From: MorellThomas <morellth@yahoo.co.jp>
Date: Thu, 18 Apr 2024 12:16:08 +0000 (+0200)
Subject: Merge branch 'test/progressBar' into feature/JAL-4159_pasimap
X-Git-Tag: Release_2_11_4_0~31^2~18^2~1
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=a3fac343a7a385f8ec33a739ada884ebd0e170d8;p=jalview.git

Merge branch 'test/progressBar' into feature/JAL-4159_pasimap
---

a3fac343a7a385f8ec33a739ada884ebd0e170d8
diff --cc src/jalview/analysis/PaSiMap.java
index 96f1e15,c776701..7c1c24a
--- a/src/jalview/analysis/PaSiMap.java
+++ b/src/jalview/analysis/PaSiMap.java
@@@ -50,10 -47,12 +47,12 @@@ public class PaSiMap implements Runnabl
  
    final private ScoreModelI scoreModel;
  
-   final private SimilarityParamsI similarityParams;
- 
 -  final private byte dim = 3;
 +  final private byte dim = 8;
  
+   final private int openCost = 100;
+ 
+   final private int extendCost = 5;
+ 
    /*
     * outputs
     */