super();
}
+ /**
+ * Returns a new instance of this colour scheme with which the given data may
+ * be coloured
+ */
+ @Override
+ public ColourSchemeI getInstance(AnnotatedCollectionI coll,
+ Map<SequenceI, SequenceCollectionI> hrs)
+ {
+ return new Blosum62ColourScheme();
+ }
+
@Override
public Color findColour(char res, int j, SequenceI seq)
{
res -= ('a' - 'A');
}
- if (consensus == null || j >= consensus.length || consensus[j] == null
+ if (consensus == null || consensus.get(j) == null
|| (threshold != 0 && !aboveThreshold(res, j)))
{
return Color.white;
/*
* test if this is the consensus (or joint consensus) residue
*/
- String max = consensus[j].getModalResidue();
+ String max = consensus.get(j).getModalResidue();
if (max.indexOf(res) > -1)
{
}
@Override
- public ColourSchemeI applyTo(AnnotatedCollectionI sg,
- Map<SequenceI, SequenceCollectionI> hiddenRepSequences)
+ public boolean isPeptideSpecific()
+ {
+ return true;
+ }
+
+ @Override
+ public String getSchemeName()
+ {
+ return JalviewColourScheme.Blosum62.toString();
+ }
+
+ @Override
+ public boolean isSimple()
{
- ColourSchemeI newcs = super.applyTo(sg, hiddenRepSequences);
- return newcs;
+ return false;
}
}