X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src2%2Ffr%2Forsay%2Flri%2Fvarna%2Fmodels%2FnaView%2FLoop.java;fp=src2%2Ffr%2Forsay%2Flri%2Fvarna%2Fmodels%2FnaView%2FLoop.java;h=0000000000000000000000000000000000000000;hb=a1225b9392dc7657d5cef12907385b07527d6122;hp=ae08bbd7343743b67b2b01c0fc3ec9bea8dca3ae;hpb=b513684c725997c77341f30ce4e584cf9f7cdfed;p=jalview.git

diff --git a/src2/fr/orsay/lri/varna/models/naView/Loop.java b/src2/fr/orsay/lri/varna/models/naView/Loop.java
deleted file mode 100644
index ae08bbd..0000000
--- a/src2/fr/orsay/lri/varna/models/naView/Loop.java
+++ /dev/null
@@ -1,128 +0,0 @@
-/*
- VARNA is a tool for the automated drawing, visualization and annotation of the secondary structure of RNA, designed as a companion software for web servers and databases.
- Copyright (C) 2008  Kevin Darty, Alain Denise and Yann Ponty.
- electronic mail : Yann.Ponty@lri.fr
- paper mail : LRI, bat 490 Université Paris-Sud 91405 Orsay Cedex France
-
- This file is part of VARNA version 3.1.
- VARNA version 3.1 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.
-
- VARNA version 3.1 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 VARNA version 3.1.
- If not, see http://www.gnu.org/licenses.
- */
-package fr.orsay.lri.varna.models.naView;
-
-import java.util.ArrayList;
-import java.util.Hashtable;
-
-public class Loop {
-	private int nconnection;
-	private ArrayList<Connection> connections = new ArrayList<Connection>();
-	private Hashtable<Integer,Connection> _connections = new Hashtable<Integer,Connection>();
-	private int number;
-	private int depth;
-	private boolean mark;
-	private double x, y, radius;
-
-	public int getNconnection() {
-		return nconnection;
-	}
-
-	public void setNconnection(int nconnection) {
-		this.nconnection = nconnection;
-	}
-
-	public void setConnection(int i, Connection c)
-	{
-		Integer n = new Integer(i);
-		if (c != null)
-    		_connections.put(n, c);
-		else
-		{
-			if (!_connections.containsKey(n))
-			{
-				_connections.put(n, new Connection());
-			}
-			_connections.get(i).setNull(true);
-		}
-	}
-
-	public Connection getConnection(int i)
-	{
-		Integer n = new Integer(i);
-		if (!_connections.containsKey(n))
-		{ _connections.put(n, new Connection()); }
-		Connection c = _connections.get(n);
-		if (c.isNull())
-			return null;
-		else
-			return c;
-	}
-	
-	public void addConnection(int i, Connection c)
-	{
-		_connections.put(_connections.size(),c);
-	}
-	
-
-	public int getNumber() {
-		return number;
-	}
-
-	public void setNumber(int number) {
-		this.number = number;
-	}
-
-	public int getDepth() {
-		return depth;
-	}
-
-	public void setDepth(int depth) {
-		this.depth = depth;
-	}
-
-	public boolean isMark() {
-		return mark;
-	}
-
-	public void setMark(boolean mark) {
-		this.mark = mark;
-	}
-
-	public double getX() {
-		return x;
-	}
-
-	public void setX(double x) {
-		this.x = x;
-	}
-
-	public double getY() {
-		return y;
-	}
-
-	public void setY(double y) {
-		this.y = y;
-	}
-
-	public double getRadius() {
-		return radius;
-	}
-
-	public void setRadius(double radius) {
-		this.radius = radius;
-	}
-	
-	public String toString()
-	{
-		String result = "Loop:";
-		result += " nconnection "+nconnection;
-		result += " depth "+depth;
-		return result;
-	}
-}