From 023f9881b11aa75f28e1d07802fa4e713af11e68 Mon Sep 17 00:00:00 2001
From: tcarver <tjc>
Date: Thu, 28 Feb 2013 14:24:03 +0000
Subject: [PATCH] fix getCodonStart()
---
uk/ac/sanger/artemis/io/GFFDocumentEntry.java | 9 ++-------
1 file changed, 2 insertions(+), 7 deletions(-)
diff --git a/uk/ac/sanger/artemis/io/GFFDocumentEntry.java b/uk/ac/sanger/artemis/io/GFFDocumentEntry.java
index bf2e8af75..d759a59bd 100644
--- a/uk/ac/sanger/artemis/io/GFFDocumentEntry.java
+++ b/uk/ac/sanger/artemis/io/GFFDocumentEntry.java
@@ -911,17 +911,12 @@ public class GFFDocumentEntry extends SimpleDocumentEntry
*/
private Qualifier getCodonStart(final List<Feature> gffFeatures, final boolean isComplement)
{
- int fstart = (isComplement ? 0 : Integer.MAX_VALUE);
+ int fstart = Integer.MAX_VALUE;
Feature firstFeature = null;
for(Feature f: gffFeatures)
{
final GFFStreamFeature this_feature = (GFFStreamFeature)f;
- if(isComplement && this_feature.getFirstBase() > fstart)
- {
- firstFeature = this_feature;
- fstart = this_feature.getFirstBase();
- }
- else if(!isComplement && this_feature.getFirstBase() < fstart)
+ if(this_feature.getFirstBase() < fstart)
{
firstFeature = this_feature;
fstart = this_feature.getFirstBase();
--
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