X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Futil%2FShiftList.java;h=d4d06eeb8d91574f69064e504b9a26339bc1e2a5;hb=5e9c9db95281199bdb29f5716a231283d9e0384c;hp=78b99ef1ff672670c3d68f603ddb7caad07776af;hpb=8906ee1e7c76cc694793097abbb0fefe4434bb5a;p=jalview.git
diff --git a/src/jalview/util/ShiftList.java b/src/jalview/util/ShiftList.java
index 78b99ef..d4d06ee 100644
--- a/src/jalview/util/ShiftList.java
+++ b/src/jalview/util/ShiftList.java
@@ -1,27 +1,33 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
+ * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
+ *
+ * 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.
+ *
+ * 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
Title: ShiftList
- * - *Description:
- * - *Copyright: Copyright (c) 2004
- * - *Company: Dundee University
- * - * @author not attributable - * @version 1.0 + * ShiftList Simple way of mapping a linear series to a new linear range with + * new points introduced. Use at your own risk! Now growing to be used for + * interval ranges (position, offset) storing deletions/insertions */ public class ShiftList { - public Vector shifts; + public Vector shifts; + public ShiftList() { shifts = new Vector(); @@ -29,37 +35,51 @@ public class ShiftList /** * addShift - * @param pos start position for shift (in original reference frame) - * @param shift length of shift + * + * @param pos + * start position for shift (in original reference frame) + * @param shift + * length of shift */ public void addShift(int pos, int shift) { int sidx = 0; - int[] rshift=null; - while (sidx