From 7d722306ebba9a2d6562849c598a91d867f7d00e Mon Sep 17 00:00:00 2001 From: kiramt Date: Mon, 5 Jun 2017 20:45:06 +0100 Subject: [PATCH] JAL-2588 Naive implementation of gaps as grey in overview --- src/jalview/gui/SequenceRenderer.java | 9 ++++++++- 1 file changed, 8 insertions(+), 1 deletion(-) diff --git a/src/jalview/gui/SequenceRenderer.java b/src/jalview/gui/SequenceRenderer.java index 36825ea..a89d7ce 100755 --- a/src/jalview/gui/SequenceRenderer.java +++ b/src/jalview/gui/SequenceRenderer.java @@ -140,8 +140,15 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer { if (shader.getColourScheme() != null) { - resBoxColour = shader.findColour(seq.getCharAt(i), + if (forOverview && Comparison.isGap(seq.getCharAt(i))) + { + resBoxColour = Color.lightGray; + } + else + { + resBoxColour = shader.findColour(seq.getCharAt(i), i, seq); + } } else if (forOverview && !Comparison.isGap(seq.getCharAt(i))) { -- 1.7.10.2