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web pages updates to point to new download location also the redirect servlet
[jabaws.git] / website / dm_javadoc / compbio / data / sequence / package-tree.html
diff --git a/website/dm_javadoc/compbio/data/sequence/package-tree.html b/website/dm_javadoc/compbio/data/sequence/package-tree.html
index 9fbb608..38b2b26 100644 (file)
--- a/website/dm_javadoc/compbio/data/sequence/package-tree.html
+++ b/website/dm_javadoc/compbio/data/sequence/package-tree.html
@@ -2,12 +2,12 @@
 <!--NewPage-->\r
 <HTML>\r
 <HEAD>\r
-<!-- Generated by javadoc (build 1.6.0_21) on Thu Dec 09 12:00:29 GMT 2010 -->\r
+<!-- Generated by javadoc (build 1.6.0_24) on Fri Aug 12 14:32:04 BST 2011 -->\r
 <TITLE>\r
 compbio.data.sequence Class Hierarchy\r
 </TITLE>\r
 \r
-<META NAME="date" CONTENT="2010-12-09">\r
+<META NAME="date" CONTENT="2011-08-12">\r
 \r
 <LINK REL ="stylesheet" TYPE="text/css" HREF="../../../stylesheet.css" TITLE="Style">\r
 \r
@@ -55,7 +55,7 @@ function windowTitle()
 \r
 <TR>\r
 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
-&nbsp;<A HREF="../../../compbio/data/msa/package-tree.html"><B>PREV</B></A>&nbsp;\r
+&nbsp;<A HREF="../../../compbio/data/msa/jaxws/package-tree.html"><B>PREV</B></A>&nbsp;\r
 &nbsp;<A HREF="../../../compbio/metadata/package-tree.html"><B>NEXT</B></A></FONT></TD>\r
 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
   <A HREF="../../../index.html?compbio/data/sequence/package-tree.html" target="_top"><B>FRAMES</B></A>  &nbsp;\r
@@ -92,9 +92,10 @@ Class Hierarchy
 </H2>\r
 <UL>\r
 <LI TYPE="circle">java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang"><B>Object</B></A><UL>\r
-<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/Alignment.html" title="class in compbio.data.sequence"><B>Alignment</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/AlignmentMetadata.html" title="class in compbio.data.sequence"><B>AlignmentMetadata</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/ClustalAlignmentUtil.html" title="class in compbio.data.sequence"><B>ClustalAlignmentUtil</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/FastaSequence.html" title="class in compbio.data.sequence"><B>FastaSequence</B></A><UL>\r
-<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/AnnotatedSequence.html" title="class in compbio.data.sequence"><B>AnnotatedSequence</B></A></UL>\r
-<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/JalviewAnnotation.html" title="class in compbio.data.sequence"><B>JalviewAnnotation</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/MultiAnnotatedSequence.html" title="class in compbio.data.sequence"><B>MultiAnnotatedSequence</B></A>&lt;T&gt;<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence"><B>Score</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/SequenceUtil.html" title="class in compbio.data.sequence"><B>SequenceUtil</B></A><LI TYPE="circle">java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Throwable.html?is-external=true" title="class or interface in java.lang"><B>Throwable</B></A> (implements java.io.<A HREF="http://java.sun.com/javase/6/docs/api/java/io/Serializable.html?is-external=true" title="class or interface in java.io">Serializable</A>)\r
+<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/Alignment.html" title="class in compbio.data.sequence"><B>Alignment</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/AlignmentMetadata.html" title="class in compbio.data.sequence"><B>AlignmentMetadata</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/ClustalAlignmentUtil.html" title="class in compbio.data.sequence"><B>ClustalAlignmentUtil</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/FastaReader.html" title="class in compbio.data.sequence"><B>FastaReader</B></A> (implements java.util.<A HREF="http://java.sun.com/javase/6/docs/api/java/util/Iterator.html?is-external=true" title="class or interface in java.util">Iterator</A>&lt;E&gt;)\r
+<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/FastaSequence.html" title="class in compbio.data.sequence"><B>FastaSequence</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/Range.html" title="class in compbio.data.sequence"><B>Range</B></A> (implements java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Comparable.html?is-external=true" title="class or interface in java.lang">Comparable</A>&lt;T&gt;)\r
+<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence"><B>Score</B></A> (implements java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Comparable.html?is-external=true" title="class or interface in java.lang">Comparable</A>&lt;T&gt;)\r
+<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/ScoreManager.html" title="class in compbio.data.sequence"><B>ScoreManager</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html" title="class in compbio.data.sequence"><B>ScoreManager.ScoreHolder</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/SequenceUtil.html" title="class in compbio.data.sequence"><B>SequenceUtil</B></A><LI TYPE="circle">java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Throwable.html?is-external=true" title="class or interface in java.lang"><B>Throwable</B></A> (implements java.io.<A HREF="http://java.sun.com/javase/6/docs/api/java/io/Serializable.html?is-external=true" title="class or interface in java.io">Serializable</A>)\r
 <UL>\r
 <LI TYPE="circle">java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Exception.html?is-external=true" title="class or interface in java.lang"><B>Exception</B></A><UL>\r
 <LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/UnknownFileFormatException.html" title="class in compbio.data.sequence"><B>UnknownFileFormatException</B></A></UL>\r
@@ -108,7 +109,7 @@ Enum Hierarchy
 <LI TYPE="circle">java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang"><B>Object</B></A><UL>\r
 <LI TYPE="circle">java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true" title="class or interface in java.lang"><B>Enum</B></A>&lt;E&gt; (implements java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Comparable.html?is-external=true" title="class or interface in java.lang">Comparable</A>&lt;T&gt;, java.io.<A HREF="http://java.sun.com/javase/6/docs/api/java/io/Serializable.html?is-external=true" title="class or interface in java.io">Serializable</A>)\r
 <UL>\r
-<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/Program.html" title="enum in compbio.data.sequence"><B>Program</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/Method.html" title="enum in compbio.data.sequence"><B>Method</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/DisemblResultAnnot.html" title="enum in compbio.data.sequence"><B>DisemblResultAnnot</B></A></UL>\r
+<LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence"><B>ConservationMethod</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/DisorderMethod.html" title="enum in compbio.data.sequence"><B>DisorderMethod</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/Program.html" title="enum in compbio.data.sequence"><B>Program</B></A><LI TYPE="circle">compbio.data.sequence.<A HREF="../../../compbio/data/sequence/SMERFSConstraints.html" title="enum in compbio.data.sequence"><B>SMERFSConstraints</B></A></UL>\r
 </UL>\r
 </UL>\r
 <HR>\r
@@ -141,7 +142,7 @@ Enum Hierarchy
 \r
 <TR>\r
 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
-&nbsp;<A HREF="../../../compbio/data/msa/package-tree.html"><B>PREV</B></A>&nbsp;\r
+&nbsp;<A HREF="../../../compbio/data/msa/jaxws/package-tree.html"><B>PREV</B></A>&nbsp;\r
 &nbsp;<A HREF="../../../compbio/metadata/package-tree.html"><B>NEXT</B></A></FONT></TD>\r
 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
   <A HREF="../../../index.html?compbio/data/sequence/package-tree.html" target="_top"><B>FRAMES</B></A>  &nbsp;\r