From a61c6c63374db933506adf35010efd2ac7d87a31 Mon Sep 17 00:00:00 2001
From: tcarver <tjc>
Date: Tue, 17 Jul 2012 09:43:45 +0100
Subject: [PATCH] define BAM_SUFFIX pattern
---
uk/ac/sanger/artemis/components/alignment/BamView.java | 7 ++++---
1 file changed, 4 insertions(+), 3 deletions(-)
diff --git a/uk/ac/sanger/artemis/components/alignment/BamView.java b/uk/ac/sanger/artemis/components/alignment/BamView.java
index 5f394637f..891e43870 100644
--- a/uk/ac/sanger/artemis/components/alignment/BamView.java
+++ b/uk/ac/sanger/artemis/components/alignment/BamView.java
@@ -210,6 +210,7 @@ public class BamView extends JPanel
private CoveragePanel coverageView = new CoveragePanel();
+ protected static String BAM_SUFFIX = ".*\\.(bam|cram)$";
/** Used to colour the frames. */
private static Color LIGHT_GREY = new Color(200, 200, 200);
private static Color DARK_GREEN = new Color(0, 150, 0);
@@ -2240,10 +2241,10 @@ public class BamView extends JPanel
{
FileSelectionDialog bamFileSelection = new FileSelectionDialog(
null, false, "BamView", "BAM");
- List<String> bamFiles = bamFileSelection.getFiles(".*\\.(bam|cram)$");
+ List<String> bamFiles = bamFileSelection.getFiles(BAM_SUFFIX);
int count = bamList.size();
- bamList.addAll(bamFileSelection.getFiles(".*\\.(bam|cram)$"));
+ bamList.addAll(bamFileSelection.getFiles(BAM_SUFFIX));
for(int i=0; i<bamFiles.size(); i++)
addToViewMenu(i+count);
@@ -3670,7 +3671,7 @@ public class BamView extends JPanel
System.setProperty("default_directory", System.getProperty("user.dir"));
FileSelectionDialog fileSelection = new FileSelectionDialog(
null, true, "BamView", "BAM");
- bam = fileSelection.getFiles(".*\\.(bam|cram)$");
+ bam = fileSelection.getFiles(BAM_SUFFIX);
reference = fileSelection.getReferenceFile();
if(reference == null || reference.equals(""))
reference = null;
--
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