From 61fd7d316937f2d9793bd6628854a19faeb0a9c9 Mon Sep 17 00:00:00 2001
From: tjc <tjc@ee4ac58c-ac51-4696-9907-e4b3aa274f04>
Date: Fri, 3 Dec 2010 12:37:28 +0000
Subject: [PATCH] VCF record
git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15157 ee4ac58c-ac51-4696-9907-e4b3aa274f04
---
.../artemis/components/variant/VCFRecord.java | 48 +++++++++++++++++++
1 file changed, 48 insertions(+)
create mode 100644 uk/ac/sanger/artemis/components/variant/VCFRecord.java
diff --git a/uk/ac/sanger/artemis/components/variant/VCFRecord.java b/uk/ac/sanger/artemis/components/variant/VCFRecord.java
new file mode 100644
index 000000000..71cea44d0
--- /dev/null
+++ b/uk/ac/sanger/artemis/components/variant/VCFRecord.java
@@ -0,0 +1,48 @@
+/*
+ * created: 2010
+ *
+ * This file is part of Artemis
+ *
+ * Copyright(C) 2010 Genome Research Limited
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 2
+ * of the License, or(at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA.
+ *
+ */
+
+package uk.ac.sanger.artemis.components.variant;
+
+import java.util.HashMap;
+import java.util.Iterator;
+
+class VCFRecord
+{
+ public String alt;
+ public String ref;
+ int seqID;
+ int pos;
+ float quality;
+ String info;
+ String format;
+ HashMap<String, String> data = new HashMap<String, String>();
+
+ public String toString()
+ {
+ StringBuffer buff = new StringBuffer();
+ Iterator<String> it = data.values().iterator();
+ while(it.hasNext())
+ buff.append(it.next()+ ( (it.hasNext()) ? ":" : "" ) );
+ return seqID+"\t"+pos+"\t"+ref+"\t"+alt+"\t"+quality+"\t"+info+"\t"+format+"\t"+buff.toString();
+ }
+}
\ No newline at end of file
--
GitLab