1 <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
\r
5 <!-- Generated by javadoc (build 1.6.0_24) on Wed Dec 07 12:30:40 GMT 2011 -->
\r
7 ScoreManager.ScoreHolder
\r
10 <META NAME="date" CONTENT="2011-12-07">
\r
12 <LINK REL ="stylesheet" TYPE="text/css" HREF="../../../stylesheet.css" TITLE="Style">
\r
14 <SCRIPT type="text/javascript">
\r
15 function windowTitle()
\r
17 if (location.href.indexOf('is-external=true') == -1) {
\r
18 parent.document.title="ScoreManager.ScoreHolder";
\r
27 <BODY BGCOLOR="white" onload="windowTitle();">
\r
31 <!-- ========= START OF TOP NAVBAR ======= -->
\r
32 <A NAME="navbar_top"><!-- --></A>
\r
33 <A HREF="#skip-navbar_top" title="Skip navigation links"></A>
\r
34 <TABLE BORDER="0" WIDTH="100%" CELLPADDING="1" CELLSPACING="0" SUMMARY="">
\r
36 <TD COLSPAN=2 BGCOLOR="#EEEEFF" CLASS="NavBarCell1">
\r
37 <A NAME="navbar_top_firstrow"><!-- --></A>
\r
38 <TABLE BORDER="0" CELLPADDING="0" CELLSPACING="3" SUMMARY="">
\r
39 <TR ALIGN="center" VALIGN="top">
\r
40 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../overview-summary.html"><FONT CLASS="NavBarFont1"><B>Overview</B></FONT></A> </TD>
\r
41 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="package-summary.html"><FONT CLASS="NavBarFont1"><B>Package</B></FONT></A> </TD>
\r
42 <TD BGCOLOR="#FFFFFF" CLASS="NavBarCell1Rev"> <FONT CLASS="NavBarFont1Rev"><B>Class</B></FONT> </TD>
\r
43 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="class-use/ScoreManager.ScoreHolder.html"><FONT CLASS="NavBarFont1"><B>Use</B></FONT></A> </TD>
\r
44 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="package-tree.html"><FONT CLASS="NavBarFont1"><B>Tree</B></FONT></A> </TD>
\r
45 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../deprecated-list.html"><FONT CLASS="NavBarFont1"><B>Deprecated</B></FONT></A> </TD>
\r
46 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../index-files/index-1.html"><FONT CLASS="NavBarFont1"><B>Index</B></FONT></A> </TD>
\r
47 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../help-doc.html"><FONT CLASS="NavBarFont1"><B>Help</B></FONT></A> </TD>
\r
51 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
\r
57 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
\r
58 <A HREF="../../../compbio/data/sequence/ScoreManager.html" title="class in compbio.data.sequence"><B>PREV CLASS</B></A>
\r
59 <A HREF="../../../compbio/data/sequence/SequenceUtil.html" title="class in compbio.data.sequence"><B>NEXT CLASS</B></A></FONT></TD>
\r
60 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
\r
61 <A HREF="../../../index.html?compbio/data/sequence/ScoreManager.ScoreHolder.html" target="_top"><B>FRAMES</B></A>
\r
62 <A HREF="ScoreManager.ScoreHolder.html" target="_top"><B>NO FRAMES</B></A>
\r
63 <SCRIPT type="text/javascript">
\r
66 document.writeln('<A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>');
\r
71 <A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>
\r
78 <TD VALIGN="top" CLASS="NavBarCell3"><FONT SIZE="-2">
\r
79 SUMMARY: NESTED | <A HREF="#field_summary">FIELD</A> | CONSTR | <A HREF="#method_summary">METHOD</A></FONT></TD>
\r
80 <TD VALIGN="top" CLASS="NavBarCell3"><FONT SIZE="-2">
\r
81 DETAIL: <A HREF="#field_detail">FIELD</A> | CONSTR | <A HREF="#method_detail">METHOD</A></FONT></TD>
\r
84 <A NAME="skip-navbar_top"></A>
\r
85 <!-- ========= END OF TOP NAVBAR ========= -->
\r
88 <!-- ======== START OF CLASS DATA ======== -->
\r
91 compbio.data.sequence</FONT>
\r
93 Class ScoreManager.ScoreHolder</H2>
\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.data.sequence.ScoreManager.ScoreHolder</B>
\r
99 <DT><B>Enclosing class:</B><DD><A HREF="../../../compbio/data/sequence/ScoreManager.html" title="class in compbio.data.sequence">ScoreManager</A></DD>
\r
103 <DT><PRE>public static class <B>ScoreManager.ScoreHolder</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
110 <!-- =========== FIELD SUMMARY =========== -->
\r
112 <A NAME="field_summary"><!-- --></A>
\r
113 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
\r
114 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
\r
115 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
\r
116 <B>Field Summary</B></FONT></TH>
\r
118 <TR BGCOLOR="white" CLASS="TableRowColor">
\r
119 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
\r
120 <CODE> <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>
\r
121 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html#id">id</A></B></CODE>
\r
124 </TD>
\r
126 <TR BGCOLOR="white" CLASS="TableRowColor">
\r
127 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
\r
128 <CODE> <A HREF="http://java.sun.com/javase/6/docs/api/java/util/TreeSet.html?is-external=true" title="class or interface in java.util">TreeSet</A><<A HREF="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence">Score</A>></CODE></FONT></TD>
\r
129 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html#scores">scores</A></B></CODE>
\r
132 </TD>
\r
136 <!-- ========== METHOD SUMMARY =========== -->
\r
138 <A NAME="method_summary"><!-- --></A>
\r
139 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
\r
140 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
\r
141 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
\r
142 <B>Method Summary</B></FONT></TH>
\r
144 <TR BGCOLOR="white" CLASS="TableRowColor">
\r
145 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
\r
146 <CODE> boolean</CODE></FONT></TD>
\r
147 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html#equals(java.lang.Object)">equals</A></B>(<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> obj)</CODE>
\r
150 </TD>
\r
152 <TR BGCOLOR="white" CLASS="TableRowColor">
\r
153 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
\r
154 <CODE> int</CODE></FONT></TD>
\r
155 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html#getNumberOfScores()">getNumberOfScores</A></B>()</CODE>
\r
158 </TD>
\r
160 <TR BGCOLOR="white" CLASS="TableRowColor">
\r
161 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
\r
162 <CODE> <A HREF="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence">Score</A></CODE></FONT></TD>
\r
163 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html#getScoreByMethod(java.lang.Enum)">getScoreByMethod</A></B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true" title="class or interface in java.lang">Enum</A><?> method)</CODE>
\r
166 </TD>
\r
168 <TR BGCOLOR="white" CLASS="TableRowColor">
\r
169 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
\r
170 <CODE> <A HREF="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence">Score</A></CODE></FONT></TD>
\r
171 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html#getScoreByMethod(java.lang.String)">getScoreByMethod</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> method)</CODE>
\r
174 </TD>
\r
176 <TR BGCOLOR="white" CLASS="TableRowColor">
\r
177 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
\r
178 <CODE> int</CODE></FONT></TD>
\r
179 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html#hashCode()">hashCode</A></B>()</CODE>
\r
182 </TD>
\r
184 <TR BGCOLOR="white" CLASS="TableRowColor">
\r
185 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
\r
186 <CODE> void</CODE></FONT></TD>
\r
187 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ScoreManager.ScoreHolder.html#writeOut(java.io.Writer)">writeOut</A></B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/io/Writer.html?is-external=true" title="class or interface in java.io">Writer</A> writer)</CODE>
\r
190 </TD>
\r
193 <A NAME="methods_inherited_from_class_java.lang.Object"><!-- --></A>
\r
194 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
\r
195 <TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">
\r
196 <TH ALIGN="left"><B>Methods inherited from class 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">Object</A></B></TH>
\r
198 <TR BGCOLOR="white" CLASS="TableRowColor">
\r
199 <TD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#getClass()" title="class or interface in java.lang">getClass</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#notify()" title="class or interface in java.lang">notify</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#notifyAll()" title="class or interface in java.lang">notifyAll</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#toString()" title="class or interface in java.lang">toString</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#wait()" title="class or interface in java.lang">wait</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#wait(long)" title="class or interface in java.lang">wait</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#wait(long, int)" title="class or interface in java.lang">wait</A></CODE></TD>
\r
205 <!-- ============ FIELD DETAIL =========== -->
\r
207 <A NAME="field_detail"><!-- --></A>
\r
208 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
\r
209 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
\r
210 <TH ALIGN="left" COLSPAN="1"><FONT SIZE="+2">
\r
211 <B>Field Detail</B></FONT></TH>
\r
215 <A NAME="id"><!-- --></A><H3>
\r
218 public <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> <B>id</B></PRE>
\r
225 <A NAME="scores"><!-- --></A><H3>
\r
228 public <A HREF="http://java.sun.com/javase/6/docs/api/java/util/TreeSet.html?is-external=true" title="class or interface in java.util">TreeSet</A><<A HREF="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence">Score</A>> <B>scores</B></PRE>
\r
234 <!-- ============ METHOD DETAIL ========== -->
\r
236 <A NAME="method_detail"><!-- --></A>
\r
237 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
\r
238 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
\r
239 <TH ALIGN="left" COLSPAN="1"><FONT SIZE="+2">
\r
240 <B>Method Detail</B></FONT></TH>
\r
244 <A NAME="writeOut(java.io.Writer)"><!-- --></A><H3>
\r
247 public void <B>writeOut</B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/io/Writer.html?is-external=true" title="class or interface in java.io">Writer</A> writer)
\r
248 throws <A HREF="http://java.sun.com/javase/6/docs/api/java/io/IOException.html?is-external=true" title="class or interface in java.io">IOException</A></PRE>
\r
253 <DD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/io/IOException.html?is-external=true" title="class or interface in java.io">IOException</A></CODE></DL>
\r
258 <A NAME="getScoreByMethod(java.lang.Enum)"><!-- --></A><H3>
\r
259 getScoreByMethod</H3>
\r
261 public <A HREF="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence">Score</A> <B>getScoreByMethod</B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true" title="class or interface in java.lang">Enum</A><?> method)</PRE>
\r
269 <A NAME="getScoreByMethod(java.lang.String)"><!-- --></A><H3>
\r
270 getScoreByMethod</H3>
\r
272 public <A HREF="../../../compbio/data/sequence/Score.html" title="class in compbio.data.sequence">Score</A> <B>getScoreByMethod</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> method)</PRE>
\r
280 <A NAME="getNumberOfScores()"><!-- --></A><H3>
\r
281 getNumberOfScores</H3>
\r
283 public int <B>getNumberOfScores</B>()</PRE>
\r
291 <A NAME="hashCode()"><!-- --></A><H3>
\r
294 public int <B>hashCode</B>()</PRE>
\r
297 <DT><B>Overrides:</B><DD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#hashCode()" title="class or interface in java.lang">hashCode</A></CODE> in class <CODE><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></CODE></DL>
\r
305 <A NAME="equals(java.lang.Object)"><!-- --></A><H3>
\r
308 public boolean <B>equals</B>(<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> obj)</PRE>
\r
311 <DT><B>Overrides:</B><DD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#equals(java.lang.Object)" title="class or interface in java.lang">equals</A></CODE> in class <CODE><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></CODE></DL>
\r
317 <!-- ========= END OF CLASS DATA ========= -->
\r
321 <!-- ======= START OF BOTTOM NAVBAR ====== -->
\r
322 <A NAME="navbar_bottom"><!-- --></A>
\r
323 <A HREF="#skip-navbar_bottom" title="Skip navigation links"></A>
\r
324 <TABLE BORDER="0" WIDTH="100%" CELLPADDING="1" CELLSPACING="0" SUMMARY="">
\r
326 <TD COLSPAN=2 BGCOLOR="#EEEEFF" CLASS="NavBarCell1">
\r
327 <A NAME="navbar_bottom_firstrow"><!-- --></A>
\r
328 <TABLE BORDER="0" CELLPADDING="0" CELLSPACING="3" SUMMARY="">
\r
329 <TR ALIGN="center" VALIGN="top">
\r
330 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../overview-summary.html"><FONT CLASS="NavBarFont1"><B>Overview</B></FONT></A> </TD>
\r
331 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="package-summary.html"><FONT CLASS="NavBarFont1"><B>Package</B></FONT></A> </TD>
\r
332 <TD BGCOLOR="#FFFFFF" CLASS="NavBarCell1Rev"> <FONT CLASS="NavBarFont1Rev"><B>Class</B></FONT> </TD>
\r
333 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="class-use/ScoreManager.ScoreHolder.html"><FONT CLASS="NavBarFont1"><B>Use</B></FONT></A> </TD>
\r
334 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="package-tree.html"><FONT CLASS="NavBarFont1"><B>Tree</B></FONT></A> </TD>
\r
335 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../deprecated-list.html"><FONT CLASS="NavBarFont1"><B>Deprecated</B></FONT></A> </TD>
\r
336 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../index-files/index-1.html"><FONT CLASS="NavBarFont1"><B>Index</B></FONT></A> </TD>
\r
337 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../help-doc.html"><FONT CLASS="NavBarFont1"><B>Help</B></FONT></A> </TD>
\r
341 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
\r
347 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
\r
348 <A HREF="../../../compbio/data/sequence/ScoreManager.html" title="class in compbio.data.sequence"><B>PREV CLASS</B></A>
\r
349 <A HREF="../../../compbio/data/sequence/SequenceUtil.html" title="class in compbio.data.sequence"><B>NEXT CLASS</B></A></FONT></TD>
\r
350 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
\r
351 <A HREF="../../../index.html?compbio/data/sequence/ScoreManager.ScoreHolder.html" target="_top"><B>FRAMES</B></A>
\r
352 <A HREF="ScoreManager.ScoreHolder.html" target="_top"><B>NO FRAMES</B></A>
\r
353 <SCRIPT type="text/javascript">
\r
356 document.writeln('<A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>');
\r
361 <A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>
\r
368 <TD VALIGN="top" CLASS="NavBarCell3"><FONT SIZE="-2">
\r
369 SUMMARY: NESTED | <A HREF="#field_summary">FIELD</A> | CONSTR | <A HREF="#method_summary">METHOD</A></FONT></TD>
\r
370 <TD VALIGN="top" CLASS="NavBarCell3"><FONT SIZE="-2">
\r
371 DETAIL: <A HREF="#field_detail">FIELD</A> | CONSTR | <A HREF="#method_detail">METHOD</A></FONT></TD>
\r
374 <A NAME="skip-navbar_bottom"></A>
\r
375 <!-- ======== END OF BOTTOM NAVBAR ======= -->
\r