From a454eb62bda455f772785537ee7ccaec3855cfab Mon Sep 17 00:00:00 2001
From: tcarver <tjc>
Date: Tue, 7 Aug 2012 15:01:19 +0100
Subject: [PATCH] add option to plot coverage by strand
---
uk/ac/sanger/artemis/components/alignment/CoveragePanel.java | 5 +++++
1 file changed, 5 insertions(+)
diff --git a/uk/ac/sanger/artemis/components/alignment/CoveragePanel.java b/uk/ac/sanger/artemis/components/alignment/CoveragePanel.java
index be456c481..37bf2a3df 100644
--- a/uk/ac/sanger/artemis/components/alignment/CoveragePanel.java
+++ b/uk/ac/sanger/artemis/components/alignment/CoveragePanel.java
@@ -421,6 +421,10 @@ import net.sf.samtools.SAMRecord;
showCombined.setEnabled(false);
c.gridy = c.gridy+1;
opts.add(showCombined, c);
+
+ final JCheckBox byStrand = new JCheckBox("Plot by strand", plotByStrand);
+ c.gridy = c.gridy+1;
+ opts.add(byStrand, c);
String window_options[] = { "OK", "Cancel" };
int select = JOptionPane.showOptionDialog(null, opts, "Coverage Options",
@@ -433,6 +437,7 @@ import net.sf.samtools.SAMRecord;
redraw = true;
autoWinSize = autoSet.isSelected();
includeCombined = showCombined.isSelected();
+ plotByStrand = byStrand.isSelected();
try
{
--
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