+/*
+ 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;
+
+public class Connection {
+ private Loop loop = new Loop();
+ private Region region = new Region();
+ // Start and end form the 1st base pair of the region.
+ private int start, end;
+ private double xrad, yrad, angle;
+ // True if segment between this connection and the
+ // next must be extruded out of the circle
+ private boolean extruded;
+ // True if the extruded segment must be drawn long.
+ private boolean broken;
+
+ private boolean _isNull=false;
+
+ public boolean isNull() {
+ return _isNull;
+ }
+
+ public void setNull(boolean isNull) {
+ _isNull = isNull;
+ }
+
+
+ public Loop getLoop() {
+ return loop;
+ }
+
+ public void setLoop(Loop loop) {
+ this.loop = loop;
+ }
+
+ public Region getRegion() {
+ return region;
+ }
+
+ public void setRegion(Region region) {
+ this.region = region;
+ }
+
+ public int getStart() {
+ return start;
+ }
+
+ public void setStart(int start) {
+ this.start = start;
+ }
+
+ public int getEnd() {
+ return end;
+ }
+
+ public void setEnd(int end) {
+ this.end = end;
+ }
+
+ public double getXrad() {
+ return xrad;
+ }
+
+ public void setXrad(double xrad) {
+ this.xrad = xrad;
+ }
+
+ public double getYrad() {
+ return yrad;
+ }
+
+ public void setYrad(double yrad) {
+ this.yrad = yrad;
+ }
+
+ public double getAngle() {
+ return angle;
+ }
+
+ public void setAngle(double angle) {
+ this.angle = angle;
+ }
+
+ public boolean isExtruded() {
+ return extruded;
+ }
+
+ public void setExtruded(boolean extruded) {
+ this.extruded = extruded;
+ }
+
+ public boolean isBroken() {
+ return broken;
+ }
+
+ public void setBroken(boolean broken) {
+ this.broken = broken;
+ }
+}