/* * The MIT License (MIT) * * Copyright (c) 2007-2015 Broad Institute * * Permission is hereby granted, free of charge, to any person obtaining a copy * of this software and associated documentation files (the "Software"), to deal * in the Software without restriction, including without limitation the rights * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell * copies of the Software, and to permit persons to whom the Software is * furnished to do so, subject to the following conditions: * * The above copyright notice and this permission notice shall be included in * all copies or substantial portions of the Software. * * * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN * THE SOFTWARE. */ /* * To change this template, choose Tools | Templates * and open the template in the editor. */ package org.broad.igv.renderer; import org.broad.igv.track.Track; import javax.xml.bind.annotation.XmlAccessType; import javax.xml.bind.annotation.XmlAccessorType; import javax.xml.bind.annotation.XmlAttribute; import java.util.Collection; /** * Encapsulates parameter for an x-y plot axis. * * @author jrobinso */ @XmlAccessorType(XmlAccessType.NONE) public class DataRange{ public enum Type { LOG, LINEAR } /** * The scale type, linear by default */ @XmlAttribute private Type type = Type.LINEAR; /** * Minimum data value displayed. Zero by default. */ @XmlAttribute private float minimum = 0; /** * Where to draw the plot baseline. Zero by default */ @XmlAttribute private float baseline = 0; /** * Maximum data value displayed. This value is required, no default */ @XmlAttribute private float maximum; /** * If true the Y axis is "flipped" (most negative value at top) */ @XmlAttribute private boolean flipAxis = false; @XmlAttribute private boolean drawBaseline = true; //Here for JAXB Compatibility private DataRange(){} public DataRange(float minimum, float maximum) { this(minimum, minimum, maximum, true); } public DataRange(float minimum, float baseline, float maximum) { this(minimum, baseline, maximum, true); } public DataRange(float minimum, float baseline, float maximum, boolean drawBaseline) { this(minimum, baseline, maximum, drawBaseline, false); } public DataRange(float minimum, float baseline, float maximum, boolean drawBaseline, boolean isLog) { this.minimum = minimum; this.baseline = baseline; this.maximum = maximum; this.drawBaseline = drawBaseline; this.type = isLog ? Type.LOG : Type.LINEAR; } public void setType(Type type) { this.type = type; } public Type getType() { return type; } public boolean isLog() { return type == Type.LOG; } public float getMinimum() { return minimum; } public float getBaseline() { return baseline; } public float getMaximum() { return maximum; } public boolean isFlipAxis() { return flipAxis; } public boolean isDrawBaseline() { return drawBaseline; } public void setDrawBaseline(boolean drawBaseline) { this.drawBaseline = drawBaseline; } public static DataRange getFromTracks(Collection<? extends Track> tracks){ float min = Float.MAX_VALUE; float max = Float.MIN_VALUE; float mid = 0; boolean drawBaseline = true; boolean isLog = true; for (Track t : tracks) { DataRange dr = t.getDataRange(); min = Math.min(min, dr.getMinimum()); max = Math.max(max, dr.getMaximum()); mid += dr.getBaseline(); drawBaseline &= dr.isDrawBaseline(); isLog &= dr.isLog(); } mid /= tracks.size(); if (mid < min) { mid = min; } else if (mid > max) { min = max; } return new DataRange(min, mid, max, drawBaseline, isLog); } }