website/full_javadoc/compbio/pipeline/_jpred/BlastParser.html

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  91 compbio.pipeline._jpred</FONT>\r
  92 <BR>\r
  93 Class BlastParser</H2>\r
  94 <PRE>\r
  95 <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">java.lang.Object</A>\r
  96   <IMG SRC="../../../resources/inherit.gif" ALT="extended by "><B>compbio.pipeline._jpred.BlastParser</B>\r
  97 </PRE>\r
  98 <HR>\r
  99 <DL>\r
 100 <DT><PRE>public class <B>BlastParser</B><DT>extends <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">Object</A></DL>\r
 101 </PRE>\r
 102 \r
 103 <P>\r
 104 <HR>\r
 105 \r
 106 <P>\r
 107 \r
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 114 <B>Constructor Summary</B></FONT></TH>\r
 115 </TR>\r
 116 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 117 <TD><CODE><B><A HREF="../../../compbio/pipeline/_jpred/BlastParser.html#BlastParser(java.lang.String)">BlastParser</A></B>(<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>&nbsp;file)</CODE>\r
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 122 </TABLE>\r
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 133 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 134 <CODE>static&nbsp;void</CODE></FONT></TD>\r
 135 <TD><CODE><B><A HREF="../../../compbio/pipeline/_jpred/BlastParser.html#main(java.lang.String[])">main</A></B>(<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>[]&nbsp;args)</CODE>\r
 136 \r
 137 <BR>\r
 138 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;args[0] is assumed to be the name of a Blast output file</TD>\r
 139 </TR>\r
 140 </TABLE>\r
 141 &nbsp;<A NAME="methods_inherited_from_class_java.lang.Object"><!-- --></A>\r
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 159 <B>Constructor Detail</B></FONT></TH>\r
 160 </TR>\r
 161 </TABLE>\r
 162 \r
 163 <A NAME="BlastParser(java.lang.String)"><!-- --></A><H3>\r
 164 BlastParser</H3>\r
 165 <PRE>\r
 166 public <B>BlastParser</B>(<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>&nbsp;file)\r
 167             throws <A HREF="http://java.sun.com/javase/6/docs/api/java/io/FileNotFoundException.html?is-external=true" title="class or interface in java.io">FileNotFoundException</A>,\r
 168                    <A HREF="http://java.sun.com/javase/6/docs/api/javax/xml/stream/XMLStreamException.html?is-external=true" title="class or interface in javax.xml.stream">XMLStreamException</A></PRE>\r
 169 <DL>\r
 170 <DL>\r
 171 \r
 172 <DT><B>Throws:</B>\r
 173 <DD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/io/FileNotFoundException.html?is-external=true" title="class or interface in java.io">FileNotFoundException</A></CODE>\r
 174 <DD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/javax/xml/stream/XMLStreamException.html?is-external=true" title="class or interface in javax.xml.stream">XMLStreamException</A></CODE></DL>\r
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 184 </TR>\r
 185 </TABLE>\r
 186 \r
 187 <A NAME="main(java.lang.String[])"><!-- --></A><H3>\r
 188 main</H3>\r
 189 <PRE>\r
 190 public static void <B>main</B>(<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>[]&nbsp;args)\r
 191                  throws <A HREF="http://java.sun.com/javase/6/docs/api/java/io/FileNotFoundException.html?is-external=true" title="class or interface in java.io">FileNotFoundException</A>,\r
 192                         <A HREF="http://java.sun.com/javase/6/docs/api/javax/xml/stream/XMLStreamException.html?is-external=true" title="class or interface in javax.xml.stream">XMLStreamException</A></PRE>\r
 193 <DL>\r
 194 <DD>args[0] is assumed to be the name of a Blast output file\r
 195 <P>\r
 196 <DD><DL>\r
 197 \r
 198 <DT><B>Throws:</B>\r
 199 <DD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/javax/xml/stream/XMLStreamException.html?is-external=true" title="class or interface in javax.xml.stream">XMLStreamException</A></CODE>\r
 200 <DD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/io/FileNotFoundException.html?is-external=true" title="class or interface in java.io">FileNotFoundException</A></CODE></DL>\r
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