigarSimple.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
@@
-17,26
+17,6
@@
*/
\r
package jalview.datamodel;
\r
\r
*/
\r
package jalview.datamodel;
\r
\r
-/**
\r
- * <p>
\r
- * Title:
\r
- * </p>
\r
- *
\r
- * <p>
\r
- * Description:
\r
- * </p>
\r
- *
\r
- * <p>
\r
- * Copyright: Copyright (c) 2004
\r
- * </p>
\r
- *
\r
- * <p>
\r
- * Company: Dundee University
\r
- * </p>
\r
- *
\r
- * @author not attributable
\r
- * @version 1.0
\r
- */
\r
public abstract class CigarSimple extends CigarBase
\r
{
\r
/**
\r
public abstract class CigarSimple extends CigarBase
\r
{
\r
/**
\r
diff --git
a/src/jalview/datamodel/ColumnSelection.java
b/src/jalview/datamodel/ColumnSelection.java
index
3b46c47
..
786101e
100644
(file)
--- a/
src/jalview/datamodel/ColumnSelection.java
+++ b/
src/jalview/datamodel/ColumnSelection.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/datamodel/DBRefEntry.java
b/src/jalview/datamodel/DBRefEntry.java
index
094628b
..
853255d
100755
(executable)
--- a/
src/jalview/datamodel/DBRefEntry.java
+++ b/
src/jalview/datamodel/DBRefEntry.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/DBRefSource.java
b/src/jalview/datamodel/DBRefSource.java
index
e060b54
..
e1f5f41
100755
(executable)
--- a/
src/jalview/datamodel/DBRefSource.java
+++ b/
src/jalview/datamodel/DBRefSource.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/datamodel/FeatureProperties.java
b/src/jalview/datamodel/FeatureProperties.java
index
6447f1c
..
8c238ef
100644
(file)
--- a/
src/jalview/datamodel/FeatureProperties.java
+++ b/
src/jalview/datamodel/FeatureProperties.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/datamodel/GraphLine.java
b/src/jalview/datamodel/GraphLine.java
index
92be210
..
deab08a
100755
(executable)
--- a/
src/jalview/datamodel/GraphLine.java
+++ b/
src/jalview/datamodel/GraphLine.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/HiddenSequences.java
b/src/jalview/datamodel/HiddenSequences.java
index
ecbe1ec
..
901cf35
100755
(executable)
--- a/
src/jalview/datamodel/HiddenSequences.java
+++ b/
src/jalview/datamodel/HiddenSequences.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/Mapping.java
b/src/jalview/datamodel/Mapping.java
index
b6b4c96
..
7116a2b
100644
(file)
--- a/
src/jalview/datamodel/Mapping.java
+++ b/
src/jalview/datamodel/Mapping.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/NodeTransformI.java
b/src/jalview/datamodel/NodeTransformI.java
index
4c1e594
..
0e1c880
100644
(file)
--- a/
src/jalview/datamodel/NodeTransformI.java
+++ b/
src/jalview/datamodel/NodeTransformI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/PDBEntry.java
b/src/jalview/datamodel/PDBEntry.java
index
2c44a57
..
d65293f
100755
(executable)
--- a/
src/jalview/datamodel/PDBEntry.java
+++ b/
src/jalview/datamodel/PDBEntry.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/Provenance.java
b/src/jalview/datamodel/Provenance.java
index
d87618e
..
cb3bbf7
100755
(executable)
--- a/
src/jalview/datamodel/Provenance.java
+++ b/
src/jalview/datamodel/Provenance.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/ProvenanceEntry.java
b/src/jalview/datamodel/ProvenanceEntry.java
index
b206ebf
..
d6711d7
100755
(executable)
--- a/
src/jalview/datamodel/ProvenanceEntry.java
+++ b/
src/jalview/datamodel/ProvenanceEntry.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/SearchResults.java
b/src/jalview/datamodel/SearchResults.java
index
d1d9bf7
..
89268f0
100755
(executable)
--- a/
src/jalview/datamodel/SearchResults.java
+++ b/
src/jalview/datamodel/SearchResults.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/SeqCigar.java
b/src/jalview/datamodel/SeqCigar.java
index
b937118
..
182ad7b
100644
(file)
--- a/
src/jalview/datamodel/SeqCigar.java
+++ b/
src/jalview/datamodel/SeqCigar.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/Sequence.java
b/src/jalview/datamodel/Sequence.java
index
22929f5
..
52d9a72
100755
(executable)
--- a/
src/jalview/datamodel/Sequence.java
+++ b/
src/jalview/datamodel/Sequence.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/SequenceFeature.java
b/src/jalview/datamodel/SequenceFeature.java
index
012f842
..
6fed6ee
100755
(executable)
--- a/
src/jalview/datamodel/SequenceFeature.java
+++ b/
src/jalview/datamodel/SequenceFeature.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/SequenceGroup.java
b/src/jalview/datamodel/SequenceGroup.java
index
ba17cc9
..
01bf677
100755
(executable)
--- a/
src/jalview/datamodel/SequenceGroup.java
+++ b/
src/jalview/datamodel/SequenceGroup.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/SequenceI.java
b/src/jalview/datamodel/SequenceI.java
index
a1a7bc2
..
d1e3853
100755
(executable)
--- a/
src/jalview/datamodel/SequenceI.java
+++ b/
src/jalview/datamodel/SequenceI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/SequenceNode.java
b/src/jalview/datamodel/SequenceNode.java
index
622d7b5
..
90a3681
100755
(executable)
--- a/
src/jalview/datamodel/SequenceNode.java
+++ b/
src/jalview/datamodel/SequenceNode.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/SequencePoint.java
b/src/jalview/datamodel/SequencePoint.java
index
b22229b
..
921318f
100755
(executable)
--- a/
src/jalview/datamodel/SequencePoint.java
+++ b/
src/jalview/datamodel/SequencePoint.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/UniprotEntry.java
b/src/jalview/datamodel/UniprotEntry.java
index
8a78179
..
e93a262
100755
(executable)
--- a/
src/jalview/datamodel/UniprotEntry.java
+++ b/
src/jalview/datamodel/UniprotEntry.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/UniprotFile.java
b/src/jalview/datamodel/UniprotFile.java
index
5b80d1b
..
e90c616
100755
(executable)
--- a/
src/jalview/datamodel/UniprotFile.java
+++ b/
src/jalview/datamodel/UniprotFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/UniprotProteinName.java
b/src/jalview/datamodel/UniprotProteinName.java
index
dbc93f3
..
18eeb74
100755
(executable)
--- a/
src/jalview/datamodel/UniprotProteinName.java
+++ b/
src/jalview/datamodel/UniprotProteinName.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/datamodel/UniprotSequence.java
b/src/jalview/datamodel/UniprotSequence.java
index
6eb0de0
..
c239766
100755
(executable)
--- a/
src/jalview/datamodel/UniprotSequence.java
+++ b/
src/jalview/datamodel/UniprotSequence.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/xdb/embl/BasePosition.java
b/src/jalview/datamodel/xdb/embl/BasePosition.java
index
9f350e5
..
31a1418
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/BasePosition.java
+++ b/
src/jalview/datamodel/xdb/embl/BasePosition.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/xdb/embl/EmblEntry.java
b/src/jalview/datamodel/xdb/embl/EmblEntry.java
index
1439a8b
..
a949888
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/EmblEntry.java
+++ b/
src/jalview/datamodel/xdb/embl/EmblEntry.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/xdb/embl/EmblError.java
b/src/jalview/datamodel/xdb/embl/EmblError.java
index
ce46265
..
612cf23
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/EmblError.java
+++ b/
src/jalview/datamodel/xdb/embl/EmblError.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/xdb/embl/EmblFeature.java
b/src/jalview/datamodel/xdb/embl/EmblFeature.java
index
b727c56
..
65ee51a
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/EmblFeature.java
+++ b/
src/jalview/datamodel/xdb/embl/EmblFeature.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/xdb/embl/EmblFeatureLocElement.java
b/src/jalview/datamodel/xdb/embl/EmblFeatureLocElement.java
index
7021c32
..
91a0133
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/EmblFeatureLocElement.java
+++ b/
src/jalview/datamodel/xdb/embl/EmblFeatureLocElement.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/xdb/embl/EmblFeatureLocations.java
b/src/jalview/datamodel/xdb/embl/EmblFeatureLocations.java
index
96f21f9
..
a20a9f7
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/EmblFeatureLocations.java
+++ b/
src/jalview/datamodel/xdb/embl/EmblFeatureLocations.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/xdb/embl/EmblFile.java
b/src/jalview/datamodel/xdb/embl/EmblFile.java
index
14b78ce
..
277423d
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/EmblFile.java
+++ b/
src/jalview/datamodel/xdb/embl/EmblFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/xdb/embl/EmblSequence.java
b/src/jalview/datamodel/xdb/embl/EmblSequence.java
index
b001e70
..
6c583cf
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/EmblSequence.java
+++ b/
src/jalview/datamodel/xdb/embl/EmblSequence.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/datamodel/xdb/embl/Qualifier.java
b/src/jalview/datamodel/xdb/embl/Qualifier.java
index
2fba8dc
..
5e085fa
100644
(file)
--- a/
src/jalview/datamodel/xdb/embl/Qualifier.java
+++ b/
src/jalview/datamodel/xdb/embl/Qualifier.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ext/jmol/JalviewJmolBinding.java
b/src/jalview/ext/jmol/JalviewJmolBinding.java
index
5294d89
..
1299ddc
100644
(file)
--- a/
src/jalview/ext/jmol/JalviewJmolBinding.java
+++ b/
src/jalview/ext/jmol/JalviewJmolBinding.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ext/jmol/JmolCommands.java
b/src/jalview/ext/jmol/JmolCommands.java
index
bfb2766
..
71faba3
100644
(file)
--- a/
src/jalview/ext/jmol/JmolCommands.java
+++ b/
src/jalview/ext/jmol/JmolCommands.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/**
\r
*
\r
*/
\r
/**
\r
*
\r
*/
\r
diff --git
a/src/jalview/gui/AlignFrame.java
b/src/jalview/gui/AlignFrame.java
index
3011393
..
2ecd947
100755
(executable)
--- a/
src/jalview/gui/AlignFrame.java
+++ b/
src/jalview/gui/AlignFrame.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/AlignViewport.java
b/src/jalview/gui/AlignViewport.java
index
26fb890
..
13f66d9
100644
(file)
--- a/
src/jalview/gui/AlignViewport.java
+++ b/
src/jalview/gui/AlignViewport.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/AlignmentPanel.java
b/src/jalview/gui/AlignmentPanel.java
index
a088aa3
..
b7028ac
100644
(file)
--- a/
src/jalview/gui/AlignmentPanel.java
+++ b/
src/jalview/gui/AlignmentPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/AnnotationColourChooser.java
b/src/jalview/gui/AnnotationColourChooser.java
index
b0379aa
..
eca0b4c
100755
(executable)
--- a/
src/jalview/gui/AnnotationColourChooser.java
+++ b/
src/jalview/gui/AnnotationColourChooser.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/AnnotationExporter.java
b/src/jalview/gui/AnnotationExporter.java
index
8248647
..
a6ccc7b
100755
(executable)
--- a/
src/jalview/gui/AnnotationExporter.java
+++ b/
src/jalview/gui/AnnotationExporter.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/gui/AnnotationLabels.java
b/src/jalview/gui/AnnotationLabels.java
index
0826924
..
ff3b0cd
100755
(executable)
--- a/
src/jalview/gui/AnnotationLabels.java
+++ b/
src/jalview/gui/AnnotationLabels.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/AnnotationPanel.java
b/src/jalview/gui/AnnotationPanel.java
index
8a93f79
..
359c500
100755
(executable)
--- a/
src/jalview/gui/AnnotationPanel.java
+++ b/
src/jalview/gui/AnnotationPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/AppJmol.java
b/src/jalview/gui/AppJmol.java
index
e500240
..
2c0d7d6
100644
(file)
--- a/
src/jalview/gui/AppJmol.java
+++ b/
src/jalview/gui/AppJmol.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/AppJmolBinding.java
b/src/jalview/gui/AppJmolBinding.java
index
3b915ae
..
22776f2
100644
(file)
--- a/
src/jalview/gui/AppJmolBinding.java
+++ b/
src/jalview/gui/AppJmolBinding.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/AssociatePdbFileWithSeq.java
b/src/jalview/gui/AssociatePdbFileWithSeq.java
index
cbfbbc4
..
5c22e55
100644
(file)
--- a/
src/jalview/gui/AssociatePdbFileWithSeq.java
+++ b/
src/jalview/gui/AssociatePdbFileWithSeq.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.gui;
import javax.swing.JOptionPane;
package jalview.gui;
import javax.swing.JOptionPane;
diff --git
a/src/jalview/gui/BlogReader.java
b/src/jalview/gui/BlogReader.java
index
50d1e83
..
2b728ae
100644
(file)
--- a/
src/jalview/gui/BlogReader.java
+++ b/
src/jalview/gui/BlogReader.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.gui;
import jalview.bin.Cache;
package jalview.gui;
import jalview.bin.Cache;
diff --git
a/src/jalview/gui/ConservationThread.java
b/src/jalview/gui/ConservationThread.java
index
92f66da
..
8f4a6a6
100644
(file)
--- a/
src/jalview/gui/ConservationThread.java
+++ b/
src/jalview/gui/ConservationThread.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/Console.java
b/src/jalview/gui/Console.java
index
823b594
..
b4917ca
100644
(file)
--- a/
src/jalview/gui/Console.java
+++ b/
src/jalview/gui/Console.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/CutAndPasteTransfer.java
b/src/jalview/gui/CutAndPasteTransfer.java
index
f608a52
..
18dffd6
100755
(executable)
--- a/
src/jalview/gui/CutAndPasteTransfer.java
+++ b/
src/jalview/gui/CutAndPasteTransfer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/DasSourceBrowser.java
b/src/jalview/gui/DasSourceBrowser.java
index
8ce0995
..
c623530
100755
(executable)
--- a/
src/jalview/gui/DasSourceBrowser.java
+++ b/
src/jalview/gui/DasSourceBrowser.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/gui/Desktop.java
b/src/jalview/gui/Desktop.java
index
3838e50
..
2a72e44
100644
(file)
--- a/
src/jalview/gui/Desktop.java
+++ b/
src/jalview/gui/Desktop.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/EPSOptions.java
b/src/jalview/gui/EPSOptions.java
index
2edaf0b
..
5b4e77a
100755
(executable)
--- a/
src/jalview/gui/EPSOptions.java
+++ b/
src/jalview/gui/EPSOptions.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/EditNameDialog.java
b/src/jalview/gui/EditNameDialog.java
index
4d3e167
..
a9fedf6
100644
(file)
--- a/
src/jalview/gui/EditNameDialog.java
+++ b/
src/jalview/gui/EditNameDialog.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/FeatureColourChooser.java
b/src/jalview/gui/FeatureColourChooser.java
index
d6c63dc
..
e5ea8fe
100644
(file)
--- a/
src/jalview/gui/FeatureColourChooser.java
+++ b/
src/jalview/gui/FeatureColourChooser.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/FeatureRenderer.java
b/src/jalview/gui/FeatureRenderer.java
index
81a4108
..
0679873
100755
(executable)
--- a/
src/jalview/gui/FeatureRenderer.java
+++ b/
src/jalview/gui/FeatureRenderer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/FeatureSettings.java
b/src/jalview/gui/FeatureSettings.java
index
bd9443f
..
fae5259
100755
(executable)
--- a/
src/jalview/gui/FeatureSettings.java
+++ b/
src/jalview/gui/FeatureSettings.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/Finder.java
b/src/jalview/gui/Finder.java
index
2fa3351
..
05fad6f
100755
(executable)
--- a/
src/jalview/gui/Finder.java
+++ b/
src/jalview/gui/Finder.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/FontChooser.java
b/src/jalview/gui/FontChooser.java
index
12493eb
..
d996aaf
100755
(executable)
--- a/
src/jalview/gui/FontChooser.java
+++ b/
src/jalview/gui/FontChooser.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/IProgressIndicator.java
b/src/jalview/gui/IProgressIndicator.java
index
6537095
..
943c83d
100644
(file)
--- a/
src/jalview/gui/IProgressIndicator.java
+++ b/
src/jalview/gui/IProgressIndicator.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/gui/IProgressIndicatorHandler.java
b/src/jalview/gui/IProgressIndicatorHandler.java
index
56be66d
..
3e8fa2f
100644
(file)
--- a/
src/jalview/gui/IProgressIndicatorHandler.java
+++ b/
src/jalview/gui/IProgressIndicatorHandler.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/gui/IdCanvas.java
b/src/jalview/gui/IdCanvas.java
index
b713913
..
5cd7c51
100755
(executable)
--- a/
src/jalview/gui/IdCanvas.java
+++ b/
src/jalview/gui/IdCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/IdPanel.java
b/src/jalview/gui/IdPanel.java
index
ea8b711
..
1732291
100755
(executable)
--- a/
src/jalview/gui/IdPanel.java
+++ b/
src/jalview/gui/IdPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/IdwidthAdjuster.java
b/src/jalview/gui/IdwidthAdjuster.java
index
ab4cbad
..
f7ff75a
100755
(executable)
--- a/
src/jalview/gui/IdwidthAdjuster.java
+++ b/
src/jalview/gui/IdwidthAdjuster.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/Jalview2XML.java
b/src/jalview/gui/Jalview2XML.java
index
a9827d4
..
cb29ab5
100644
(file)
--- a/
src/jalview/gui/Jalview2XML.java
+++ b/
src/jalview/gui/Jalview2XML.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/Jalview2XML_V1.java
b/src/jalview/gui/Jalview2XML_V1.java
index
5d1a89b
..
c8ac01c
100755
(executable)
--- a/
src/jalview/gui/Jalview2XML_V1.java
+++ b/
src/jalview/gui/Jalview2XML_V1.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/gui/JalviewAppender.java
b/src/jalview/gui/JalviewAppender.java
index
9c70e62
..
6842fa3
100644
(file)
--- a/
src/jalview/gui/JalviewAppender.java
+++ b/
src/jalview/gui/JalviewAppender.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/JalviewChangeSupport.java
b/src/jalview/gui/JalviewChangeSupport.java
index
371beac
..
97e3315
100644
(file)
--- a/
src/jalview/gui/JalviewChangeSupport.java
+++ b/
src/jalview/gui/JalviewChangeSupport.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.gui;
import java.beans.PropertyChangeEvent;
package jalview.gui;
import java.beans.PropertyChangeEvent;
diff --git
a/src/jalview/gui/JalviewDialog.java
b/src/jalview/gui/JalviewDialog.java
index
3b10e86
..
eee5ffe
100644
(file)
--- a/
src/jalview/gui/JalviewDialog.java
+++ b/
src/jalview/gui/JalviewDialog.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.gui;
import java.awt.Container;
package jalview.gui;
import java.awt.Container;
diff --git
a/src/jalview/gui/JvSwingUtils.java
b/src/jalview/gui/JvSwingUtils.java
index
b921a81
..
9573e1f
100644
(file)
--- a/
src/jalview/gui/JvSwingUtils.java
+++ b/
src/jalview/gui/JvSwingUtils.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/OOMWarning.java
b/src/jalview/gui/OOMWarning.java
index
8bcb29c
..
b14ac14
100644
(file)
--- a/
src/jalview/gui/OOMWarning.java
+++ b/
src/jalview/gui/OOMWarning.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/gui/OptsAndParamsPage.java
b/src/jalview/gui/OptsAndParamsPage.java
index
e4782a0
..
106c3b7
100644
(file)
--- a/
src/jalview/gui/OptsAndParamsPage.java
+++ b/
src/jalview/gui/OptsAndParamsPage.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.gui;
import jalview.ws.params.ArgumentI;
package jalview.gui;
import jalview.ws.params.ArgumentI;
diff --git
a/src/jalview/gui/OptsParametersContainerI.java
b/src/jalview/gui/OptsParametersContainerI.java
index
ae58c77
..
64e3d29
100644
(file)
--- a/
src/jalview/gui/OptsParametersContainerI.java
+++ b/
src/jalview/gui/OptsParametersContainerI.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.gui;
import jalview.gui.OptsAndParamsPage.ParamBox;
package jalview.gui;
import jalview.gui.OptsAndParamsPage.ParamBox;
diff --git
a/src/jalview/gui/OverviewPanel.java
b/src/jalview/gui/OverviewPanel.java
index
2426d4d
..
f8299bf
100755
(executable)
--- a/
src/jalview/gui/OverviewPanel.java
+++ b/
src/jalview/gui/OverviewPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/PCAPanel.java
b/src/jalview/gui/PCAPanel.java
index
2171e08
..
ac37106
100755
(executable)
--- a/
src/jalview/gui/PCAPanel.java
+++ b/
src/jalview/gui/PCAPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/PaintRefresher.java
b/src/jalview/gui/PaintRefresher.java
index
0a1c9f3
..
41a0da9
100755
(executable)
--- a/
src/jalview/gui/PaintRefresher.java
+++ b/
src/jalview/gui/PaintRefresher.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/PairwiseAlignPanel.java
b/src/jalview/gui/PairwiseAlignPanel.java
index
0dbb9c2
..
5ca572c
100755
(executable)
--- a/
src/jalview/gui/PairwiseAlignPanel.java
+++ b/
src/jalview/gui/PairwiseAlignPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/PopupMenu.java
b/src/jalview/gui/PopupMenu.java
index
d778125
..
da95ae0
100644
(file)
--- a/
src/jalview/gui/PopupMenu.java
+++ b/
src/jalview/gui/PopupMenu.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/Preferences.java
b/src/jalview/gui/Preferences.java
index
80a42a9
..
27c455e
100755
(executable)
--- a/
src/jalview/gui/Preferences.java
+++ b/
src/jalview/gui/Preferences.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/PromptUserConfig.java
b/src/jalview/gui/PromptUserConfig.java
index
942b20a
..
fae7783
100644
(file)
--- a/
src/jalview/gui/PromptUserConfig.java
+++ b/
src/jalview/gui/PromptUserConfig.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/RedundancyPanel.java
b/src/jalview/gui/RedundancyPanel.java
index
adbbfc3
..
16db1fa
100755
(executable)
--- a/
src/jalview/gui/RedundancyPanel.java
+++ b/
src/jalview/gui/RedundancyPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/RestInputParamEditDialog.java
b/src/jalview/gui/RestInputParamEditDialog.java
index
71fdb5d
..
fcff86d
100644
(file)
--- a/
src/jalview/gui/RestInputParamEditDialog.java
+++ b/
src/jalview/gui/RestInputParamEditDialog.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.gui;
import java.util.ArrayList;
package jalview.gui;
import java.util.ArrayList;
diff --git
a/src/jalview/gui/RestServiceEditorPane.java
b/src/jalview/gui/RestServiceEditorPane.java
index
5174b7a
..
dee5d7e
100644
(file)
--- a/
src/jalview/gui/RestServiceEditorPane.java
+++ b/
src/jalview/gui/RestServiceEditorPane.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.gui;
import jalview.io.packed.DataProvider.JvDataType;
package jalview.gui;
import jalview.io.packed.DataProvider.JvDataType;
diff --git
a/src/jalview/gui/RotatableCanvas.java
b/src/jalview/gui/RotatableCanvas.java
index
60cc19c
..
713f9b1
100755
(executable)
--- a/
src/jalview/gui/RotatableCanvas.java
+++ b/
src/jalview/gui/RotatableCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/ScalePanel.java
b/src/jalview/gui/ScalePanel.java
index
c50330b
..
a4f6546
100755
(executable)
--- a/
src/jalview/gui/ScalePanel.java
+++ b/
src/jalview/gui/ScalePanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/ScriptWindow.java
b/src/jalview/gui/ScriptWindow.java
index
c80248f
..
9211d0f
100644
(file)
--- a/
src/jalview/gui/ScriptWindow.java
+++ b/
src/jalview/gui/ScriptWindow.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/SeqCanvas.java
b/src/jalview/gui/SeqCanvas.java
index
f625838
..
b55e32b
100755
(executable)
--- a/
src/jalview/gui/SeqCanvas.java
+++ b/
src/jalview/gui/SeqCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/SeqPanel.java
b/src/jalview/gui/SeqPanel.java
index
968d302
..
ca5d7f7
100644
(file)
--- a/
src/jalview/gui/SeqPanel.java
+++ b/
src/jalview/gui/SeqPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/SequenceFetcher.java
b/src/jalview/gui/SequenceFetcher.java
index
2f90ba0
..
43c9d42
100755
(executable)
--- a/
src/jalview/gui/SequenceFetcher.java
+++ b/
src/jalview/gui/SequenceFetcher.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/SequenceRenderer.java
b/src/jalview/gui/SequenceRenderer.java
index
b15851c
..
b3dfc97
100755
(executable)
--- a/
src/jalview/gui/SequenceRenderer.java
+++ b/
src/jalview/gui/SequenceRenderer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/SliderPanel.java
b/src/jalview/gui/SliderPanel.java
index
ed3fc52
..
3eccf63
100755
(executable)
--- a/
src/jalview/gui/SliderPanel.java
+++ b/
src/jalview/gui/SliderPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/SplashScreen.java
b/src/jalview/gui/SplashScreen.java
index
2bc4f9e
..
cf424e8
100755
(executable)
--- a/
src/jalview/gui/SplashScreen.java
+++ b/
src/jalview/gui/SplashScreen.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/TextColourChooser.java
b/src/jalview/gui/TextColourChooser.java
index
bec6823
..
804dc0b
100644
(file)
--- a/
src/jalview/gui/TextColourChooser.java
+++ b/
src/jalview/gui/TextColourChooser.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/TreeCanvas.java
b/src/jalview/gui/TreeCanvas.java
index
17830fe
..
02be03f
100755
(executable)
--- a/
src/jalview/gui/TreeCanvas.java
+++ b/
src/jalview/gui/TreeCanvas.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/TreePanel.java
b/src/jalview/gui/TreePanel.java
index
3b7cb14
..
d8253db
100755
(executable)
--- a/
src/jalview/gui/TreePanel.java
+++ b/
src/jalview/gui/TreePanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/UserDefinedColours.java
b/src/jalview/gui/UserDefinedColours.java
index
f4afe56
..
792ef7d
100755
(executable)
--- a/
src/jalview/gui/UserDefinedColours.java
+++ b/
src/jalview/gui/UserDefinedColours.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/UserQuestionnaireCheck.java
b/src/jalview/gui/UserQuestionnaireCheck.java
index
1c08b9b
..
182ab1c
100644
(file)
--- a/
src/jalview/gui/UserQuestionnaireCheck.java
+++ b/
src/jalview/gui/UserQuestionnaireCheck.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/VamsasApplication.java
b/src/jalview/gui/VamsasApplication.java
index
1da1ae9
..
03b83cd
100644
(file)
--- a/
src/jalview/gui/VamsasApplication.java
+++ b/
src/jalview/gui/VamsasApplication.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/ViewSelectionMenu.java
b/src/jalview/gui/ViewSelectionMenu.java
index
c5433e5
..
47e96b2
100644
(file)
--- a/
src/jalview/gui/ViewSelectionMenu.java
+++ b/
src/jalview/gui/ViewSelectionMenu.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.gui;
import java.awt.Component;
package jalview.gui;
import java.awt.Component;
diff --git
a/src/jalview/gui/WebserviceInfo.java
b/src/jalview/gui/WebserviceInfo.java
index
78e72b2
..
ba7f4f3
100755
(executable)
--- a/
src/jalview/gui/WebserviceInfo.java
+++ b/
src/jalview/gui/WebserviceInfo.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/WsJobParameters.java
b/src/jalview/gui/WsJobParameters.java
index
ca5e8b1
..
b199489
100644
(file)
--- a/
src/jalview/gui/WsJobParameters.java
+++ b/
src/jalview/gui/WsJobParameters.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/WsParamSetManager.java
b/src/jalview/gui/WsParamSetManager.java
index
da42755
..
f7d6bc4
100644
(file)
--- a/
src/jalview/gui/WsParamSetManager.java
+++ b/
src/jalview/gui/WsParamSetManager.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/gui/WsPreferences.java
b/src/jalview/gui/WsPreferences.java
index
bc813ea
..
e2482f6
100644
(file)
--- a/
src/jalview/gui/WsPreferences.java
+++ b/
src/jalview/gui/WsPreferences.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/AMSAFile.java
b/src/jalview/io/AMSAFile.java
index
fb2a38b
..
64f8399
100644
(file)
--- a/
src/jalview/io/AMSAFile.java
+++ b/
src/jalview/io/AMSAFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/AlignFile.java
b/src/jalview/io/AlignFile.java
index
1e1b777
..
ad834be
100755
(executable)
--- a/
src/jalview/io/AlignFile.java
+++ b/
src/jalview/io/AlignFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/AlignmentProperties.java
b/src/jalview/io/AlignmentProperties.java
index
8d3e56a
..
9bb6ea9
100644
(file)
--- a/
src/jalview/io/AlignmentProperties.java
+++ b/
src/jalview/io/AlignmentProperties.java
@@
-1,5
+1,19
@@
-/**
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
*
*
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
*/
package jalview.io;
*/
package jalview.io;
diff --git
a/src/jalview/io/AnnotationFile.java
b/src/jalview/io/AnnotationFile.java
index
d4284a2
..
69926b5
100755
(executable)
--- a/
src/jalview/io/AnnotationFile.java
+++ b/
src/jalview/io/AnnotationFile.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/io/AppletFormatAdapter.java
b/src/jalview/io/AppletFormatAdapter.java
index
db4b49d
..
635c801
100755
(executable)
--- a/
src/jalview/io/AppletFormatAdapter.java
+++ b/
src/jalview/io/AppletFormatAdapter.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/BLCFile.java
b/src/jalview/io/BLCFile.java
index
f024415
..
7b080a4
100755
(executable)
--- a/
src/jalview/io/BLCFile.java
+++ b/
src/jalview/io/BLCFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/ClansFile.java
b/src/jalview/io/ClansFile.java
index
fafeaa6
..
9f32c70
100644
(file)
--- a/
src/jalview/io/ClansFile.java
+++ b/
src/jalview/io/ClansFile.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/io/ClustalFile.java
b/src/jalview/io/ClustalFile.java
index
7e22f3d
..
6a36078
100755
(executable)
--- a/
src/jalview/io/ClustalFile.java
+++ b/
src/jalview/io/ClustalFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/DBRefFile.java
b/src/jalview/io/DBRefFile.java
index
a1a88d9
..
f2df79a
100644
(file)
--- a/
src/jalview/io/DBRefFile.java
+++ b/
src/jalview/io/DBRefFile.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/io/FastaFile.java
b/src/jalview/io/FastaFile.java
index
b8e001a
..
1f51f44
100755
(executable)
--- a/
src/jalview/io/FastaFile.java
+++ b/
src/jalview/io/FastaFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/FeaturesFile.java
b/src/jalview/io/FeaturesFile.java
index
c3640bf
..
8664cba
100755
(executable)
--- a/
src/jalview/io/FeaturesFile.java
+++ b/
src/jalview/io/FeaturesFile.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/io/FileLoader.java
b/src/jalview/io/FileLoader.java
index
fe31a40
..
cbdfc6f
100755
(executable)
--- a/
src/jalview/io/FileLoader.java
+++ b/
src/jalview/io/FileLoader.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/FileParse.java
b/src/jalview/io/FileParse.java
index
0515507
..
718eab3
100755
(executable)
--- a/
src/jalview/io/FileParse.java
+++ b/
src/jalview/io/FileParse.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/FormatAdapter.java
b/src/jalview/io/FormatAdapter.java
index
a71d645
..
643e971
100755
(executable)
--- a/
src/jalview/io/FormatAdapter.java
+++ b/
src/jalview/io/FormatAdapter.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/HTMLOutput.java
b/src/jalview/io/HTMLOutput.java
index
f131ce6
..
e06acec
100755
(executable)
--- a/
src/jalview/io/HTMLOutput.java
+++ b/
src/jalview/io/HTMLOutput.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/IdentifyFile.java
b/src/jalview/io/IdentifyFile.java
index
8a9a121
..
7313043
100755
(executable)
--- a/
src/jalview/io/IdentifyFile.java
+++ b/
src/jalview/io/IdentifyFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/JPredFile.java
b/src/jalview/io/JPredFile.java
index
f41c2c3
..
59a010d
100755
(executable)
--- a/
src/jalview/io/JPredFile.java
+++ b/
src/jalview/io/JPredFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/JalviewFileChooser.java
b/src/jalview/io/JalviewFileChooser.java
index
acd24b3
..
7f0bab1
100755
(executable)
--- a/
src/jalview/io/JalviewFileChooser.java
+++ b/
src/jalview/io/JalviewFileChooser.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/JalviewFileFilter.java
b/src/jalview/io/JalviewFileFilter.java
index
a9a2d86
..
4fa2ae8
100755
(executable)
--- a/
src/jalview/io/JalviewFileFilter.java
+++ b/
src/jalview/io/JalviewFileFilter.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/JalviewFileView.java
b/src/jalview/io/JalviewFileView.java
index
5e0f588
..
82d0061
100755
(executable)
--- a/
src/jalview/io/JalviewFileView.java
+++ b/
src/jalview/io/JalviewFileView.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/JnetAnnotationMaker.java
b/src/jalview/io/JnetAnnotationMaker.java
index
11f05b7
..
7c6c61d
100755
(executable)
--- a/
src/jalview/io/JnetAnnotationMaker.java
+++ b/
src/jalview/io/JnetAnnotationMaker.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/MSFfile.java
b/src/jalview/io/MSFfile.java
index
71510cc
..
7c2e1b2
100755
(executable)
--- a/
src/jalview/io/MSFfile.java
+++ b/
src/jalview/io/MSFfile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/MatrixFile.java
b/src/jalview/io/MatrixFile.java
index
aeaee02
..
11463ce
100644
(file)
--- a/
src/jalview/io/MatrixFile.java
+++ b/
src/jalview/io/MatrixFile.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/io/ModellerDescription.java
b/src/jalview/io/ModellerDescription.java
index
3af2f93
..
21b2aaf
100755
(executable)
--- a/
src/jalview/io/ModellerDescription.java
+++ b/
src/jalview/io/ModellerDescription.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/NewickFile.java
b/src/jalview/io/NewickFile.java
index
b7df38f
..
5fdcc01
100755
(executable)
--- a/
src/jalview/io/NewickFile.java
+++ b/
src/jalview/io/NewickFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/PIRFile.java
b/src/jalview/io/PIRFile.java
index
fcd790e
..
571248a
100755
(executable)
--- a/
src/jalview/io/PIRFile.java
+++ b/
src/jalview/io/PIRFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/PfamFile.java
b/src/jalview/io/PfamFile.java
index
14debd4
..
b5415a3
100755
(executable)
--- a/
src/jalview/io/PfamFile.java
+++ b/
src/jalview/io/PfamFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/PileUpfile.java
b/src/jalview/io/PileUpfile.java
index
e4fb76a
..
bb55e02
100755
(executable)
--- a/
src/jalview/io/PileUpfile.java
+++ b/
src/jalview/io/PileUpfile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/SimpleBlastFile.java
b/src/jalview/io/SimpleBlastFile.java
index
b407a45
..
2f4f2e2
100644
(file)
--- a/
src/jalview/io/SimpleBlastFile.java
+++ b/
src/jalview/io/SimpleBlastFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/StockholmFile.java
b/src/jalview/io/StockholmFile.java
index
e81c31a
..
1625241
100644
(file)
--- a/
src/jalview/io/StockholmFile.java
+++ b/
src/jalview/io/StockholmFile.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/io/VamsasAppDatastore.java
b/src/jalview/io/VamsasAppDatastore.java
index
1d0b463
..
8228239
100644
(file)
--- a/
src/jalview/io/VamsasAppDatastore.java
+++ b/
src/jalview/io/VamsasAppDatastore.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/WSWUBlastClient.java
b/src/jalview/io/WSWUBlastClient.java
index
8fbf002
..
f4569dc
100755
(executable)
--- a/
src/jalview/io/WSWUBlastClient.java
+++ b/
src/jalview/io/WSWUBlastClient.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/packed/DataProvider.java
b/src/jalview/io/packed/DataProvider.java
index
964d85f
..
b3e8b3d
100644
(file)
--- a/
src/jalview/io/packed/DataProvider.java
+++ b/
src/jalview/io/packed/DataProvider.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.io.packed;
/**
package jalview.io.packed;
/**
diff --git
a/src/jalview/io/packed/JalviewDataset.java
b/src/jalview/io/packed/JalviewDataset.java
index
f4fe55b
..
bb70274
100644
(file)
--- a/
src/jalview/io/packed/JalviewDataset.java
+++ b/
src/jalview/io/packed/JalviewDataset.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.io.packed;
import jalview.datamodel.AlignmentI;
package jalview.io.packed;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/io/packed/ParsePackedSet.java
b/src/jalview/io/packed/ParsePackedSet.java
index
9a4af62
..
1b760df
100644
(file)
--- a/
src/jalview/io/packed/ParsePackedSet.java
+++ b/
src/jalview/io/packed/ParsePackedSet.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.io.packed;
import jalview.datamodel.AlignmentI;
package jalview.io.packed;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/io/packed/SimpleDataProvider.java
b/src/jalview/io/packed/SimpleDataProvider.java
index
6b00ddb
..
879c64f
100644
(file)
--- a/
src/jalview/io/packed/SimpleDataProvider.java
+++ b/
src/jalview/io/packed/SimpleDataProvider.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.io.packed;
import jalview.io.FileParse;
package jalview.io.packed;
import jalview.io.FileParse;
diff --git
a/src/jalview/io/vamsas/Datasetsequence.java
b/src/jalview/io/vamsas/Datasetsequence.java
index
7af8a7b
..
e57942b
100644
(file)
--- a/
src/jalview/io/vamsas/Datasetsequence.java
+++ b/
src/jalview/io/vamsas/Datasetsequence.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/io/vamsas/DatastoreItem.java
b/src/jalview/io/vamsas/DatastoreItem.java
index
0fef18a
..
1a5a1ea
100644
(file)
--- a/
src/jalview/io/vamsas/DatastoreItem.java
+++ b/
src/jalview/io/vamsas/DatastoreItem.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/vamsas/DatastoreRegistry.java
b/src/jalview/io/vamsas/DatastoreRegistry.java
index
7412f6a
..
f00426a
100644
(file)
--- a/
src/jalview/io/vamsas/DatastoreRegistry.java
+++ b/
src/jalview/io/vamsas/DatastoreRegistry.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/vamsas/Dbref.java
b/src/jalview/io/vamsas/Dbref.java
index
28ae762
..
218aa5b
100644
(file)
--- a/
src/jalview/io/vamsas/Dbref.java
+++ b/
src/jalview/io/vamsas/Dbref.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/vamsas/LocalDocSyncObject.java
b/src/jalview/io/vamsas/LocalDocSyncObject.java
index
0dfddf1
..
1ff29af
100644
(file)
--- a/
src/jalview/io/vamsas/LocalDocSyncObject.java
+++ b/
src/jalview/io/vamsas/LocalDocSyncObject.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/vamsas/Rangetype.java
b/src/jalview/io/vamsas/Rangetype.java
index
c4b817d
..
2fd2333
100644
(file)
--- a/
src/jalview/io/vamsas/Rangetype.java
+++ b/
src/jalview/io/vamsas/Rangetype.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/vamsas/Sequencefeature.java
b/src/jalview/io/vamsas/Sequencefeature.java
index
0525cf9
..
f69db60
100644
(file)
--- a/
src/jalview/io/vamsas/Sequencefeature.java
+++ b/
src/jalview/io/vamsas/Sequencefeature.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/io/vamsas/Sequencemapping.java
b/src/jalview/io/vamsas/Sequencemapping.java
index
ee0c2b6
..
2174553
100644
(file)
--- a/
src/jalview/io/vamsas/Sequencemapping.java
+++ b/
src/jalview/io/vamsas/Sequencemapping.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/io/vamsas/Tree.java
b/src/jalview/io/vamsas/Tree.java
index
9b76f91
..
eab51f0
100644
(file)
--- a/
src/jalview/io/vamsas/Tree.java
+++ b/
src/jalview/io/vamsas/Tree.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/javascript/JSFunctionExec.java
b/src/jalview/javascript/JSFunctionExec.java
index
6f7fc43
..
93b35e5
100644
(file)
--- a/
src/jalview/javascript/JSFunctionExec.java
+++ b/
src/jalview/javascript/JSFunctionExec.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.javascript;
\r
\r
import java.net.URL;
\r
package jalview.javascript;
\r
\r
import java.net.URL;
\r
diff --git
a/src/jalview/javascript/JalviewLiteJsApi.java
b/src/jalview/javascript/JalviewLiteJsApi.java
index
19b74ca
..
103e7da
100644
(file)
--- a/
src/jalview/javascript/JalviewLiteJsApi.java
+++ b/
src/jalview/javascript/JalviewLiteJsApi.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.javascript;
import jalview.appletgui.AlignFrame;
package jalview.javascript;
import jalview.appletgui.AlignFrame;
diff --git
a/src/jalview/javascript/JsCallBack.java
b/src/jalview/javascript/JsCallBack.java
index
b34be76
..
b069dee
100644
(file)
--- a/
src/jalview/javascript/JsCallBack.java
+++ b/
src/jalview/javascript/JsCallBack.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.javascript;
public interface JsCallBack
package jalview.javascript;
public interface JsCallBack
diff --git
a/src/jalview/javascript/JsSelectionSender.java
b/src/jalview/javascript/JsSelectionSender.java
index
e55c658
..
93731a9
100644
(file)
--- a/
src/jalview/javascript/JsSelectionSender.java
+++ b/
src/jalview/javascript/JsSelectionSender.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.javascript;
import java.net.URL;
package jalview.javascript;
import java.net.URL;
diff --git
a/src/jalview/javascript/MouseOverListener.java
b/src/jalview/javascript/MouseOverListener.java
index
82fd6a4
..
f6742b7
100644
(file)
--- a/
src/jalview/javascript/MouseOverListener.java
+++ b/
src/jalview/javascript/MouseOverListener.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.javascript;
import java.util.Vector;
package jalview.javascript;
import java.util.Vector;
diff --git
a/src/jalview/javascript/MouseOverStructureListener.java
b/src/jalview/javascript/MouseOverStructureListener.java
index
085e50d
..
fbb179f
100644
(file)
--- a/
src/jalview/javascript/MouseOverStructureListener.java
+++ b/
src/jalview/javascript/MouseOverStructureListener.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.javascript;
\r
\r
import java.awt.Color;
\r
package jalview.javascript;
\r
\r
import java.awt.Color;
\r
diff --git
a/src/jalview/jbgui/GAlignFrame.java
b/src/jalview/jbgui/GAlignFrame.java
index
92aa04c
..
6253e36
100755
(executable)
--- a/
src/jalview/jbgui/GAlignFrame.java
+++ b/
src/jalview/jbgui/GAlignFrame.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GAlignmentPanel.java
b/src/jalview/jbgui/GAlignmentPanel.java
index
0f59792
..
bcab09f
100755
(executable)
--- a/
src/jalview/jbgui/GAlignmentPanel.java
+++ b/
src/jalview/jbgui/GAlignmentPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GCutAndPasteTransfer.java
b/src/jalview/jbgui/GCutAndPasteTransfer.java
index
101cb03
..
5024fc2
100755
(executable)
--- a/
src/jalview/jbgui/GCutAndPasteTransfer.java
+++ b/
src/jalview/jbgui/GCutAndPasteTransfer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GDasSourceBrowser.java
b/src/jalview/jbgui/GDasSourceBrowser.java
index
bb7db14
..
f2fc849
100755
(executable)
--- a/
src/jalview/jbgui/GDasSourceBrowser.java
+++ b/
src/jalview/jbgui/GDasSourceBrowser.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/jbgui/GDesktop.java
b/src/jalview/jbgui/GDesktop.java
index
fc3f358
..
d7e8be3
100755
(executable)
--- a/
src/jalview/jbgui/GDesktop.java
+++ b/
src/jalview/jbgui/GDesktop.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GFinder.java
b/src/jalview/jbgui/GFinder.java
index
9691455
..
78ae0a8
100755
(executable)
--- a/
src/jalview/jbgui/GFinder.java
+++ b/
src/jalview/jbgui/GFinder.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GFontChooser.java
b/src/jalview/jbgui/GFontChooser.java
index
b8fbc5f
..
3352e42
100755
(executable)
--- a/
src/jalview/jbgui/GFontChooser.java
+++ b/
src/jalview/jbgui/GFontChooser.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GPCAPanel.java
b/src/jalview/jbgui/GPCAPanel.java
index
e4b20a0
..
843a4ec
100755
(executable)
--- a/
src/jalview/jbgui/GPCAPanel.java
+++ b/
src/jalview/jbgui/GPCAPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GPairwiseAlignPanel.java
b/src/jalview/jbgui/GPairwiseAlignPanel.java
index
a813f6d
..
dc0d511
100755
(executable)
--- a/
src/jalview/jbgui/GPairwiseAlignPanel.java
+++ b/
src/jalview/jbgui/GPairwiseAlignPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GPreferences.java
b/src/jalview/jbgui/GPreferences.java
index
2081416
..
6cad0b5
100755
(executable)
--- a/
src/jalview/jbgui/GPreferences.java
+++ b/
src/jalview/jbgui/GPreferences.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GRestInputParamEditDialog.java
b/src/jalview/jbgui/GRestInputParamEditDialog.java
index
a277759
..
f389430
100644
(file)
--- a/
src/jalview/jbgui/GRestInputParamEditDialog.java
+++ b/
src/jalview/jbgui/GRestInputParamEditDialog.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.jbgui;
import java.awt.Dimension;
package jalview.jbgui;
import java.awt.Dimension;
diff --git
a/src/jalview/jbgui/GRestServiceEditorPane.java
b/src/jalview/jbgui/GRestServiceEditorPane.java
index
c80e789
..
de35733
100644
(file)
--- a/
src/jalview/jbgui/GRestServiceEditorPane.java
+++ b/
src/jalview/jbgui/GRestServiceEditorPane.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.jbgui;
import jalview.gui.JvSwingUtils;
package jalview.jbgui;
import jalview.gui.JvSwingUtils;
diff --git
a/src/jalview/jbgui/GSequenceLink.java
b/src/jalview/jbgui/GSequenceLink.java
index
e9cfe4b
..
c8c5a5d
100755
(executable)
--- a/
src/jalview/jbgui/GSequenceLink.java
+++ b/
src/jalview/jbgui/GSequenceLink.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GSliderPanel.java
b/src/jalview/jbgui/GSliderPanel.java
index
b3663fe
..
8cd67db
100755
(executable)
--- a/
src/jalview/jbgui/GSliderPanel.java
+++ b/
src/jalview/jbgui/GSliderPanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GStructureViewer.java
b/src/jalview/jbgui/GStructureViewer.java
index
8116d82
..
28d2c7a
100644
(file)
--- a/
src/jalview/jbgui/GStructureViewer.java
+++ b/
src/jalview/jbgui/GStructureViewer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GTreePanel.java
b/src/jalview/jbgui/GTreePanel.java
index
f8a7203
..
53c1248
100755
(executable)
--- a/
src/jalview/jbgui/GTreePanel.java
+++ b/
src/jalview/jbgui/GTreePanel.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GUserDefinedColours.java
b/src/jalview/jbgui/GUserDefinedColours.java
index
e39e0f4
..
06b57db
100755
(executable)
--- a/
src/jalview/jbgui/GUserDefinedColours.java
+++ b/
src/jalview/jbgui/GUserDefinedColours.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GWebserviceInfo.java
b/src/jalview/jbgui/GWebserviceInfo.java
index
9fb3710
..
b76e48e
100755
(executable)
--- a/
src/jalview/jbgui/GWebserviceInfo.java
+++ b/
src/jalview/jbgui/GWebserviceInfo.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/jbgui/GWsPreferences.java
b/src/jalview/jbgui/GWsPreferences.java
index
171bd7b
..
451c8ba
100644
(file)
--- a/
src/jalview/jbgui/GWsPreferences.java
+++ b/
src/jalview/jbgui/GWsPreferences.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/math/Matrix.java
b/src/jalview/math/Matrix.java
index
10a17ab
..
bb55ed6
100755
(executable)
--- a/
src/jalview/math/Matrix.java
+++ b/
src/jalview/math/Matrix.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/math/RotatableMatrix.java
b/src/jalview/math/RotatableMatrix.java
index
674e069
..
1af539b
100755
(executable)
--- a/
src/jalview/math/RotatableMatrix.java
+++ b/
src/jalview/math/RotatableMatrix.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemabinding/version2/AlcodMap.java
b/src/jalview/schemabinding/version2/AlcodMap.java
index
61866aa
..
a98ab62
100644
(file)
--- a/
src/jalview/schemabinding/version2/AlcodMap.java
+++ b/
src/jalview/schemabinding/version2/AlcodMap.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Alcodon.java
b/src/jalview/schemabinding/version2/Alcodon.java
index
1732401
..
0ed8292
100644
(file)
--- a/
src/jalview/schemabinding/version2/Alcodon.java
+++ b/
src/jalview/schemabinding/version2/Alcodon.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/AlcodonFrame.java
b/src/jalview/schemabinding/version2/AlcodonFrame.java
index
76db239
..
33fdf99
100644
(file)
--- a/
src/jalview/schemabinding/version2/AlcodonFrame.java
+++ b/
src/jalview/schemabinding/version2/AlcodonFrame.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Annotation.java
b/src/jalview/schemabinding/version2/Annotation.java
index
a6d60ed
..
9fd0802
100644
(file)
--- a/
src/jalview/schemabinding/version2/Annotation.java
+++ b/
src/jalview/schemabinding/version2/Annotation.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/AnnotationColours.java
b/src/jalview/schemabinding/version2/AnnotationColours.java
index
96ab9d8
..
223c652
100644
(file)
--- a/
src/jalview/schemabinding/version2/AnnotationColours.java
+++ b/
src/jalview/schemabinding/version2/AnnotationColours.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/AnnotationElement.java
b/src/jalview/schemabinding/version2/AnnotationElement.java
index
6df737f
..
7e17396
100644
(file)
--- a/
src/jalview/schemabinding/version2/AnnotationElement.java
+++ b/
src/jalview/schemabinding/version2/AnnotationElement.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Colour.java
b/src/jalview/schemabinding/version2/Colour.java
index
d64263d
..
a5fc601
100644
(file)
--- a/
src/jalview/schemabinding/version2/Colour.java
+++ b/
src/jalview/schemabinding/version2/Colour.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/DBRef.java
b/src/jalview/schemabinding/version2/DBRef.java
index
3917e13
..
b93ca1f
100644
(file)
--- a/
src/jalview/schemabinding/version2/DBRef.java
+++ b/
src/jalview/schemabinding/version2/DBRef.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Feature.java
b/src/jalview/schemabinding/version2/Feature.java
index
c1bbb25
..
55ac992
100644
(file)
--- a/
src/jalview/schemabinding/version2/Feature.java
+++ b/
src/jalview/schemabinding/version2/Feature.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/FeatureSettings.java
b/src/jalview/schemabinding/version2/FeatureSettings.java
index
19c567c
..
fb2c04e
100644
(file)
--- a/
src/jalview/schemabinding/version2/FeatureSettings.java
+++ b/
src/jalview/schemabinding/version2/FeatureSettings.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Features.java
b/src/jalview/schemabinding/version2/Features.java
index
f0c5ad5
..
f109523
100644
(file)
--- a/
src/jalview/schemabinding/version2/Features.java
+++ b/
src/jalview/schemabinding/version2/Features.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Group.java
b/src/jalview/schemabinding/version2/Group.java
index
774321b
..
3ade8c4
100644
(file)
--- a/
src/jalview/schemabinding/version2/Group.java
+++ b/
src/jalview/schemabinding/version2/Group.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/HiddenColumns.java
b/src/jalview/schemabinding/version2/HiddenColumns.java
index
f65c9de
..
e25182f
100644
(file)
--- a/
src/jalview/schemabinding/version2/HiddenColumns.java
+++ b/
src/jalview/schemabinding/version2/HiddenColumns.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/JGroup.java
b/src/jalview/schemabinding/version2/JGroup.java
index
fda1802
..
cb83036
100644
(file)
--- a/
src/jalview/schemabinding/version2/JGroup.java
+++ b/
src/jalview/schemabinding/version2/JGroup.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/JSeq.java
b/src/jalview/schemabinding/version2/JSeq.java
index
d5eda07
..
d6d0192
100644
(file)
--- a/
src/jalview/schemabinding/version2/JSeq.java
+++ b/
src/jalview/schemabinding/version2/JSeq.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/JalviewModel.java
b/src/jalview/schemabinding/version2/JalviewModel.java
index
eec356c
..
6e6b46c
100644
(file)
--- a/
src/jalview/schemabinding/version2/JalviewModel.java
+++ b/
src/jalview/schemabinding/version2/JalviewModel.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/JalviewModelSequence.java
b/src/jalview/schemabinding/version2/JalviewModelSequence.java
index
cf69934
..
927f447
100644
(file)
--- a/
src/jalview/schemabinding/version2/JalviewModelSequence.java
+++ b/
src/jalview/schemabinding/version2/JalviewModelSequence.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/JalviewUserColours.java
b/src/jalview/schemabinding/version2/JalviewUserColours.java
index
e1f1a19
..
5aa62f8
100644
(file)
--- a/
src/jalview/schemabinding/version2/JalviewUserColours.java
+++ b/
src/jalview/schemabinding/version2/JalviewUserColours.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/MapListFrom.java
b/src/jalview/schemabinding/version2/MapListFrom.java
index
eaa86c2
..
aba37ec
100644
(file)
--- a/
src/jalview/schemabinding/version2/MapListFrom.java
+++ b/
src/jalview/schemabinding/version2/MapListFrom.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/MapListTo.java
b/src/jalview/schemabinding/version2/MapListTo.java
index
c60750a
..
6cb7e0d
100644
(file)
--- a/
src/jalview/schemabinding/version2/MapListTo.java
+++ b/
src/jalview/schemabinding/version2/MapListTo.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/MapListType.java
b/src/jalview/schemabinding/version2/MapListType.java
index
3efc950
..
e4240f4
100644
(file)
--- a/
src/jalview/schemabinding/version2/MapListType.java
+++ b/
src/jalview/schemabinding/version2/MapListType.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Mapping.java
b/src/jalview/schemabinding/version2/Mapping.java
index
068fd9f
..
6fbc00c
100644
(file)
--- a/
src/jalview/schemabinding/version2/Mapping.java
+++ b/
src/jalview/schemabinding/version2/Mapping.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/MappingChoice.java
b/src/jalview/schemabinding/version2/MappingChoice.java
index
297ed89
..
6ea0e09
100644
(file)
--- a/
src/jalview/schemabinding/version2/MappingChoice.java
+++ b/
src/jalview/schemabinding/version2/MappingChoice.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/OtherData.java
b/src/jalview/schemabinding/version2/OtherData.java
index
3cdd86e
..
69046dc
100644
(file)
--- a/
src/jalview/schemabinding/version2/OtherData.java
+++ b/
src/jalview/schemabinding/version2/OtherData.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Pdbentry.java
b/src/jalview/schemabinding/version2/Pdbentry.java
index
b5acfbd
..
32eae8d
100644
(file)
--- a/
src/jalview/schemabinding/version2/Pdbentry.java
+++ b/
src/jalview/schemabinding/version2/Pdbentry.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/PdbentryItem.java
b/src/jalview/schemabinding/version2/PdbentryItem.java
index
129bcc7
..
ab879e4
100644
(file)
--- a/
src/jalview/schemabinding/version2/PdbentryItem.java
+++ b/
src/jalview/schemabinding/version2/PdbentryItem.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Pdbids.java
b/src/jalview/schemabinding/version2/Pdbids.java
index
5266b99
..
5432b30
100644
(file)
--- a/
src/jalview/schemabinding/version2/Pdbids.java
+++ b/
src/jalview/schemabinding/version2/Pdbids.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Property.java
b/src/jalview/schemabinding/version2/Property.java
index
714544d
..
20d36bf
100644
(file)
--- a/
src/jalview/schemabinding/version2/Property.java
+++ b/
src/jalview/schemabinding/version2/Property.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Sequence.java
b/src/jalview/schemabinding/version2/Sequence.java
index
14137d8
..
b8c1d19
100644
(file)
--- a/
src/jalview/schemabinding/version2/Sequence.java
+++ b/
src/jalview/schemabinding/version2/Sequence.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/SequenceSet.java
b/src/jalview/schemabinding/version2/SequenceSet.java
index
7b670a5
..
c9e124e
100644
(file)
--- a/
src/jalview/schemabinding/version2/SequenceSet.java
+++ b/
src/jalview/schemabinding/version2/SequenceSet.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/SequenceSetProperties.java
b/src/jalview/schemabinding/version2/SequenceSetProperties.java
index
a078c78
..
4288229
100644
(file)
--- a/
src/jalview/schemabinding/version2/SequenceSetProperties.java
+++ b/
src/jalview/schemabinding/version2/SequenceSetProperties.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/SequenceType.java
b/src/jalview/schemabinding/version2/SequenceType.java
index
5886fbb
..
df0f1da
100644
(file)
--- a/
src/jalview/schemabinding/version2/SequenceType.java
+++ b/
src/jalview/schemabinding/version2/SequenceType.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Setting.java
b/src/jalview/schemabinding/version2/Setting.java
index
e7ea921
..
9b052e1
100644
(file)
--- a/
src/jalview/schemabinding/version2/Setting.java
+++ b/
src/jalview/schemabinding/version2/Setting.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/StructureState.java
b/src/jalview/schemabinding/version2/StructureState.java
index
46e20b9
..
39fea56
100644
(file)
--- a/
src/jalview/schemabinding/version2/StructureState.java
+++ b/
src/jalview/schemabinding/version2/StructureState.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/ThresholdLine.java
b/src/jalview/schemabinding/version2/ThresholdLine.java
index
31affa2
..
653ea68
100644
(file)
--- a/
src/jalview/schemabinding/version2/ThresholdLine.java
+++ b/
src/jalview/schemabinding/version2/ThresholdLine.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Tree.java
b/src/jalview/schemabinding/version2/Tree.java
index
4fd5e7d
..
8d24990
100644
(file)
--- a/
src/jalview/schemabinding/version2/Tree.java
+++ b/
src/jalview/schemabinding/version2/Tree.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/UserColourScheme.java
b/src/jalview/schemabinding/version2/UserColourScheme.java
index
de531a8
..
b8c7608
100644
(file)
--- a/
src/jalview/schemabinding/version2/UserColourScheme.java
+++ b/
src/jalview/schemabinding/version2/UserColourScheme.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/UserColours.java
b/src/jalview/schemabinding/version2/UserColours.java
index
8c56e0c
..
0a0753e
100644
(file)
--- a/
src/jalview/schemabinding/version2/UserColours.java
+++ b/
src/jalview/schemabinding/version2/UserColours.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/VAMSAS.java
b/src/jalview/schemabinding/version2/VAMSAS.java
index
8605dc5
..
3bb565f
100644
(file)
--- a/
src/jalview/schemabinding/version2/VAMSAS.java
+++ b/
src/jalview/schemabinding/version2/VAMSAS.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/VamsasModel.java
b/src/jalview/schemabinding/version2/VamsasModel.java
index
245bd3d
..
2b1499f
100644
(file)
--- a/
src/jalview/schemabinding/version2/VamsasModel.java
+++ b/
src/jalview/schemabinding/version2/VamsasModel.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/Viewport.java
b/src/jalview/schemabinding/version2/Viewport.java
index
55604ab
..
0db130f
100644
(file)
--- a/
src/jalview/schemabinding/version2/Viewport.java
+++ b/
src/jalview/schemabinding/version2/Viewport.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/WebServiceParameterSet.java
b/src/jalview/schemabinding/version2/WebServiceParameterSet.java
index
611c981
..
ba7f6a1
100644
(file)
--- a/
src/jalview/schemabinding/version2/WebServiceParameterSet.java
+++ b/
src/jalview/schemabinding/version2/WebServiceParameterSet.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java
index
0d95592
..
edfba43
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java
index
c6be168
..
998bc98
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java
index
9d9551a
..
30d9c98
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java
index
30f1dc9
..
c0e7e8f
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java
index
4fc6887
..
968c661
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java
index
abc0041
..
644e8af
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java
index
3f6ae2d
..
38d8159
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java
index
00f81d2
..
3618b65
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java
index
019c680
..
f10d1d7
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java
index
69ed769
..
b15bad4
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java
index
b292135
..
29d3f16
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java
index
8c03e2e
..
531a24a
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java
index
9408f58
..
944c9e9
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java
index
bfc0b8f
..
d87439d
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java
index
ab0eaaf
..
b99687c
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java
index
be9c022
..
2b5e02a
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java
index
765cd8a
..
e33e6c5
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java
index
47d0769
..
bcc6801
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java
index
91dffbe
..
1c30225
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java
index
43a4033
..
393eb3f
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java
index
8b92065
..
c7b217f
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java
index
b0aa8f9
..
6edaa47
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java
index
45157ff
..
937b298
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java
index
201f4df
..
516d841
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java
index
548be45
..
f5f95a7
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java
index
cb2b5da
..
1800aa8
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java
index
f005ce6
..
9728465
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java
index
b7087d2
..
8960603
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java
index
2de6b0a
..
2798c1a
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java
index
1542223
..
4d7daca
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java
index
5c8be83
..
e90908f
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java
index
27305e7
..
9638913
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java
index
9c2de5b
..
44ea42c
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java
index
ddf9b1e
..
a01f2f5
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java
index
851ccb2
..
4d8f645
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java
index
5beffc1
..
6b46c5b
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java
index
7fcc16f
..
6c71d87
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java
index
e5e799b
..
1fb1b50
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java
index
730fe2e
..
506e479
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java
index
584c096
..
72f0b41
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java
index
4872d24
..
13ad9f7
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java
b/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java
index
8c61a2d
..
005a71f
100644
(file)
--- a/
src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java
+++ b/
src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
/*
* This class was automatically generated with
* <a href="http://www.castor.org">Castor 1.1</a>, using an XML
diff --git
a/src/jalview/schemes/AnnotationColourGradient.java
b/src/jalview/schemes/AnnotationColourGradient.java
index
36c1f95
..
e265598
100755
(executable)
--- a/
src/jalview/schemes/AnnotationColourGradient.java
+++ b/
src/jalview/schemes/AnnotationColourGradient.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/Blosum62ColourScheme.java
b/src/jalview/schemes/Blosum62ColourScheme.java
index
0a943bd
..
3236b55
100755
(executable)
--- a/
src/jalview/schemes/Blosum62ColourScheme.java
+++ b/
src/jalview/schemes/Blosum62ColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/BuriedColourScheme.java
b/src/jalview/schemes/BuriedColourScheme.java
index
b92b5dd
..
af85e08
100755
(executable)
--- a/
src/jalview/schemes/BuriedColourScheme.java
+++ b/
src/jalview/schemes/BuriedColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/ClustalxColourScheme.java
b/src/jalview/schemes/ClustalxColourScheme.java
index
8822567
..
309bdc2
100755
(executable)
--- a/
src/jalview/schemes/ClustalxColourScheme.java
+++ b/
src/jalview/schemes/ClustalxColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/ColourSchemeI.java
b/src/jalview/schemes/ColourSchemeI.java
index
009ab0b
..
fdda463
100755
(executable)
--- a/
src/jalview/schemes/ColourSchemeI.java
+++ b/
src/jalview/schemes/ColourSchemeI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/ColourSchemeProperty.java
b/src/jalview/schemes/ColourSchemeProperty.java
index
f50ac0a
..
0f758e0
100755
(executable)
--- a/
src/jalview/schemes/ColourSchemeProperty.java
+++ b/
src/jalview/schemes/ColourSchemeProperty.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/Consensus.java
b/src/jalview/schemes/Consensus.java
index
d3942df
..
0c010d5
100755
(executable)
--- a/
src/jalview/schemes/Consensus.java
+++ b/
src/jalview/schemes/Consensus.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/GraduatedColor.java
b/src/jalview/schemes/GraduatedColor.java
index
68b0c1a
..
037b6ca
100644
(file)
--- a/
src/jalview/schemes/GraduatedColor.java
+++ b/
src/jalview/schemes/GraduatedColor.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/HelixColourScheme.java
b/src/jalview/schemes/HelixColourScheme.java
index
0fa96e5
..
32dd06e
100755
(executable)
--- a/
src/jalview/schemes/HelixColourScheme.java
+++ b/
src/jalview/schemes/HelixColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/HydrophobicColourScheme.java
b/src/jalview/schemes/HydrophobicColourScheme.java
index
56a00ca
..
5714a28
100755
(executable)
--- a/
src/jalview/schemes/HydrophobicColourScheme.java
+++ b/
src/jalview/schemes/HydrophobicColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/NucleotideColourScheme.java
b/src/jalview/schemes/NucleotideColourScheme.java
index
27d4ce3
..
249d87d
100755
(executable)
--- a/
src/jalview/schemes/NucleotideColourScheme.java
+++ b/
src/jalview/schemes/NucleotideColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/PIDColourScheme.java
b/src/jalview/schemes/PIDColourScheme.java
index
f088bc5
..
23a2ee2
100755
(executable)
--- a/
src/jalview/schemes/PIDColourScheme.java
+++ b/
src/jalview/schemes/PIDColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/ResidueColourScheme.java
b/src/jalview/schemes/ResidueColourScheme.java
index
788124c
..
5402d75
100755
(executable)
--- a/
src/jalview/schemes/ResidueColourScheme.java
+++ b/
src/jalview/schemes/ResidueColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/ResidueProperties.java
b/src/jalview/schemes/ResidueProperties.java
index
9115681
..
c46c07d
100755
(executable)
--- a/
src/jalview/schemes/ResidueProperties.java
+++ b/
src/jalview/schemes/ResidueProperties.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/ScoreColourScheme.java
b/src/jalview/schemes/ScoreColourScheme.java
index
fd6b9fb
..
37dd9e5
100755
(executable)
--- a/
src/jalview/schemes/ScoreColourScheme.java
+++ b/
src/jalview/schemes/ScoreColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/ScoreMatrix.java
b/src/jalview/schemes/ScoreMatrix.java
index
e38b805
..
6a4ceec
100644
(file)
--- a/
src/jalview/schemes/ScoreMatrix.java
+++ b/
src/jalview/schemes/ScoreMatrix.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/schemes/StrandColourScheme.java
b/src/jalview/schemes/StrandColourScheme.java
index
989093c
..
5de9cdb
100755
(executable)
--- a/
src/jalview/schemes/StrandColourScheme.java
+++ b/
src/jalview/schemes/StrandColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/TaylorColourScheme.java
b/src/jalview/schemes/TaylorColourScheme.java
index
82be5cf
..
3416a51
100755
(executable)
--- a/
src/jalview/schemes/TaylorColourScheme.java
+++ b/
src/jalview/schemes/TaylorColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/TurnColourScheme.java
b/src/jalview/schemes/TurnColourScheme.java
index
61342f8
..
208db8d
100755
(executable)
--- a/
src/jalview/schemes/TurnColourScheme.java
+++ b/
src/jalview/schemes/TurnColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/UserColourScheme.java
b/src/jalview/schemes/UserColourScheme.java
index
9b01332
..
b6602ea
100755
(executable)
--- a/
src/jalview/schemes/UserColourScheme.java
+++ b/
src/jalview/schemes/UserColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/schemes/ZappoColourScheme.java
b/src/jalview/schemes/ZappoColourScheme.java
index
4d8c03f
..
bc193fd
100755
(executable)
--- a/
src/jalview/schemes/ZappoColourScheme.java
+++ b/
src/jalview/schemes/ZappoColourScheme.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/structure/AlignmentViewPanelListener.java
b/src/jalview/structure/AlignmentViewPanelListener.java
index
b14949e
..
5794a42
100644
(file)
--- a/
src/jalview/structure/AlignmentViewPanelListener.java
+++ b/
src/jalview/structure/AlignmentViewPanelListener.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.structure;
import jalview.api.AlignmentViewPanel;
package jalview.structure;
import jalview.api.AlignmentViewPanel;
diff --git
a/src/jalview/structure/SelectionListener.java
b/src/jalview/structure/SelectionListener.java
index
40a9b59
..
c4bb355
100644
(file)
--- a/
src/jalview/structure/SelectionListener.java
+++ b/
src/jalview/structure/SelectionListener.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/structure/SelectionSource.java
b/src/jalview/structure/SelectionSource.java
index
68c5afa
..
1cf7007
100644
(file)
--- a/
src/jalview/structure/SelectionSource.java
+++ b/
src/jalview/structure/SelectionSource.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/structure/SequenceListener.java
b/src/jalview/structure/SequenceListener.java
index
cba1217
..
f7ba696
100644
(file)
--- a/
src/jalview/structure/SequenceListener.java
+++ b/
src/jalview/structure/SequenceListener.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/structure/StructureListener.java
b/src/jalview/structure/StructureListener.java
index
698fa7e
..
c2d1ecb
100644
(file)
--- a/
src/jalview/structure/StructureListener.java
+++ b/
src/jalview/structure/StructureListener.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/structure/StructureMapping.java
b/src/jalview/structure/StructureMapping.java
index
14ec229
..
84e25ba
100644
(file)
--- a/
src/jalview/structure/StructureMapping.java
+++ b/
src/jalview/structure/StructureMapping.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/structure/StructureMappingcommandSet.java
b/src/jalview/structure/StructureMappingcommandSet.java
index
5bf6e57
..
44631a8
100644
(file)
--- a/
src/jalview/structure/StructureMappingcommandSet.java
+++ b/
src/jalview/structure/StructureMappingcommandSet.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.structure;
package jalview.structure;
diff --git
a/src/jalview/structure/StructureSelectionManager.java
b/src/jalview/structure/StructureSelectionManager.java
index
e6634fc
..
f9e8fdb
100644
(file)
--- a/
src/jalview/structure/StructureSelectionManager.java
+++ b/
src/jalview/structure/StructureSelectionManager.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/structure/VamsasListener.java
b/src/jalview/structure/VamsasListener.java
index
c8f801b
..
af5d720
100644
(file)
--- a/
src/jalview/structure/VamsasListener.java
+++ b/
src/jalview/structure/VamsasListener.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/structure/VamsasSource.java
b/src/jalview/structure/VamsasSource.java
index
50e7278
..
2e3d78d
100644
(file)
--- a/
src/jalview/structure/VamsasSource.java
+++ b/
src/jalview/structure/VamsasSource.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.structure;
package jalview.structure;
diff --git
a/src/jalview/util/AWTConsole.java
b/src/jalview/util/AWTConsole.java
index
14f23a9
..
c2a73f7
100644
(file)
--- a/
src/jalview/util/AWTConsole.java
+++ b/
src/jalview/util/AWTConsole.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/util/BrowserLauncher.java
b/src/jalview/util/BrowserLauncher.java
index
540c521
..
23324a0
100755
(executable)
--- a/
src/jalview/util/BrowserLauncher.java
+++ b/
src/jalview/util/BrowserLauncher.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/util/Comparison.java
b/src/jalview/util/Comparison.java
index
60f21c8
..
ff4e1a9
100644
(file)
--- a/
src/jalview/util/Comparison.java
+++ b/
src/jalview/util/Comparison.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/util/DBRefUtils.java
b/src/jalview/util/DBRefUtils.java
index
b772305
..
42fbef6
100755
(executable)
--- a/
src/jalview/util/DBRefUtils.java
+++ b/
src/jalview/util/DBRefUtils.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/util/Format.java
b/src/jalview/util/Format.java
index
97a97ac
..
89d5a5c
100755
(executable)
--- a/
src/jalview/util/Format.java
+++ b/
src/jalview/util/Format.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/util/GroupUrlLink.java
b/src/jalview/util/GroupUrlLink.java
index
fccf3a4
..
581ca4b
100644
(file)
--- a/
src/jalview/util/GroupUrlLink.java
+++ b/
src/jalview/util/GroupUrlLink.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/util/ImageMaker.java
b/src/jalview/util/ImageMaker.java
index
01632c9
..
b4547be
100755
(executable)
--- a/
src/jalview/util/ImageMaker.java
+++ b/
src/jalview/util/ImageMaker.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/util/MapList.java
b/src/jalview/util/MapList.java
index
4802d8c
..
e5a0254
100644
(file)
--- a/
src/jalview/util/MapList.java
+++ b/
src/jalview/util/MapList.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/util/ParseHtmlBodyAndLinks.java
b/src/jalview/util/ParseHtmlBodyAndLinks.java
index
5cb0a46
..
8bd19a0
100644
(file)
--- a/
src/jalview/util/ParseHtmlBodyAndLinks.java
+++ b/
src/jalview/util/ParseHtmlBodyAndLinks.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.util;
import java.util.ArrayList;
package jalview.util;
import java.util.ArrayList;
diff --git
a/src/jalview/util/Platform.java
b/src/jalview/util/Platform.java
index
d12560e
..
392f1f9
100644
(file)
--- a/
src/jalview/util/Platform.java
+++ b/
src/jalview/util/Platform.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/util/QuickSort.java
b/src/jalview/util/QuickSort.java
index
1e3e5c1
..
94ec1aa
100755
(executable)
--- a/
src/jalview/util/QuickSort.java
+++ b/
src/jalview/util/QuickSort.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/util/ShiftList.java
b/src/jalview/util/ShiftList.java
index
7b13045
..
9fb5eca
100644
(file)
--- a/
src/jalview/util/ShiftList.java
+++ b/
src/jalview/util/ShiftList.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/util/TableSorter.java
b/src/jalview/util/TableSorter.java
index
495fb21
..
f1a8794
100755
(executable)
--- a/
src/jalview/util/TableSorter.java
+++ b/
src/jalview/util/TableSorter.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/util/UrlLink.java
b/src/jalview/util/UrlLink.java
index
52a8140
..
84a327a
100644
(file)
--- a/
src/jalview/util/UrlLink.java
+++ b/
src/jalview/util/UrlLink.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/util/jarInputStreamProvider.java
b/src/jalview/util/jarInputStreamProvider.java
index
8357269
..
1f02d31
100644
(file)
--- a/
src/jalview/util/jarInputStreamProvider.java
+++ b/
src/jalview/util/jarInputStreamProvider.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/AWSThread.java
b/src/jalview/ws/AWSThread.java
index
9b41ead
..
108ca03
100644
(file)
--- a/
src/jalview/ws/AWSThread.java
+++ b/
src/jalview/ws/AWSThread.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/AWsJob.java
b/src/jalview/ws/AWsJob.java
index
e653539
..
1b89758
100644
(file)
--- a/
src/jalview/ws/AWsJob.java
+++ b/
src/jalview/ws/AWsJob.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/DBRefFetcher.java
b/src/jalview/ws/DBRefFetcher.java
index
c1fe276
..
d235410
100644
(file)
--- a/
src/jalview/ws/DBRefFetcher.java
+++ b/
src/jalview/ws/DBRefFetcher.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/DasSequenceFeatureFetcher.java
b/src/jalview/ws/DasSequenceFeatureFetcher.java
index
4262f7e
..
bf200ce
100644
(file)
--- a/
src/jalview/ws/DasSequenceFeatureFetcher.java
+++ b/
src/jalview/ws/DasSequenceFeatureFetcher.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/EnfinEnvision2OneWay.java
b/src/jalview/ws/EnfinEnvision2OneWay.java
index
a11542c
..
7c9f575
100644
(file)
--- a/
src/jalview/ws/EnfinEnvision2OneWay.java
+++ b/
src/jalview/ws/EnfinEnvision2OneWay.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/JobStateSummary.java
b/src/jalview/ws/JobStateSummary.java
index
3ac1f73
..
c117e4b
100644
(file)
--- a/
src/jalview/ws/JobStateSummary.java
+++ b/
src/jalview/ws/JobStateSummary.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/SequenceFetcher.java
b/src/jalview/ws/SequenceFetcher.java
index
fa58a2c
..
4f9e0ab
100644
(file)
--- a/
src/jalview/ws/SequenceFetcher.java
+++ b/
src/jalview/ws/SequenceFetcher.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/WSClient.java
b/src/jalview/ws/WSClient.java
index
d89ab73
..
3f10686
100755
(executable)
--- a/
src/jalview/ws/WSClient.java
+++ b/
src/jalview/ws/WSClient.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/WSClientI.java
b/src/jalview/ws/WSClientI.java
index
f6d0de3
..
993865c
100755
(executable)
--- a/
src/jalview/ws/WSClientI.java
+++ b/
src/jalview/ws/WSClientI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/WSMenuEntryProviderI.java
b/src/jalview/ws/WSMenuEntryProviderI.java
index
de14561
..
608a282
100644
(file)
--- a/
src/jalview/ws/WSMenuEntryProviderI.java
+++ b/
src/jalview/ws/WSMenuEntryProviderI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/dbsources/DasSequenceSource.java
b/src/jalview/ws/dbsources/DasSequenceSource.java
index
da48d57
..
f03665d
100644
(file)
--- a/
src/jalview/ws/dbsources/DasSequenceSource.java
+++ b/
src/jalview/ws/dbsources/DasSequenceSource.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/EbiFileRetrievedProxy.java
b/src/jalview/ws/dbsources/EbiFileRetrievedProxy.java
index
bc3c7b2
..
d803bea
100644
(file)
--- a/
src/jalview/ws/dbsources/EbiFileRetrievedProxy.java
+++ b/
src/jalview/ws/dbsources/EbiFileRetrievedProxy.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/EmblCdsSouce.java
b/src/jalview/ws/dbsources/EmblCdsSouce.java
index
2683ba4
..
1345f48
100644
(file)
--- a/
src/jalview/ws/dbsources/EmblCdsSouce.java
+++ b/
src/jalview/ws/dbsources/EmblCdsSouce.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/EmblSource.java
b/src/jalview/ws/dbsources/EmblSource.java
index
007ae52
..
9573f72
100644
(file)
--- a/
src/jalview/ws/dbsources/EmblSource.java
+++ b/
src/jalview/ws/dbsources/EmblSource.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/EmblXmlSource.java
b/src/jalview/ws/dbsources/EmblXmlSource.java
index
baffc6d
..
80206c0
100644
(file)
--- a/
src/jalview/ws/dbsources/EmblXmlSource.java
+++ b/
src/jalview/ws/dbsources/EmblXmlSource.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/GeneDbSource.java
b/src/jalview/ws/dbsources/GeneDbSource.java
index
06e1164
..
1cbfef8
100644
(file)
--- a/
src/jalview/ws/dbsources/GeneDbSource.java
+++ b/
src/jalview/ws/dbsources/GeneDbSource.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/Pdb.java
b/src/jalview/ws/dbsources/Pdb.java
index
ae1f794
..
7586856
100644
(file)
--- a/
src/jalview/ws/dbsources/Pdb.java
+++ b/
src/jalview/ws/dbsources/Pdb.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/Pfam.java
b/src/jalview/ws/dbsources/Pfam.java
index
1b2a0c4
..
8ce586a
100644
(file)
--- a/
src/jalview/ws/dbsources/Pfam.java
+++ b/
src/jalview/ws/dbsources/Pfam.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/PfamFull.java
b/src/jalview/ws/dbsources/PfamFull.java
index
a32068b
..
5f579f6
100644
(file)
--- a/
src/jalview/ws/dbsources/PfamFull.java
+++ b/
src/jalview/ws/dbsources/PfamFull.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/PfamSeed.java
b/src/jalview/ws/dbsources/PfamSeed.java
index
3e1eced
..
0e85f65
100644
(file)
--- a/
src/jalview/ws/dbsources/PfamSeed.java
+++ b/
src/jalview/ws/dbsources/PfamSeed.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/Uniprot.java
b/src/jalview/ws/dbsources/Uniprot.java
index
e599b33
..
17d0ca8
100644
(file)
--- a/
src/jalview/ws/dbsources/Uniprot.java
+++ b/
src/jalview/ws/dbsources/Uniprot.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/dbsources/UnprotName.java
b/src/jalview/ws/dbsources/UnprotName.java
index
a79bcda
..
1d1b9f0
100644
(file)
--- a/
src/jalview/ws/dbsources/UnprotName.java
+++ b/
src/jalview/ws/dbsources/UnprotName.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/dbsources/das/DasSequenceSourceListener.java
b/src/jalview/ws/dbsources/das/DasSequenceSourceListener.java
index
e5c7c38
..
0b0a065
100644
(file)
--- a/
src/jalview/ws/dbsources/das/DasSequenceSourceListener.java
+++ b/
src/jalview/ws/dbsources/das/DasSequenceSourceListener.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/ebi/EBIFetchClient.java
b/src/jalview/ws/ebi/EBIFetchClient.java
index
efb2739
..
7135d0c
100644
(file)
--- a/
src/jalview/ws/ebi/EBIFetchClient.java
+++ b/
src/jalview/ws/ebi/EBIFetchClient.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/io/mime/HttpContentHandler.java
b/src/jalview/ws/io/mime/HttpContentHandler.java
index
c9a1bd2
..
03cc637
100644
(file)
--- a/
src/jalview/ws/io/mime/HttpContentHandler.java
+++ b/
src/jalview/ws/io/mime/HttpContentHandler.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.io.mime;
import java.net.ContentHandler;
package jalview.ws.io.mime;
import java.net.ContentHandler;
diff --git
a/src/jalview/ws/io/mime/JalviewMimeContentHandler.java
b/src/jalview/ws/io/mime/JalviewMimeContentHandler.java
index
399d0cb
..
53f6436
100644
(file)
--- a/
src/jalview/ws/io/mime/JalviewMimeContentHandler.java
+++ b/
src/jalview/ws/io/mime/JalviewMimeContentHandler.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.io.mime;
import jalview.io.packed.DataProvider;
package jalview.ws.io.mime;
import jalview.io.packed.DataProvider;
diff --git
a/src/jalview/ws/io/mime/MimeTypes.java
b/src/jalview/ws/io/mime/MimeTypes.java
index
d62d077
..
5dd1e42
100644
(file)
--- a/
src/jalview/ws/io/mime/MimeTypes.java
+++ b/
src/jalview/ws/io/mime/MimeTypes.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.io.mime;
import jalview.io.packed.DataProvider.JvDataType;
package jalview.ws.io.mime;
import jalview.io.packed.DataProvider.JvDataType;
diff --git
a/src/jalview/ws/jws1/Discoverer.java
b/src/jalview/ws/jws1/Discoverer.java
index
c8b1cda
..
c401452
100644
(file)
--- a/
src/jalview/ws/jws1/Discoverer.java
+++ b/
src/jalview/ws/jws1/Discoverer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-17,27
+17,6
@@
*/
package jalview.ws.jws1;
*/
package jalview.ws.jws1;
-/**
- * <p>
- * Title:
- * </p>
- *
- * <p>
- * Description:
- * </p>
- *
- * <p>
- * Copyright: Copyright (c) 2004
- * </p>
- *
- * <p>
- * Company: Dundee University
- * </p>
- *
- * @author not attributable
- * @version 1.0
- */
-
import java.util.*;
import javax.swing.*;
import java.util.*;
import javax.swing.*;
diff --git
a/src/jalview/ws/jws1/JPredClient.java
b/src/jalview/ws/jws1/JPredClient.java
index
f479347
..
b429c97
100644
(file)
--- a/
src/jalview/ws/jws1/JPredClient.java
+++ b/
src/jalview/ws/jws1/JPredClient.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws1/JPredThread.java
b/src/jalview/ws/jws1/JPredThread.java
index
5d734c1
..
796c2af
100644
(file)
--- a/
src/jalview/ws/jws1/JPredThread.java
+++ b/
src/jalview/ws/jws1/JPredThread.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws1/JWS1Thread.java
b/src/jalview/ws/jws1/JWS1Thread.java
index
0d578c6
..
18fed82
100644
(file)
--- a/
src/jalview/ws/jws1/JWS1Thread.java
+++ b/
src/jalview/ws/jws1/JWS1Thread.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws1/MsaWSClient.java
b/src/jalview/ws/jws1/MsaWSClient.java
index
a5f1216
..
1a9552b
100644
(file)
--- a/
src/jalview/ws/jws1/MsaWSClient.java
+++ b/
src/jalview/ws/jws1/MsaWSClient.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws1/MsaWSThread.java
b/src/jalview/ws/jws1/MsaWSThread.java
index
3eca137
..
602eb50
100644
(file)
--- a/
src/jalview/ws/jws1/MsaWSThread.java
+++ b/
src/jalview/ws/jws1/MsaWSThread.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-28,26
+28,6
@@
import jalview.ws.JobStateSummary;
import jalview.ws.WSClientI;
import vamsas.objects.simple.MsaResult;
import jalview.ws.WSClientI;
import vamsas.objects.simple.MsaResult;
-/**
- * <p>
- * Title:
- * </p>
- *
- * <p>
- * Description:
- * </p>
- *
- * <p>
- * Copyright: Copyright (c) 2004
- * </p>
- *
- * <p>
- * Company: Dundee University
- * </p>
- *
- * @author not attributable
- * @version 1.0
- */
class MsaWSThread extends JWS1Thread implements WSClientI
{
boolean submitGaps = false; // pass sequences including gaps to alignment
class MsaWSThread extends JWS1Thread implements WSClientI
{
boolean submitGaps = false; // pass sequences including gaps to alignment
diff --git
a/src/jalview/ws/jws1/SeqSearchWSClient.java
b/src/jalview/ws/jws1/SeqSearchWSClient.java
index
c344967
..
2628f04
100644
(file)
--- a/
src/jalview/ws/jws1/SeqSearchWSClient.java
+++ b/
src/jalview/ws/jws1/SeqSearchWSClient.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws1/SeqSearchWSThread.java
b/src/jalview/ws/jws1/SeqSearchWSThread.java
index
99a8d03
..
aeefcd1
100644
(file)
--- a/
src/jalview/ws/jws1/SeqSearchWSThread.java
+++ b/
src/jalview/ws/jws1/SeqSearchWSThread.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-30,26
+30,6
@@
import jalview.ws.WSClientI;
import vamsas.objects.simple.MsaResult;
import vamsas.objects.simple.SeqSearchResult;
import vamsas.objects.simple.MsaResult;
import vamsas.objects.simple.SeqSearchResult;
-/**
- * <p>
- * Title:
- * </p>
- *
- * <p>
- * Description:
- * </p>
- *
- * <p>
- * Copyright: Copyright (c) 2004
- * </p>
- *
- * <p>
- * Company: Dundee University
- * </p>
- *
- * @author not attributable
- * @version 1.0
- */
class SeqSearchWSThread extends JWS1Thread implements WSClientI
{
String dbs = null;
class SeqSearchWSThread extends JWS1Thread implements WSClientI
{
String dbs = null;
diff --git
a/src/jalview/ws/jws1/WS1Client.java
b/src/jalview/ws/jws1/WS1Client.java
index
f05585d
..
79ef6d1
100644
(file)
--- a/
src/jalview/ws/jws1/WS1Client.java
+++ b/
src/jalview/ws/jws1/WS1Client.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws1/WSJob.java
b/src/jalview/ws/jws1/WSJob.java
index
e542c3f
..
481ff27
100644
(file)
--- a/
src/jalview/ws/jws1/WSJob.java
+++ b/
src/jalview/ws/jws1/WSJob.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/AWS2Thread.java
b/src/jalview/ws/jws2/AWS2Thread.java
index
a33e90c
..
28ed672
100644
(file)
--- a/
src/jalview/ws/jws2/AWS2Thread.java
+++ b/
src/jalview/ws/jws2/AWS2Thread.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/JWs2Job.java
b/src/jalview/ws/jws2/JWs2Job.java
index
bbc0604
..
7382b9f
100644
(file)
--- a/
src/jalview/ws/jws2/JWs2Job.java
+++ b/
src/jalview/ws/jws2/JWs2Job.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/JabaParamStore.java
b/src/jalview/ws/jws2/JabaParamStore.java
index
526c5b0
..
856646c
100644
(file)
--- a/
src/jalview/ws/jws2/JabaParamStore.java
+++ b/
src/jalview/ws/jws2/JabaParamStore.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/JabaPreset.java
b/src/jalview/ws/jws2/JabaPreset.java
index
c86a790
..
8586d24
100644
(file)
--- a/
src/jalview/ws/jws2/JabaPreset.java
+++ b/
src/jalview/ws/jws2/JabaPreset.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/JabaWsServerQuery.java
b/src/jalview/ws/jws2/JabaWsServerQuery.java
index
2799e98
..
74a5df1
100644
(file)
--- a/
src/jalview/ws/jws2/JabaWsServerQuery.java
+++ b/
src/jalview/ws/jws2/JabaWsServerQuery.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/**
*
*/
/**
*
*/
diff --git
a/src/jalview/ws/jws2/Jws2Client.java
b/src/jalview/ws/jws2/Jws2Client.java
index
a9ca8f0
..
6e60c07
100644
(file)
--- a/
src/jalview/ws/jws2/Jws2Client.java
+++ b/
src/jalview/ws/jws2/Jws2Client.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/Jws2Discoverer.java
b/src/jalview/ws/jws2/Jws2Discoverer.java
index
dc75246
..
ed808f6
100644
(file)
--- a/
src/jalview/ws/jws2/Jws2Discoverer.java
+++ b/
src/jalview/ws/jws2/Jws2Discoverer.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/MsaWSClient.java
b/src/jalview/ws/jws2/MsaWSClient.java
index
8a352bf
..
4f6ce09
100644
(file)
--- a/
src/jalview/ws/jws2/MsaWSClient.java
+++ b/
src/jalview/ws/jws2/MsaWSClient.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/MsaWSThread.java
b/src/jalview/ws/jws2/MsaWSThread.java
index
4c75756
..
3ecba74
100644
(file)
--- a/
src/jalview/ws/jws2/MsaWSThread.java
+++ b/
src/jalview/ws/jws2/MsaWSThread.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-37,26
+37,6
@@
import jalview.ws.JobStateSummary;
import jalview.ws.jws2.dm.JabaWsParamSet;
import jalview.ws.params.WsParamSetI;
import jalview.ws.jws2.dm.JabaWsParamSet;
import jalview.ws.params.WsParamSetI;
-/**
- * <p>
- * Title:
- * </p>
- *
- * <p>
- * Description:
- * </p>
- *
- * <p>
- * Copyright: Copyright (c) 2004
- * </p>
- *
- * <p>
- * Company: Dundee University
- * </p>
- *
- * @author not attributable
- * @version 1.0
- */
class MsaWSThread extends AWS2Thread implements WSClientI
{
boolean submitGaps = false; // pass sequences including gaps to alignment
class MsaWSThread extends AWS2Thread implements WSClientI
{
boolean submitGaps = false; // pass sequences including gaps to alignment
diff --git
a/src/jalview/ws/jws2/ParameterUtils.java
b/src/jalview/ws/jws2/ParameterUtils.java
index
1f76462
..
c4e1ca8
100644
(file)
--- a/
src/jalview/ws/jws2/ParameterUtils.java
+++ b/
src/jalview/ws/jws2/ParameterUtils.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/dm/JabaOption.java
b/src/jalview/ws/jws2/dm/JabaOption.java
index
6a139b0
..
c313bd1
100644
(file)
--- a/
src/jalview/ws/jws2/dm/JabaOption.java
+++ b/
src/jalview/ws/jws2/dm/JabaOption.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/dm/JabaParameter.java
b/src/jalview/ws/jws2/dm/JabaParameter.java
index
36abdcc
..
d833725
100644
(file)
--- a/
src/jalview/ws/jws2/dm/JabaParameter.java
+++ b/
src/jalview/ws/jws2/dm/JabaParameter.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/dm/JabaValueConstrain.java
b/src/jalview/ws/jws2/dm/JabaValueConstrain.java
index
611aa59
..
2c63841
100644
(file)
--- a/
src/jalview/ws/jws2/dm/JabaValueConstrain.java
+++ b/
src/jalview/ws/jws2/dm/JabaValueConstrain.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/jws2/dm/JabaWsParamSet.java
b/src/jalview/ws/jws2/dm/JabaWsParamSet.java
index
deede07
..
6fc8169
100644
(file)
--- a/
src/jalview/ws/jws2/dm/JabaWsParamSet.java
+++ b/
src/jalview/ws/jws2/dm/JabaWsParamSet.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/params/ArgumentI.java
b/src/jalview/ws/params/ArgumentI.java
index
b464daa
..
7cb6a35
100644
(file)
--- a/
src/jalview/ws/params/ArgumentI.java
+++ b/
src/jalview/ws/params/ArgumentI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/params/InvalidArgumentException.java
b/src/jalview/ws/params/InvalidArgumentException.java
index
978f756
..
7aefe16
100644
(file)
--- a/
src/jalview/ws/params/InvalidArgumentException.java
+++ b/
src/jalview/ws/params/InvalidArgumentException.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/**
*
*/
/**
*
*/
diff --git
a/src/jalview/ws/params/OptionI.java
b/src/jalview/ws/params/OptionI.java
index
f908f4d
..
02f4829
100644
(file)
--- a/
src/jalview/ws/params/OptionI.java
+++ b/
src/jalview/ws/params/OptionI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/params/ParamDatastoreI.java
b/src/jalview/ws/params/ParamDatastoreI.java
index
77647d4
..
b3e8d6e
100644
(file)
--- a/
src/jalview/ws/params/ParamDatastoreI.java
+++ b/
src/jalview/ws/params/ParamDatastoreI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/params/ParamManager.java
b/src/jalview/ws/params/ParamManager.java
index
5de608b
..
5f25e2e
100644
(file)
--- a/
src/jalview/ws/params/ParamManager.java
+++ b/
src/jalview/ws/params/ParamManager.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/params/ParameterI.java
b/src/jalview/ws/params/ParameterI.java
index
6e69d56
..
fb23dce
100644
(file)
--- a/
src/jalview/ws/params/ParameterI.java
+++ b/
src/jalview/ws/params/ParameterI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/params/ValueConstrainI.java
b/src/jalview/ws/params/ValueConstrainI.java
index
6941d48
..
851be86
100644
(file)
--- a/
src/jalview/ws/params/ValueConstrainI.java
+++ b/
src/jalview/ws/params/ValueConstrainI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/params/WsParamSetI.java
b/src/jalview/ws/params/WsParamSetI.java
index
781aa0d
..
8d72b2c
100644
(file)
--- a/
src/jalview/ws/params/WsParamSetI.java
+++ b/
src/jalview/ws/params/WsParamSetI.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/params/simple/BooleanOption.java
b/src/jalview/ws/params/simple/BooleanOption.java
index
d9b294d
..
5983d05
100644
(file)
--- a/
src/jalview/ws/params/simple/BooleanOption.java
+++ b/
src/jalview/ws/params/simple/BooleanOption.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.params.simple;
import java.net.URL;
package jalview.ws.params.simple;
import java.net.URL;
diff --git
a/src/jalview/ws/params/simple/IntegerParameter.java
b/src/jalview/ws/params/simple/IntegerParameter.java
index
29df95d
..
e83af2c
100644
(file)
--- a/
src/jalview/ws/params/simple/IntegerParameter.java
+++ b/
src/jalview/ws/params/simple/IntegerParameter.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/**
*
*/
/**
*
*/
diff --git
a/src/jalview/ws/params/simple/Option.java
b/src/jalview/ws/params/simple/Option.java
index
eb993c2
..
4efeaeb
100644
(file)
--- a/
src/jalview/ws/params/simple/Option.java
+++ b/
src/jalview/ws/params/simple/Option.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.params.simple;
import jalview.ws.params.OptionI;
package jalview.ws.params.simple;
import jalview.ws.params.OptionI;
diff --git
a/src/jalview/ws/params/simple/Parameter.java
b/src/jalview/ws/params/simple/Parameter.java
index
a2eb5ef
..
54210f4
100644
(file)
--- a/
src/jalview/ws/params/simple/Parameter.java
+++ b/
src/jalview/ws/params/simple/Parameter.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.params.simple;
import jalview.ws.params.OptionI;
package jalview.ws.params.simple;
import jalview.ws.params.OptionI;
diff --git
a/src/jalview/ws/params/simple/StringChoiceParameter.java
b/src/jalview/ws/params/simple/StringChoiceParameter.java
index
1d56cf6
..
f1a50a2
100644
(file)
--- a/
src/jalview/ws/params/simple/StringChoiceParameter.java
+++ b/
src/jalview/ws/params/simple/StringChoiceParameter.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.params.simple;
public class StringChoiceParameter extends Option
package jalview.ws.params.simple;
public class StringChoiceParameter extends Option
diff --git
a/src/jalview/ws/rest/AlignmentProcessor.java
b/src/jalview/ws/rest/AlignmentProcessor.java
index
cc6486e
..
05d9c1a
100644
(file)
--- a/
src/jalview/ws/rest/AlignmentProcessor.java
+++ b/
src/jalview/ws/rest/AlignmentProcessor.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest;
import jalview.datamodel.AlignmentI;
package jalview.ws.rest;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/ws/rest/HttpResultSet.java
b/src/jalview/ws/rest/HttpResultSet.java
index
c360287
..
53d15de
100644
(file)
--- a/
src/jalview/ws/rest/HttpResultSet.java
+++ b/
src/jalview/ws/rest/HttpResultSet.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest;
import jalview.bin.Cache;
package jalview.ws.rest;
import jalview.bin.Cache;
diff --git
a/src/jalview/ws/rest/InputType.java
b/src/jalview/ws/rest/InputType.java
index
bc55893
..
26b5ea6
100644
(file)
--- a/
src/jalview/ws/rest/InputType.java
+++ b/
src/jalview/ws/rest/InputType.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest;
import jalview.ws.params.ArgumentI;
package jalview.ws.rest;
import jalview.ws.params.ArgumentI;
diff --git
a/src/jalview/ws/rest/NoValidInputDataException.java
b/src/jalview/ws/rest/NoValidInputDataException.java
index
7accad1
..
00ae610
100644
(file)
--- a/
src/jalview/ws/rest/NoValidInputDataException.java
+++ b/
src/jalview/ws/rest/NoValidInputDataException.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest;
/**
package jalview.ws.rest;
/**
diff --git
a/src/jalview/ws/rest/RestClient.java
b/src/jalview/ws/rest/RestClient.java
index
0d56e87
..
e618c3f
100644
(file)
--- a/
src/jalview/ws/rest/RestClient.java
+++ b/
src/jalview/ws/rest/RestClient.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
/**
*
*/
/**
*
*/
diff --git
a/src/jalview/ws/rest/RestJob.java
b/src/jalview/ws/rest/RestJob.java
index
e04a681
..
200c573
100644
(file)
--- a/
src/jalview/ws/rest/RestJob.java
+++ b/
src/jalview/ws/rest/RestJob.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest;
import java.io.IOException;
package jalview.ws.rest;
import java.io.IOException;
diff --git
a/src/jalview/ws/rest/RestJobThread.java
b/src/jalview/ws/rest/RestJobThread.java
index
6adaecd
..
80e125a
100644
(file)
--- a/
src/jalview/ws/rest/RestJobThread.java
+++ b/
src/jalview/ws/rest/RestJobThread.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest;
import jalview.bin.Cache;
package jalview.ws.rest;
import jalview.bin.Cache;
diff --git
a/src/jalview/ws/rest/RestServiceDescription.java
b/src/jalview/ws/rest/RestServiceDescription.java
index
9f4495e
..
0ea68b1
100644
(file)
--- a/
src/jalview/ws/rest/RestServiceDescription.java
+++ b/
src/jalview/ws/rest/RestServiceDescription.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/jalview/ws/rest/params/Alignment.java
b/src/jalview/ws/rest/params/Alignment.java
index
dc6e6e8
..
0cd1578
100644
(file)
--- a/
src/jalview/ws/rest/params/Alignment.java
+++ b/
src/jalview/ws/rest/params/Alignment.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/ws/rest/params/AnnotationFile.java
b/src/jalview/ws/rest/params/AnnotationFile.java
index
b1681a0
..
b05b4ed
100644
(file)
--- a/
src/jalview/ws/rest/params/AnnotationFile.java
+++ b/
src/jalview/ws/rest/params/AnnotationFile.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/ws/rest/params/JobConstant.java
b/src/jalview/ws/rest/params/JobConstant.java
index
64bb45f
..
6534e93
100644
(file)
--- a/
src/jalview/ws/rest/params/JobConstant.java
+++ b/
src/jalview/ws/rest/params/JobConstant.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest.params;
import jalview.ws.params.OptionI;
package jalview.ws.rest.params;
import jalview.ws.params.OptionI;
diff --git
a/src/jalview/ws/rest/params/SeqGroupIndexVector.java
b/src/jalview/ws/rest/params/SeqGroupIndexVector.java
index
ba2c1b3
..
f02c262
100644
(file)
--- a/
src/jalview/ws/rest/params/SeqGroupIndexVector.java
+++ b/
src/jalview/ws/rest/params/SeqGroupIndexVector.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/ws/rest/params/SeqIdVector.java
b/src/jalview/ws/rest/params/SeqIdVector.java
index
c77c8da
..
559cadf
100644
(file)
--- a/
src/jalview/ws/rest/params/SeqIdVector.java
+++ b/
src/jalview/ws/rest/params/SeqIdVector.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/ws/rest/params/SeqVector.java
b/src/jalview/ws/rest/params/SeqVector.java
index
040e000
..
4930e0f
100644
(file)
--- a/
src/jalview/ws/rest/params/SeqVector.java
+++ b/
src/jalview/ws/rest/params/SeqVector.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/ws/rest/params/Tree.java
b/src/jalview/ws/rest/params/Tree.java
index
ff54654
..
50fe7e8
100644
(file)
--- a/
src/jalview/ws/rest/params/Tree.java
+++ b/
src/jalview/ws/rest/params/Tree.java
@@
-1,3
+1,20
@@
+/*******************************************************************************
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ *******************************************************************************/
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
package jalview.ws.rest.params;
import jalview.datamodel.AlignmentI;
diff --git
a/src/jalview/ws/seqfetcher/ASequenceFetcher.java
b/src/jalview/ws/seqfetcher/ASequenceFetcher.java
index
1baa58b
..
d3385f3
100644
(file)
--- a/
src/jalview/ws/seqfetcher/ASequenceFetcher.java
+++ b/
src/jalview/ws/seqfetcher/ASequenceFetcher.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/seqfetcher/DbSourceProxy.java
b/src/jalview/ws/seqfetcher/DbSourceProxy.java
index
67097ef
..
ea3fc0f
100644
(file)
--- a/
src/jalview/ws/seqfetcher/DbSourceProxy.java
+++ b/
src/jalview/ws/seqfetcher/DbSourceProxy.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/jalview/ws/seqfetcher/DbSourceProxyImpl.java
b/src/jalview/ws/seqfetcher/DbSourceProxyImpl.java
index
94d7577
..
1467aaf
100644
(file)
--- a/
src/jalview/ws/seqfetcher/DbSourceProxyImpl.java
+++ b/
src/jalview/ws/seqfetcher/DbSourceProxyImpl.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/uk/ac/ebi/picr/model/CrossReference.java
b/src/uk/ac/ebi/picr/model/CrossReference.java
index
7996f02
..
caae608
100644
(file)
--- a/
src/uk/ac/ebi/picr/model/CrossReference.java
+++ b/
src/uk/ac/ebi/picr/model/CrossReference.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/uk/ac/ebi/picr/model/CrossReference_Helper.java
b/src/uk/ac/ebi/picr/model/CrossReference_Helper.java
index
884e190
..
21dd4f3
100644
(file)
--- a/
src/uk/ac/ebi/picr/model/CrossReference_Helper.java
+++ b/
src/uk/ac/ebi/picr/model/CrossReference_Helper.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/uk/ac/ebi/picr/model/UPEntry.java
b/src/uk/ac/ebi/picr/model/UPEntry.java
index
5855186
..
818eab1
100644
(file)
--- a/
src/uk/ac/ebi/picr/model/UPEntry.java
+++ b/
src/uk/ac/ebi/picr/model/UPEntry.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/uk/ac/ebi/picr/model/UPEntry_Helper.java
b/src/uk/ac/ebi/picr/model/UPEntry_Helper.java
index
3348640
..
871832c
100644
(file)
--- a/
src/uk/ac/ebi/picr/model/UPEntry_Helper.java
+++ b/
src/uk/ac/ebi/picr/model/UPEntry_Helper.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/uk/ac/ebi/www/Data.java
b/src/uk/ac/ebi/www/Data.java
index
46d8507
..
ca7d651
100755
(executable)
--- a/
src/uk/ac/ebi/www/Data.java
+++ b/
src/uk/ac/ebi/www/Data.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/uk/ac/ebi/www/InputParams.java
b/src/uk/ac/ebi/www/InputParams.java
index
fe546ea
..
106d3b4
100755
(executable)
--- a/
src/uk/ac/ebi/www/InputParams.java
+++ b/
src/uk/ac/ebi/www/InputParams.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/uk/ac/ebi/www/WSFile.java
b/src/uk/ac/ebi/www/WSFile.java
index
b57b04b
..
37cebc0
100755
(executable)
--- a/
src/uk/ac/ebi/www/WSFile.java
+++ b/
src/uk/ac/ebi/www/WSFile.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/uk/ac/ebi/www/WSWUBlast.java
b/src/uk/ac/ebi/www/WSWUBlast.java
index
81ba67b
..
e31f5d0
100755
(executable)
--- a/
src/uk/ac/ebi/www/WSWUBlast.java
+++ b/
src/uk/ac/ebi/www/WSWUBlast.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/uk/ac/ebi/www/WSWUBlastService.java
b/src/uk/ac/ebi/www/WSWUBlastService.java
index
8c43600
..
7e45712
100755
(executable)
--- a/
src/uk/ac/ebi/www/WSWUBlastService.java
+++ b/
src/uk/ac/ebi/www/WSWUBlastService.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/uk/ac/ebi/www/WSWUBlastServiceLocator.java
b/src/uk/ac/ebi/www/WSWUBlastServiceLocator.java
index
d70121c
..
849a0f8
100755
(executable)
--- a/
src/uk/ac/ebi/www/WSWUBlastServiceLocator.java
+++ b/
src/uk/ac/ebi/www/WSWUBlastServiceLocator.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/uk/ac/ebi/www/WSWUBlastSoapBindingStub.java
b/src/uk/ac/ebi/www/WSWUBlastSoapBindingStub.java
index
ab9dabf
..
ddd94d4
100755
(executable)
--- a/
src/uk/ac/ebi/www/WSWUBlastSoapBindingStub.java
+++ b/
src/uk/ac/ebi/www/WSWUBlastSoapBindingStub.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperBindingStub.java
b/src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperBindingStub.java
index
0091add
..
cdfd618
100644
(file)
--- a/
src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperBindingStub.java
+++ b/
src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperBindingStub.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperInterface.java
b/src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperInterface.java
index
3169ac1
..
3a4a2ab
100644
(file)
--- a/
src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperInterface.java
+++ b/
src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperInterface.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperService.java
b/src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperService.java
index
e415506
..
05ded00
100644
(file)
--- a/
src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperService.java
+++ b/
src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperService.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperServiceLocator.java
b/src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperServiceLocator.java
index
4fac780
..
80a870b
100644
(file)
--- a/
src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperServiceLocator.java
+++ b/
src/uk/ac/ebi/www/picr/AccessionMappingService/AccessionMapperServiceLocator.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/vamsas/IMsaWS.java
b/src/vamsas/IMsaWS.java
index
05a47dd
..
37eefad
100755
(executable)
--- a/
src/vamsas/IMsaWS.java
+++ b/
src/vamsas/IMsaWS.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Alignment.java
b/src/vamsas/objects/simple/Alignment.java
index
2bf1a9e
..
27d233d
100755
(executable)
--- a/
src/vamsas/objects/simple/Alignment.java
+++ b/
src/vamsas/objects/simple/Alignment.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Alignment_Helper.java
b/src/vamsas/objects/simple/Alignment_Helper.java
index
83122d1
..
d525218
100755
(executable)
--- a/
src/vamsas/objects/simple/Alignment_Helper.java
+++ b/
src/vamsas/objects/simple/Alignment_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/JpredResult.java
b/src/vamsas/objects/simple/JpredResult.java
index
715aea6
..
8c427cb
100755
(executable)
--- a/
src/vamsas/objects/simple/JpredResult.java
+++ b/
src/vamsas/objects/simple/JpredResult.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/JpredResult_Helper.java
b/src/vamsas/objects/simple/JpredResult_Helper.java
index
ca89880
..
4270e55
100755
(executable)
--- a/
src/vamsas/objects/simple/JpredResult_Helper.java
+++ b/
src/vamsas/objects/simple/JpredResult_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/MsaResult.java
b/src/vamsas/objects/simple/MsaResult.java
index
173a2e7
..
cf5fdb0
100755
(executable)
--- a/
src/vamsas/objects/simple/MsaResult.java
+++ b/
src/vamsas/objects/simple/MsaResult.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/MsaResult_Helper.java
b/src/vamsas/objects/simple/MsaResult_Helper.java
index
54ac889
..
3205207
100755
(executable)
--- a/
src/vamsas/objects/simple/MsaResult_Helper.java
+++ b/
src/vamsas/objects/simple/MsaResult_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Msfalignment.java
b/src/vamsas/objects/simple/Msfalignment.java
index
2d04275
..
f36c6cc
100755
(executable)
--- a/
src/vamsas/objects/simple/Msfalignment.java
+++ b/
src/vamsas/objects/simple/Msfalignment.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Msfalignment_Helper.java
b/src/vamsas/objects/simple/Msfalignment_Helper.java
index
ce30397
..
7df1599
100755
(executable)
--- a/
src/vamsas/objects/simple/Msfalignment_Helper.java
+++ b/
src/vamsas/objects/simple/Msfalignment_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Object.java
b/src/vamsas/objects/simple/Object.java
index
4eb8050
..
3520905
100755
(executable)
--- a/
src/vamsas/objects/simple/Object.java
+++ b/
src/vamsas/objects/simple/Object.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Object_Helper.java
b/src/vamsas/objects/simple/Object_Helper.java
index
9c933b5
..
fab0138
100755
(executable)
--- a/
src/vamsas/objects/simple/Object_Helper.java
+++ b/
src/vamsas/objects/simple/Object_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Result.java
b/src/vamsas/objects/simple/Result.java
index
ff76cd9
..
0f0e7e2
100755
(executable)
--- a/
src/vamsas/objects/simple/Result.java
+++ b/
src/vamsas/objects/simple/Result.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Result_Helper.java
b/src/vamsas/objects/simple/Result_Helper.java
index
d7f281e
..
ed2f541
100755
(executable)
--- a/
src/vamsas/objects/simple/Result_Helper.java
+++ b/
src/vamsas/objects/simple/Result_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Secstructpred.java
b/src/vamsas/objects/simple/Secstructpred.java
index
42b3a71
..
82332bd
100755
(executable)
--- a/
src/vamsas/objects/simple/Secstructpred.java
+++ b/
src/vamsas/objects/simple/Secstructpred.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Secstructpred_Helper.java
b/src/vamsas/objects/simple/Secstructpred_Helper.java
index
84ddcd2
..
63bf731
100755
(executable)
--- a/
src/vamsas/objects/simple/Secstructpred_Helper.java
+++ b/
src/vamsas/objects/simple/Secstructpred_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/SeqSearchResult.java
b/src/vamsas/objects/simple/SeqSearchResult.java
index
71b036f
..
71084c0
100644
(file)
--- a/
src/vamsas/objects/simple/SeqSearchResult.java
+++ b/
src/vamsas/objects/simple/SeqSearchResult.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/vamsas/objects/simple/SeqSearchResult_Helper.java
b/src/vamsas/objects/simple/SeqSearchResult_Helper.java
index
a50a304
..
fb11db5
100644
(file)
--- a/
src/vamsas/objects/simple/SeqSearchResult_Helper.java
+++ b/
src/vamsas/objects/simple/SeqSearchResult_Helper.java
@@
-1,6
+1,6
@@
/*
\r
/*
\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
*
\r
* This file is part of Jalview.
\r
*
\r
*
\r
* This file is part of Jalview.
\r
*
\r
diff --git
a/src/vamsas/objects/simple/Sequence.java
b/src/vamsas/objects/simple/Sequence.java
index
77bccf7
..
ac44b66
100755
(executable)
--- a/
src/vamsas/objects/simple/Sequence.java
+++ b/
src/vamsas/objects/simple/Sequence.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/SequenceSet.java
b/src/vamsas/objects/simple/SequenceSet.java
index
826cd6a
..
dc866f4
100755
(executable)
--- a/
src/vamsas/objects/simple/SequenceSet.java
+++ b/
src/vamsas/objects/simple/SequenceSet.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/SequenceSet_Helper.java
b/src/vamsas/objects/simple/SequenceSet_Helper.java
index
6c58dc6
..
c8aef7f
100755
(executable)
--- a/
src/vamsas/objects/simple/SequenceSet_Helper.java
+++ b/
src/vamsas/objects/simple/SequenceSet_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/Sequence_Helper.java
b/src/vamsas/objects/simple/Sequence_Helper.java
index
b310f55
..
82a7e4b
100755
(executable)
--- a/
src/vamsas/objects/simple/Sequence_Helper.java
+++ b/
src/vamsas/objects/simple/Sequence_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/WsJobId.java
b/src/vamsas/objects/simple/WsJobId.java
index
2c72248
..
7e44a42
100755
(executable)
--- a/
src/vamsas/objects/simple/WsJobId.java
+++ b/
src/vamsas/objects/simple/WsJobId.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/src/vamsas/objects/simple/WsJobId_Helper.java
b/src/vamsas/objects/simple/WsJobId_Helper.java
index
38c831c
..
3444b8d
100755
(executable)
--- a/
src/vamsas/objects/simple/WsJobId_Helper.java
+++ b/
src/vamsas/objects/simple/WsJobId_Helper.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/InstallAnywhere/jalview_buildinstaller.xml
b/utils/InstallAnywhere/jalview_buildinstaller.xml
index
0122099
..
fa17a26
100644
(file)
--- a/
utils/InstallAnywhere/jalview_buildinstaller.xml
+++ b/
utils/InstallAnywhere/jalview_buildinstaller.xml
@@
-1,7
+1,7
@@
<?xml version="1.0"?>
<!--
<?xml version="1.0"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/eclipse/JalviewCodeStyle.xml
b/utils/eclipse/JalviewCodeStyle.xml
index
723863f
..
bf92753
100644
(file)
--- a/
utils/eclipse/JalviewCodeStyle.xml
+++ b/
utils/eclipse/JalviewCodeStyle.xml
@@
-1,7
+1,7
@@
<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<!--
<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/getJavaVersion.java
b/utils/getJavaVersion.java
index
8b2e628
..
663224a
100644
(file)
--- a/
utils/getJavaVersion.java
+++ b/
utils/getJavaVersion.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/gff2annot.pl
b/utils/gff2annot.pl
index
af4dfc5
..
ec055fb
100755
(executable)
--- a/
utils/gff2annot.pl
+++ b/
utils/gff2annot.pl
@@
-1,4
+1,37
@@
+#*******************************************************************************
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+#*******************************************************************************
#!/usr/bin/perl
#!/usr/bin/perl
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+
use strict;
use warnings;
use strict;
use warnings;
diff --git
a/utils/help2Website.java
b/utils/help2Website.java
index
e7dccd0
..
efffcd6
100755
(executable)
--- a/
utils/help2Website.java
+++ b/
utils/help2Website.java
@@
-1,6
+1,6
@@
/*
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
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* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/acknowledge.html
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/bi01.html
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(executable)
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/build.html
b/utils/jalopy/docs/build.html
index
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--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/comments.html
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index
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(executable)
--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/contact.html
b/utils/jalopy/docs/contact.html
index
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(executable)
--- a/
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+++ b/
utils/jalopy/docs/contact.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/contributors.html
b/utils/jalopy/docs/contributors.html
index
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(executable)
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/dedication.html
b/utils/jalopy/docs/dedication.html
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
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*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/dependencies.html
b/utils/jalopy/docs/dependencies.html
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(executable)
--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
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<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/docs.html
b/utils/jalopy/docs/docs.html
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--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/download.html
b/utils/jalopy/docs/download.html
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(executable)
--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
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*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/environment.html
b/utils/jalopy/docs/environment.html
index
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(executable)
--- a/
utils/jalopy/docs/environment.html
+++ b/
utils/jalopy/docs/environment.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/faq.html
b/utils/jalopy/docs/faq.html
index
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(executable)
--- a/
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+++ b/
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@@
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+1,7
@@
<!--
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<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
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*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/features.html
b/utils/jalopy/docs/features.html
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(executable)
--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
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<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/footer.html
b/utils/jalopy/docs/footer.html
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(executable)
--- a/
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+++ b/
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@@
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+1,7
@@
<!--
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<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/header.html
b/utils/jalopy/docs/header.html
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(executable)
--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/history.html
b/utils/jalopy/docs/history.html
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(executable)
--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/imports.html
b/utils/jalopy/docs/imports.html
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(executable)
--- a/
utils/jalopy/docs/imports.html
+++ b/
utils/jalopy/docs/imports.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/indentation.html
b/utils/jalopy/docs/indentation.html
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(executable)
--- a/
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+++ b/
utils/jalopy/docs/indentation.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/index.html
b/utils/jalopy/docs/index.html
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(executable)
--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/inspector-naming.html
b/utils/jalopy/docs/inspector-naming.html
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+++ b/
utils/jalopy/docs/inspector-naming.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/inspector.html
b/utils/jalopy/docs/inspector.html
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--- a/
utils/jalopy/docs/inspector.html
+++ b/
utils/jalopy/docs/inspector.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/installation.html
b/utils/jalopy/docs/installation.html
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--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/introduction.html
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+++ b/
utils/jalopy/docs/introduction.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/ix01.html
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--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/javadoc.html
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--- a/
utils/jalopy/docs/javadoc.html
+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/license-antlr.html
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+++ b/
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@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/license-apache.html
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--- a/
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+++ b/
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@@
-1,7
+1,7
@@
<!--
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<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
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* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/license-common-public.html
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+++ b/
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@@
-1,7
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@@
<!--
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<!--
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- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
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*
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* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/license-gnu-doc.html
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+++ b/
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@@
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@@
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<!--
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- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
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* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/license-gnu.html
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--- a/
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+++ b/
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@@
-1,7
+1,7
@@
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* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
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*
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* This file is part of Jalview.
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diff --git
a/utils/jalopy/docs/license-sun-public.html
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* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/project.html
b/utils/jalopy/docs/project.html
index
5e3d846
..
d388f70
100755
(executable)
--- a/
utils/jalopy/docs/project.html
+++ b/
utils/jalopy/docs/project.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/separation.html
b/utils/jalopy/docs/separation.html
index
d45925e
..
fb8f9f6
100755
(executable)
--- a/
utils/jalopy/docs/separation.html
+++ b/
utils/jalopy/docs/separation.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/settings.html
b/utils/jalopy/docs/settings.html
index
025a308
..
9355268
100755
(executable)
--- a/
utils/jalopy/docs/settings.html
+++ b/
utils/jalopy/docs/settings.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/sorting.html
b/utils/jalopy/docs/sorting.html
index
5aac458
..
9ef7eff
100755
(executable)
--- a/
utils/jalopy/docs/sorting.html
+++ b/
utils/jalopy/docs/sorting.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/usage.html
b/utils/jalopy/docs/usage.html
index
75fe0f4
..
2c54ab8
100755
(executable)
--- a/
utils/jalopy/docs/usage.html
+++ b/
utils/jalopy/docs/usage.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/whitespace.html
b/utils/jalopy/docs/whitespace.html
index
86081a9
..
ef407d5
100755
(executable)
--- a/
utils/jalopy/docs/whitespace.html
+++ b/
utils/jalopy/docs/whitespace.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/docs/wrapping.html
b/utils/jalopy/docs/wrapping.html
index
824116f
..
21a73a9
100755
(executable)
--- a/
utils/jalopy/docs/wrapping.html
+++ b/
utils/jalopy/docs/wrapping.html
@@
-1,7
+1,7
@@
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jalopy/readme.html
b/utils/jalopy/readme.html
index
1262ed1
..
77a656b
100755
(executable)
--- a/
utils/jalopy/readme.html
+++ b/
utils/jalopy/readme.html
@@
-1,7
+1,7
@@
<html><head>
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
<html><head>
<!--
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
diff --git
a/utils/jarunsigner.pl
b/utils/jarunsigner.pl
index
a10fa91
..
a32fcde
100755
(executable)
--- a/
utils/jarunsigner.pl
+++ b/
utils/jarunsigner.pl
@@
-1,6
+1,40
@@
+#*******************************************************************************
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+#*******************************************************************************
#!/usr/bin/perl
use strict;
#!/usr/bin/perl
use strict;
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+
+
# perverse script to get rid of unwanted jar signatures
use Cwd qw(abs_path);
use File::Temp qw(tempdir);
# perverse script to get rid of unwanted jar signatures
use Cwd qw(abs_path);
use File::Temp qw(tempdir);
diff --git
a/utils/patchGt.pl
b/utils/patchGt.pl
index
19cb131
..
af5abaa
100644
(file)
--- a/
utils/patchGt.pl
+++ b/
utils/patchGt.pl
@@
-1,3
+1,20
@@
+#*******************************************************************************
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+#*******************************************************************************
#!/bin/perl
use strict;
#!/bin/perl
use strict;
diff --git
a/utils/splitstockholm.pl
b/utils/splitstockholm.pl
index
5a31679
..
8bffeb5
100644
(file)
--- a/
utils/splitstockholm.pl
+++ b/
utils/splitstockholm.pl
@@
-1,3
+1,20
@@
+#*******************************************************************************
+# Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+# Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+#
+# This file is part of Jalview.
+#
+# Jalview is free software: you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+#
+# Jalview is distributed in the hope that it will be useful, but
+# WITHOUT ANY WARRANTY; without even the implied warranty
+# of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+# PURPOSE. See the GNU General Public License for more details.
+#
+# You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+#*******************************************************************************
#!/usr/bin/perl
\r
# Splits a concatenated set of Stockholm Files into several individual files.
\r
\r
#!/usr/bin/perl
\r
# Splits a concatenated set of Stockholm Files into several individual files.
\r
\r