update license

mdcao · 9e79ade97ba05ea4ad959f3e45c34ef780b6fba9 · mdcao committed Oct 24, 2016 · Oct 24, 2016 · 9e79ade
1 parent 22319db
commit 9e79ade97ba05ea4ad959f3e45c34ef780b6fba9
Unified Split

Showing with 200 additions and 158 deletions.

+1 −1 LICENSE.md

+4 −0 src/main/java/japsa/bio/alignment/ProfileDP.java

+195 −157 src/main/java/japsa/tools/bio/hts/VNTRLongReadsCmd.java
diff --git a/LICENSE.md b/LICENSE.md
@@ -1,4 +1,4 @@
-  Copyright (c) Minh Duc Cao, Monash Uni & UQ, All rights reserved.
+  Copyright (c) the author(s), All rights reserved.
 
   Redistribution and use in source and binary forms, with or without
   modification, are permitted provided that the following conditions
diff --git a/src/main/java/japsa/bio/alignment/ProfileDP.java b/src/main/java/japsa/bio/alignment/ProfileDP.java
@@ -119,6 +119,10 @@ public void setMatchProbability(double matP){
 		matchCost  = - JapsaMath.log2(matchProb);
 		misMatchCost = -JapsaMath.log2(misMatchProb)- JapsaMath.log2(1.0/3.0);;
 	}
+	
+	public int getProfileLength(){
+		return profileSeq.length();
+	}
 	/**************************************************/
 
 	public EmissionState align(Sequence seq){