updated jalview version of dasobert 1.53e client and added Das Sequence Source discov...

[jalview.git] / src / org / biojava / dasobert / feature / HistogramFeature.java

diff --git a/src/org/biojava/dasobert/feature/HistogramFeature.java b/src/org/biojava/dasobert/feature/HistogramFeature.java
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+++ b/src/org/biojava/dasobert/feature/HistogramFeature.java
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+/*
+ *                  BioJava development code
+ *
+ * This code may be freely distributed and modified under the
+ * terms of the GNU Lesser General Public Licence.  This should
+ * be distributed with the code.  If you do not have a copy,
+ * see:
+ *
+ *      http://www.gnu.org/copyleft/lesser.html
+ *
+ * Copyright for this code is held jointly by the individual
+ * authors.  These should be listed in @author doc comments.
+ *
+ * For more information on the BioJava project and its aims,
+ * or to join the biojava-l mailing list, visit the home page
+ * at:
+ *
+ *      http://www.biojava.org/
+ * 
+ * Created on May 22, 2007
+ * 
+ */
+
+package org.biojava.dasobert.feature;
+
+
+import java.util.Iterator;
+
+/** a class that represents Histogram Style features
+ * in addition to normal features they know about Max and Minimum scores for the whole line
+ * Histogram feautes have only one (Histogram) Segment, which contains the scores for each position
+ *  
+ * @author Andreas Prlic
+ *
+ */
+public class HistogramFeature 
+       extends AbstractFeatureTrack {
+       
+       double max;
+       double min;
+       
+       public HistogramFeature() {
+               super();
+               // TODO Auto-generated constructor stub
+       }
+       
+       
+       
+       public double getMax() {
+               return max;
+       }
+
+
+
+       public void setMax(double max) {
+               this.max = max;
+       }
+
+
+
+       public double getMin() {
+               return min;
+       }
+
+
+
+       public void setMin(double min) {
+               this.min = min;
+       }
+
+
+
+       public Object clone() {
+               
+               HistogramFeature f = new HistogramFeature();
+               
+               f.setName(name);
+       f.setMethod(method);
+       f.setType(type);
+       f.setNote(note);
+       f.setLink(link);
+       f.setSource(source);
+       f.setScore(score);
+       
+       Iterator iter = segments.iterator();
+       
+       while (iter.hasNext()){
+               Segment s = (Segment) iter.next();
+               f.addSegment((Segment)s.clone());
+       }
+       
+       return f;
+               
+               
+       }
+       
+       
+       
+       
+       
+
+}