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Make muscle executable compilation not static to fix problem on Macs
[jabaws.git] / website / dm_javadoc / compbio / data / sequence / package-summary.html
diff --git a/website/dm_javadoc/compbio/data/sequence/package-summary.html b/website/dm_javadoc/compbio/data/sequence/package-summary.html
index 1609e36..deb2f77 100644 (file)
--- a/website/dm_javadoc/compbio/data/sequence/package-summary.html
+++ b/website/dm_javadoc/compbio/data/sequence/package-summary.html
@@ -2,12 +2,12 @@
 <!--NewPage-->\r
 <HTML>\r
 <HEAD>\r
-<!-- Generated by javadoc (build 1.6.0_21) on Wed Nov 24 12:17:18 GMT 2010 -->\r
+<!-- Generated by javadoc (build 1.6.0_21) on Tue Dec 21 18:32:59 GMT 2010 -->\r
 <TITLE>\r
 compbio.data.sequence\r
 </TITLE>\r
 \r
-<META NAME="date" CONTENT="2010-11-24">\r
+<META NAME="date" CONTENT="2010-12-21">\r
 \r
 <LINK REL ="stylesheet" TYPE="text/css" HREF="../../../stylesheet.css" TITLE="Style">\r
 \r
@@ -104,6 +104,10 @@ A data model for multiple sequence alignment web services and utility methods
 <TD>Alignment metadata e.g.</TD>\r
 </TR>\r
 <TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD WIDTH="15%"><B><A HREF="../../../compbio/data/sequence/AnnotatedSequence.html" title="class in compbio.data.sequence">AnnotatedSequence</A></B></TD>\r
+<TD>&nbsp;</TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
 <TD WIDTH="15%"><B><A HREF="../../../compbio/data/sequence/ClustalAlignmentUtil.html" title="class in compbio.data.sequence">ClustalAlignmentUtil</A></B></TD>\r
 <TD>Tools to read and write clustal formated files</TD>\r
 </TR>\r
@@ -112,6 +116,14 @@ A data model for multiple sequence alignment web services and utility methods
 <TD>A FASTA formatted sequence.</TD>\r
 </TR>\r
 <TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD WIDTH="15%"><B><A HREF="../../../compbio/data/sequence/MultiAnnotatedSequence.html" title="class in compbio.data.sequence">MultiAnnotatedSequence&lt;T extends Enum&lt;T&gt;&gt;</A></B></TD>\r
+<TD>TODO complete</TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD WIDTH="15%"><B><A HREF="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence">Score</A></B></TD>\r
+<TD>A value class for AACon annotation results storage</TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
 <TD WIDTH="15%"><B><A HREF="../../../compbio/data/sequence/SequenceUtil.html" title="class in compbio.data.sequence">SequenceUtil</A></B></TD>\r
 <TD>Utility class for operations on sequences</TD>\r
 </TR>\r
@@ -126,9 +138,21 @@ A data model for multiple sequence alignment web services and utility methods
 <B>Enum Summary</B></FONT></TH>\r
 </TR>\r
 <TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD WIDTH="15%"><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A></B></TD>\r
+<TD>Enumeration listing of all the supported methods.</TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD WIDTH="15%"><B><A HREF="../../../compbio/data/sequence/DisemblResultAnnot.html" title="enum in compbio.data.sequence">DisemblResultAnnot</A></B></TD>\r
+<TD>&nbsp;</TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
 <TD WIDTH="15%"><B><A HREF="../../../compbio/data/sequence/Program.html" title="enum in compbio.data.sequence">Program</A></B></TD>\r
 <TD>The list of programmes that can produce alignments</TD>\r
 </TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD WIDTH="15%"><B><A HREF="../../../compbio/data/sequence/SMERFSConstraints.html" title="enum in compbio.data.sequence">SMERFSConstraints</A></B></TD>\r
+<TD>Enumeration defining two constraints for SMERFS columns score calculation.</TD>\r
+</TR>\r
 </TABLE>\r
 &nbsp;\r
 \r