From 999540246f5c6d74b462ba3ae96006a25a023d6f Mon Sep 17 00:00:00 2001
From: tjc <tjc@ee4ac58c-ac51-4696-9907-e4b3aa274f04>
Date: Tue, 22 Feb 2011 14:43:08 +0000
Subject: [PATCH] optimise passFilter()
git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15580 ee4ac58c-ac51-4696-9907-e4b3aa274f04
---
uk/ac/sanger/artemis/components/variant/VCFFilter.java | 5 ++++-
1 file changed, 4 insertions(+), 1 deletion(-)
diff --git a/uk/ac/sanger/artemis/components/variant/VCFFilter.java b/uk/ac/sanger/artemis/components/variant/VCFFilter.java
index a418497c5..446c5d883 100644
--- a/uk/ac/sanger/artemis/components/variant/VCFFilter.java
+++ b/uk/ac/sanger/artemis/components/variant/VCFFilter.java
@@ -5,6 +5,7 @@ import java.awt.GridBagConstraints;
import java.awt.GridBagLayout;
import java.awt.event.ActionEvent;
import java.awt.event.ActionListener;
+import java.util.regex.Pattern;
import javax.swing.JButton;
import javax.swing.JCheckBox;
@@ -25,6 +26,8 @@ public class VCFFilter extends JFrame
private static float MIN_AF1 = 0;
private static float MAX_CI95 = 10;
+ private static Pattern COMMA_PATTERN = Pattern.compile(",");
+
/**
* Filter VCF records by the variant type and/or by different values in
* the record, QUAL, DP, MQ and AF1.
@@ -260,7 +263,7 @@ public class VCFFilter extends JFrame
try
{
- String vals[] = record.getInfoValue("CI95").split(",");
+ String vals[] = COMMA_PATTERN.split(record.getInfoValue("CI95"));
for(int i=0; i<vals.length; i++)
{
if(VCFFilter.MAX_CI95 < 10 && Float.parseFloat(vals[i]) > VCFFilter.MAX_CI95)
--
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