From: Jim Procter <jprocter@issues.jalview.org>
Date: Mon, 21 Nov 2016 16:31:45 +0000 (+0000)
Subject: JAL-2335 patched FeatureRendererModel.findFeaturesAtRes to honour isContactFeature
X-Git-Tag: Release_2_10_1~10^2~1^2
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=eb5043c4c5932b46aa018e37ae42bd011405cd87;p=jalview.git

JAL-2335 patched FeatureRendererModel.findFeaturesAtRes to honour isContactFeature
---

diff --git a/src/jalview/viewmodel/seqfeatures/FeatureRendererModel.java b/src/jalview/viewmodel/seqfeatures/FeatureRendererModel.java
index 7ff9adf..c1ad465 100644
--- a/src/jalview/viewmodel/seqfeatures/FeatureRendererModel.java
+++ b/src/jalview/viewmodel/seqfeatures/FeatureRendererModel.java
@@ -288,8 +288,12 @@ public abstract class FeatureRendererModel implements
           continue;
         }
 
-        if ((features[i].getBegin() <= res)
-                && (features[i].getEnd() >= res))
+        // check if start/end are at res, and if not a contact feature, that res
+        // lies between start and end
+        if ((features[i].getBegin() == res || features[i].getEnd() == res)
+                || (!features[i].isContactFeature()
+                        && (features[i].getBegin() < res) && (features[i]
+                        .getEnd() >= res)))
         {
           tmp.add(features[i]);
         }