X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=website%2Fdm_javadoc%2Fconstant-values.html;h=671442fd7c9ac1336a0f6b99270981c09d848b1f;hb=bc3346bd7c1c518fad867d4c60a53779e7516588;hp=3e28ec6fa79b8e9b78c7518159e8cbd06077833f;hpb=cb02e8a08893701386c270a8bf9d0f08b9cbc4db;p=jabaws.git

diff --git a/website/dm_javadoc/constant-values.html b/website/dm_javadoc/constant-values.html
index 3e28ec6..671442f 100644
--- a/website/dm_javadoc/constant-values.html
+++ b/website/dm_javadoc/constant-values.html
@@ -2,12 +2,12 @@
 <!--NewPage-->
 <HTML>
 <HEAD>
-<!-- Generated by javadoc (build 1.6.0_21) on Thu Nov 18 15:38:37 GMT 2010 -->
+<!-- Generated by javadoc (build 1.6.0_24) on Fri Aug 12 14:32:04 BST 2011 -->
 <TITLE>
 Constant Field Values
 </TITLE>
 
-<META NAME="date" CONTENT="2010-11-18">
+<META NAME="date" CONTENT="2011-08-12">
 
 <LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">
 
@@ -101,6 +101,30 @@ compbio.data.*</FONT></TH>
 
 <TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
 <TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">
+<TH ALIGN="left" COLSPAN="3">compbio.data.msa.<A HREF="compbio/data/msa/JABAService.html" title="interface in compbio.data.msa">JABAService</A></TH>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<A NAME="compbio.data.msa.JABAService.SERVICE_NAMESPACE"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
+<CODE>public&nbsp;static&nbsp;final&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A></CODE></FONT></TD>
+<TD ALIGN="left"><CODE><A HREF="compbio/data/msa/JABAService.html#SERVICE_NAMESPACE">SERVICE_NAMESPACE</A></CODE></TD>
+<TD ALIGN="right"><CODE>"http://msa.data.compbio/01/01/2010/"</CODE></TD>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<A NAME="compbio.data.msa.JABAService.V2_SERVICE_NAMESPACE"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
+<CODE>public&nbsp;static&nbsp;final&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A></CODE></FONT></TD>
+<TD ALIGN="left"><CODE><A HREF="compbio/data/msa/JABAService.html#V2_SERVICE_NAMESPACE">V2_SERVICE_NAMESPACE</A></CODE></TD>
+<TD ALIGN="right"><CODE>"http://msa.data.compbio/01/12/2010/"</CODE></TD>
+</TR>
+</FONT></TD>
+</TR>
+</TABLE>
+
+<P>
+
+<P>
+
+<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
+<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">
 <TH ALIGN="left" COLSPAN="3">compbio.data.sequence.<A HREF="compbio/data/sequence/ClustalAlignmentUtil.html" title="class in compbio.data.sequence">ClustalAlignmentUtil</A></TH>
 </TR>
 <TR BGCOLOR="white" CLASS="TableRowColor">
@@ -116,6 +140,48 @@ compbio.data.*</FONT></TH>
 <P>
 
 <P>
+
+<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
+<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">
+<TH ALIGN="left" COLSPAN="3">compbio.data.sequence.<A HREF="compbio/data/sequence/ScoreManager.html" title="class in compbio.data.sequence">ScoreManager</A></TH>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<A NAME="compbio.data.sequence.ScoreManager.SINGLE_ENTRY_KEY"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
+<CODE>public&nbsp;static&nbsp;final&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A></CODE></FONT></TD>
+<TD ALIGN="left"><CODE><A HREF="compbio/data/sequence/ScoreManager.html#SINGLE_ENTRY_KEY">SINGLE_ENTRY_KEY</A></CODE></TD>
+<TD ALIGN="right"><CODE>"Alignment"</CODE></TD>
+</TR>
+</FONT></TD>
+</TR>
+</TABLE>
+
+<P>
+
+<P>
+
+<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
+<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">
+<TH ALIGN="left" COLSPAN="3">compbio.data.sequence.<A HREF="compbio/data/sequence/SMERFSConstraints.html" title="enum in compbio.data.sequence">SMERFSConstraints</A></TH>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<A NAME="compbio.data.sequence.SMERFSConstraints.DEFAULT_GAP_THRESHOLD"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
+<CODE>public&nbsp;static&nbsp;final&nbsp;double</CODE></FONT></TD>
+<TD ALIGN="left"><CODE><A HREF="compbio/data/sequence/SMERFSConstraints.html#DEFAULT_GAP_THRESHOLD">DEFAULT_GAP_THRESHOLD</A></CODE></TD>
+<TD ALIGN="right"><CODE>0.1</CODE></TD>
+</TR>
+<TR BGCOLOR="white" CLASS="TableRowColor">
+<A NAME="compbio.data.sequence.SMERFSConstraints.DEFAULT_WINDOW_SIZE"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
+<CODE>public&nbsp;static&nbsp;final&nbsp;int</CODE></FONT></TD>
+<TD ALIGN="left"><CODE><A HREF="compbio/data/sequence/SMERFSConstraints.html#DEFAULT_WINDOW_SIZE">DEFAULT_WINDOW_SIZE</A></CODE></TD>
+<TD ALIGN="right"><CODE>7</CODE></TD>
+</TR>
+</FONT></TD>
+</TR>
+</TABLE>
+
+<P>
+
+<P>
 <A NAME="compbio.metadata"><!-- --></A>
 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
@@ -132,7 +198,7 @@ compbio.metadata.*</FONT></TH>
 </TR>
 <TR BGCOLOR="white" CLASS="TableRowColor">
 <A NAME="compbio.metadata.PresetManager.LOCAL_ENGINE_LIMIT_PRESET"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>
+<CODE>public&nbsp;static&nbsp;final&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A></CODE></FONT></TD>
 <TD ALIGN="left"><CODE><A HREF="compbio/metadata/PresetManager.html#LOCAL_ENGINE_LIMIT_PRESET">LOCAL_ENGINE_LIMIT_PRESET</A></CODE></TD>
 <TD ALIGN="right"><CODE>"# LocalEngineExecutionLimit #"</CODE></TD>
 </TR>

compbio.data.msa.JABAService
+`public static final String`	`SERVICE_NAMESPACE`	`"http://msa.data.compbio/01/01/2010/"`
+`public static final String`	`V2_SERVICE_NAMESPACE`	`"http://msa.data.compbio/01/12/2010/"`
compbio.data.sequence.SMERFSConstraints
+`public static final double`	`DEFAULT_GAP_THRESHOLD`	`0.1`
+`public static final int`	`DEFAULT_WINDOW_SIZE`	`7`