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Remove old versions of web site
[jabaws.git] / website / full_javadoc / constant-values.html
diff --git a/website/full_javadoc/constant-values.html b/website/full_javadoc/constant-values.html
deleted file mode 100644 (file)
index 85d4d02..0000000
--- a/website/full_javadoc/constant-values.html
+++ /dev/null
@@ -1,498 +0,0 @@
-<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">\r
-<!--NewPage-->\r
-<HTML>\r
-<HEAD>\r
-<!-- Generated by javadoc (build 1.6.0_14) on Wed Feb 17 16:46:50 GMT 2010 -->\r
-<TITLE>\r
-Constant Field Values\r
-</TITLE>\r
-\r
-<META NAME="date" CONTENT="2010-02-17">\r
-\r
-<LINK REL ="stylesheet" TYPE="text/css" HREF="stylesheet.css" TITLE="Style">\r
-\r
-<SCRIPT type="text/javascript">\r
-function windowTitle()\r
-{\r
-    if (location.href.indexOf('is-external=true') == -1) {\r
-        parent.document.title="Constant Field Values";\r
-    }\r
-}\r
-</SCRIPT>\r
-<NOSCRIPT>\r
-</NOSCRIPT>\r
-\r
-</HEAD>\r
-\r
-<BODY BGCOLOR="white" onload="windowTitle();">\r
-<HR>\r
-\r
-\r
-<!-- ========= START OF TOP NAVBAR ======= -->\r
-<A NAME="navbar_top"><!-- --></A>\r
-<A HREF="#skip-navbar_top" title="Skip navigation links"></A>\r
-<TABLE BORDER="0" WIDTH="100%" CELLPADDING="1" CELLSPACING="0" SUMMARY="">\r
-<TR>\r
-<TD COLSPAN=2 BGCOLOR="#EEEEFF" CLASS="NavBarCell1">\r
-<A NAME="navbar_top_firstrow"><!-- --></A>\r
-<TABLE BORDER="0" CELLPADDING="0" CELLSPACING="3" SUMMARY="">\r
-  <TR ALIGN="center" VALIGN="top">\r
-  <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="overview-summary.html"><FONT CLASS="NavBarFont1"><B>Overview</B></FONT></A>&nbsp;</TD>\r
-  <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <FONT CLASS="NavBarFont1">Package</FONT>&nbsp;</TD>\r
-  <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <FONT CLASS="NavBarFont1">Class</FONT>&nbsp;</TD>\r
-  <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <FONT CLASS="NavBarFont1">Use</FONT>&nbsp;</TD>\r
-  <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="overview-tree.html"><FONT CLASS="NavBarFont1"><B>Tree</B></FONT></A>&nbsp;</TD>\r
-  <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="deprecated-list.html"><FONT CLASS="NavBarFont1"><B>Deprecated</B></FONT></A>&nbsp;</TD>\r
-  <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="index-files/index-1.html"><FONT CLASS="NavBarFont1"><B>Index</B></FONT></A>&nbsp;</TD>\r
-  <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="help-doc.html"><FONT CLASS="NavBarFont1"><B>Help</B></FONT></A>&nbsp;</TD>\r
-  </TR>\r
-</TABLE>\r
-</TD>\r
-<TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>\r
-</EM>\r
-</TD>\r
-</TR>\r
-\r
-<TR>\r
-<TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
-&nbsp;PREV&nbsp;\r
-&nbsp;NEXT</FONT></TD>\r
-<TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
-  <A HREF="index.html?constant-values.html" target="_top"><B>FRAMES</B></A>  &nbsp;\r
-&nbsp;<A HREF="constant-values.html" target="_top"><B>NO FRAMES</B></A>  &nbsp;\r
-&nbsp;<SCRIPT type="text/javascript">\r
-  <!--\r
-  if(window==top) {\r
-    document.writeln('<A HREF="allclasses-noframe.html"><B>All Classes</B></A>');\r
-  }\r
-  //-->\r
-</SCRIPT>\r
-<NOSCRIPT>\r
-  <A HREF="allclasses-noframe.html"><B>All Classes</B></A>\r
-</NOSCRIPT>\r
-\r
-\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-<A NAME="skip-navbar_top"></A>\r
-<!-- ========= END OF TOP NAVBAR ========= -->\r
-\r
-<HR>\r
-<CENTER>\r
-<H1>\r
-Constant Field Values</H1>\r
-</CENTER>\r
-<HR SIZE="4" NOSHADE>\r
-<B>Contents</B><UL>\r
-<LI><A HREF="#compbio.data">compbio.data.*</A>\r
-<LI><A HREF="#compbio.engine">compbio.engine.*</A>\r
-<LI><A HREF="#compbio.metadata">compbio.metadata.*</A>\r
-<LI><A HREF="#compbio.runner">compbio.runner.*</A>\r
-</UL>\r
-\r
-<A NAME="compbio.data"><!-- --></A>\r
-<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
-<TH ALIGN="left"><FONT SIZE="+2">\r
-compbio.data.*</FONT></TH>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.data.sequence.<A HREF="compbio/data/sequence/ClustalAlignmentUtil.html" title="class in compbio.data.sequence">ClustalAlignmentUtil</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.data.sequence.ClustalAlignmentUtil.gapchar"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;char</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/data/sequence/ClustalAlignmentUtil.html#gapchar">gapchar</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>45</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-<A NAME="compbio.engine"><!-- --></A>\r
-<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
-<TH ALIGN="left"><FONT SIZE="+2">\r
-compbio.engine.*</FONT></TH>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.engine.client.<A HREF="compbio/engine/client/ConfExecutable.html" title="class in compbio.engine.client">ConfExecutable</A>&lt;<A HREF="compbio/engine/client/ConfExecutable.html" title="type parameter in ConfExecutable">T</A>&gt;</TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.client.ConfExecutable.CLUSTER_TASK_ID_PREFIX"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/client/ConfExecutable.html#CLUSTER_TASK_ID_PREFIX">CLUSTER_TASK_ID_PREFIX</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"@"</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.engine.client.<A HREF="compbio/engine/client/EnvVariableProcessor.html" title="class in compbio.engine.client">EnvVariableProcessor</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.client.EnvVariableProcessor.PATH"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/client/EnvVariableProcessor.html#PATH">PATH</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"PATH"</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.engine.client.<A HREF="compbio/engine/client/RunConfiguration.html" title="class in compbio.engine.client">RunConfiguration</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.client.RunConfiguration.rconfigFile"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/client/RunConfiguration.html#rconfigFile">rconfigFile</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"RunnerConfig.xml"</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.engine.cluster.drmaa.<A HREF="compbio/engine/cluster/drmaa/ClusterSession.html" title="class in compbio.engine.cluster.drmaa">ClusterSession</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.cluster.drmaa.ClusterSession.JOBID"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/cluster/drmaa/ClusterSession.html#JOBID">JOBID</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"JOBID"</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.engine.cluster.dundee.<A HREF="compbio/engine/cluster/dundee/_QueueConstraints.html" title="class in compbio.engine.cluster.dundee">_QueueConstraints</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.cluster.dundee._QueueConstraints.FIRST_MEMORY_LIMIT"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;int</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/cluster/dundee/_QueueConstraints.html#FIRST_MEMORY_LIMIT">FIRST_MEMORY_LIMIT</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>14000</CODE></TD>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.cluster.dundee._QueueConstraints.LONG_TIME_LIMIT"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;int</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/cluster/dundee/_QueueConstraints.html#LONG_TIME_LIMIT">LONG_TIME_LIMIT</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>24</CODE></TD>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.cluster.dundee._QueueConstraints.MAX_MEMORY_LIMIT"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;int</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/cluster/dundee/_QueueConstraints.html#MAX_MEMORY_LIMIT">MAX_MEMORY_LIMIT</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>30000</CODE></TD>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.cluster.dundee._QueueConstraints.SHORT_TIME_LIMIT"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;int</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/cluster/dundee/_QueueConstraints.html#SHORT_TIME_LIMIT">SHORT_TIME_LIMIT</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>8</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.engine.conf.<A HREF="compbio/engine/conf/_Key.html" title="class in compbio.engine.conf">_Key</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.conf._Key.DELIM"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/conf/_Key.html#DELIM">DELIM</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"#"</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.engine.conf.<A HREF="compbio/engine/conf/DirectoryManager.html" title="class in compbio.engine.conf">DirectoryManager</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.conf.DirectoryManager.DELIM"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/conf/DirectoryManager.html#DELIM">DELIM</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"#"</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.engine.local.<A HREF="compbio/engine/local/ExecutableWrapper.html" title="class in compbio.engine.local">ExecutableWrapper</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.local.ExecutableWrapper.PROC_ERR_FILE"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/local/ExecutableWrapper.html#PROC_ERR_FILE">PROC_ERR_FILE</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"procError.txt"</CODE></TD>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.engine.local.ExecutableWrapper.PROC_OUT_FILE"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/engine/local/ExecutableWrapper.html#PROC_OUT_FILE">PROC_OUT_FILE</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"procOutput.txt"</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-<A NAME="compbio.metadata"><!-- --></A>\r
-<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
-<TH ALIGN="left"><FONT SIZE="+2">\r
-compbio.metadata.*</FONT></TH>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.metadata.<A HREF="compbio/metadata/PresetManager.html" title="class in compbio.metadata">PresetManager</A>&lt;<A HREF="compbio/metadata/PresetManager.html" title="type parameter in PresetManager">T</A>&gt;</TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.metadata.PresetManager.LOCAL_ENGINE_LIMIT_PRESET"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/metadata/PresetManager.html#LOCAL_ENGINE_LIMIT_PRESET">LOCAL_ENGINE_LIMIT_PRESET</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"# LocalEngineExecutionLimit #"</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-<A NAME="compbio.runner"><!-- --></A>\r
-<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
-<TH ALIGN="left"><FONT SIZE="+2">\r
-compbio.runner.*</FONT></TH>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.runner.<A HREF="compbio/runner/Util.html" title="class in compbio.runner">Util</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.runner.Util.SPACE"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/runner/Util.html#SPACE">SPACE</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>" "</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.runner.msa.<A HREF="compbio/runner/msa/ClustalW.html" title="class in compbio.runner.msa">ClustalW</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.runner.msa.ClustalW.KEY_VALUE_SEPARATOR"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/runner/msa/ClustalW.html#KEY_VALUE_SEPARATOR">KEY_VALUE_SEPARATOR</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>"="</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.runner.msa.<A HREF="compbio/runner/msa/Mafft.html" title="class in compbio.runner.msa">Mafft</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.runner.msa.Mafft.KEY_VALUE_SEPARATOR"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/runner/msa/Mafft.html#KEY_VALUE_SEPARATOR">KEY_VALUE_SEPARATOR</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>" "</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
-</TR>\r
-</TABLE>\r
-\r
-<P>\r
-\r
-<P>\r
-\r
-<TABLE BORDER="1" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
-<TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
-<TH ALIGN="left" COLSPAN="3">compbio.runner.msa.<A HREF="compbio/runner/msa/Muscle.html" title="class in compbio.runner.msa">Muscle</A></TH>\r
-</TR>\r
-<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<A NAME="compbio.runner.msa.Muscle.KEY_VALUE_SEPARATOR"><!-- --></A><TD ALIGN="right"><FONT SIZE="-1">\r
-<CODE>public&nbsp;static&nbsp;final&nbsp;java.lang.String</CODE></FONT></TD>\r
-<TD ALIGN="left"><CODE><A HREF="compbio/runner/msa/Muscle.html#KEY_VALUE_SEPARATOR">KEY_VALUE_SEPARATOR</A></CODE></TD>\r
-<TD ALIGN="right"><CODE>" "</CODE></TD>\r
-</TR>\r
-</FONT></TD>\r
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