From 081d97534307cfc0a6f33e4b517f41a190fd70a2 Mon Sep 17 00:00:00 2001
From: tcarver <tjc>
Date: Thu, 10 Jan 2013 09:51:27 +0000
Subject: [PATCH] use bamClone system property to define multiple BAM windows
(to be used with bam flag)
---
.../sanger/artemis/components/EntryEdit.java | 26 ++++++++++++++++---
1 file changed, 22 insertions(+), 4 deletions(-)
diff --git a/uk/ac/sanger/artemis/components/EntryEdit.java b/uk/ac/sanger/artemis/components/EntryEdit.java
index bf811123b..8e75559fd 100644
--- a/uk/ac/sanger/artemis/components/EntryEdit.java
+++ b/uk/ac/sanger/artemis/components/EntryEdit.java
@@ -498,11 +498,29 @@ public class EntryEdit extends JFrame
public Object construct()
{
EntryEdit.this.setCursor(new Cursor(Cursor.WAIT_CURSOR));
- String ngs[] = System.getProperty("bam").split("[\\s,]");
- FileSelectionDialog fileChooser = new FileSelectionDialog(ngs);
- List<String> listBams = fileChooser.getFiles(".*\\.(bam|cram)$");
- List<String> vcfFiles = fileChooser.getFiles(VCFview.VCFFILE_SUFFIX);
+ final String ngs[] = System.getProperty("bam").split("[\\s,]");
+ final FileSelectionDialog fileChooser = new FileSelectionDialog(ngs);
+ final List<String> listBams = fileChooser.getFiles(".*\\.(bam|cram)$");
+ final List<String> vcfFiles = fileChooser.getFiles(VCFview.VCFFILE_SUFFIX);
loadBamAndVcf(listBams, vcfFiles);
+
+ if(System.getProperty("bamClone") != null)
+ {
+ int nclone = 2;
+ try
+ {
+ nclone = Integer.parseInt(System.getProperty("bamClone"));
+ }
+ catch(NumberFormatException ne){}
+ if(nclone > 10)
+ nclone = 10;
+ logger4j.debug("No. BamView clones = "+nclone+" bamClone = "+
+ System.getProperty("bamClone"));
+
+ for(int i=1;i<nclone;i++)
+ bamView.cloneBamView();
+ }
+
EntryEdit.this.setCursor(new Cursor(Cursor.DEFAULT_CURSOR));
return null;
}
--
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