From 2299c6669cfb133cbad69e249669220bca174767 Mon Sep 17 00:00:00 2001 From: Jim Procter Date: Mon, 9 Nov 2015 14:40:23 +0000 Subject: [PATCH] JAL-1950 JAL-1958 bitscore is more effective for shading than e-value --- src/jalview/ws/ebi/HmmerJSONProcessor.java | 1 + 1 file changed, 1 insertion(+) diff --git a/src/jalview/ws/ebi/HmmerJSONProcessor.java b/src/jalview/ws/ebi/HmmerJSONProcessor.java index 731df91..bb3e95a 100644 --- a/src/jalview/ws/ebi/HmmerJSONProcessor.java +++ b/src/jalview/ws/ebi/HmmerJSONProcessor.java @@ -157,6 +157,7 @@ public class HmmerJSONProcessor hitseq.addAlignmentAnnotation(eval); alipp.createSequenceMapping(hitseq, hitseq.getStart(), false); hitseq.addAlignmentAnnotation(alipp); + alipp.setScore(Double.valueOf("" + dhit.get("bitscore"))); alipp.adjustForAlignment(); resultAl.addAnnotation(pval); resultAl.addAnnotation(eval); -- 1.7.10.2