X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fdatamodel%2FSequenceFeature.java;h=1b6498f596e33e04c685b091acf2b71fac49315a;hb=16359e92bebc20edafc4958b7b580c8ceedd4d37;hp=24afbd3a5398e9ca7ff46b918a34e46d62afd6be;hpb=b2f9a8d7bce642ff4011bc6d49e02bb0569fbb11;p=jalview.git
diff --git a/src/jalview/datamodel/SequenceFeature.java b/src/jalview/datamodel/SequenceFeature.java
index 24afbd3..1b6498f 100755
--- a/src/jalview/datamodel/SequenceFeature.java
+++ b/src/jalview/datamodel/SequenceFeature.java
@@ -1,24 +1,27 @@
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
* Jalview 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 3 of the License, or (at your option) any later version.
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
*
* Jalview 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 Jalview. If not, see .
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see .
* The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.datamodel;
-import java.util.*;
+import java.util.Hashtable;
+import java.util.Vector;
/**
* DOCUMENT ME!
@@ -40,7 +43,7 @@ public class SequenceFeature
public Hashtable otherDetails;
- public java.util.Vector links;
+ public Vector links;
// Feature group can be set from a features file
// as a group of features between STARTGROUP and ENDGROUP markers
@@ -88,7 +91,7 @@ public class SequenceFeature
}
if (cpy.links != null && cpy.links.size() > 0)
{
- links = new Vector();
+ links = new Vector();
for (int i = 0, iSize = cpy.links.size(); i < iSize; i++)
{
links.addElement(cpy.links.elementAt(i));
@@ -209,7 +212,7 @@ public class SequenceFeature
{
if (links == null)
{
- links = new java.util.Vector();
+ links = new Vector();
}
links.insertElementAt(labelLink, 0);
@@ -281,7 +284,9 @@ public class SequenceFeature
{
String stat = (String) otherDetails.get("status");
if (stat != null)
+ {
return new String(stat);
+ }
}
return null;
}
@@ -297,4 +302,23 @@ public class SequenceFeature
return begin;
}
+ public int getStrand()
+ {
+ String str;
+ if (otherDetails == null
+ || (str = otherDetails.get("STRAND").toString()) == null)
+ {
+ return 0;
+ }
+ if (str.equals("-"))
+ {
+ return -1;
+ }
+ if (str.equals("+"))
+ {
+ return 1;
+ }
+ return 0;
+ }
+
}