package jalview.datamodel;
+import java.awt.Color;
import java.math.BigInteger;
import java.util.ArrayList;
+import java.util.BitSet;
+import java.util.HashMap;
import java.util.List;
import java.util.Spliterator;
import java.util.StringTokenizer;
}
@Override
- public boolean hasReferenceSeq()
+ public String getAnnotLabel()
{
- // TODO Auto-generated method stub
- return false;
+ return "Contact Matrix";
}
@Override
- public SequenceI getReferenceSeq()
+ public String getAnnotDescr()
{
- // TODO Auto-generated method stub
- return null;
+ return "Contact Matrix";
}
-
+ List<BitSet> groups=null;
@Override
- public String getAnnotLabel()
+ public void updateGroups(List<BitSet> colGroups)
{
- return "Contact Matrix";
+ groups = colGroups;
+ colorMap=new HashMap<>();
}
-
@Override
- public String getAnnotDescr()
+ public boolean hasGroups()
{
- return "Contact Matrix";
+ return groups!=null && groups.size()>0;
+ }
+ @Override
+ public List<BitSet> getGroups()
+ {
+ return groups;
+ }
+ @Override
+ public BitSet getGroupsFor(int column)
+ {
+ for (BitSet gp:groups) {
+ if (gp.get(column))
+ {
+ return gp;
+ }
+ }
+ return ContactMatrixI.super.getGroupsFor(column);
+ }
+ HashMap<BitSet,Color> colorMap = new HashMap<>();
+ @Override
+ public Color getColourForGroup(BitSet bs)
+ {
+ if (bs==null) {
+ return Color.white;
+ }
+ Color groupCol=colorMap.get(bs);
+ if (groupCol==null)
+ {
+ return Color.white;
+ }
+ return groupCol;
+ }
+ @Override
+ public void setColorForGroup(BitSet bs,Color color)
+ {
+ colorMap.put(bs,color);
}
-
public static String contactToFloatString(ContactMatrixI cm)
{
StringBuilder sb = new StringBuilder();