58 lines
1.9 KiB
Java
58 lines
1.9 KiB
Java
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/*
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* The Broad Institute
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* SOFTWARE COPYRIGHT NOTICE AGREEMENT
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* This software and its documentation are copyright 2009 by the
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* Broad Institute/Massachusetts Institute of Technology. All rights are reserved.
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*
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* This software is supplied without any warranty or guaranteed support whatsoever. Neither
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* the Broad Institute nor MIT can be responsible for its use, misuse, or functionality.
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*/
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package org.broadinstitute.sting.illumina;
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/**
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* Holds all the Firecrest-level data we need (so far) about an individual read.
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*
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* @author Kiran Garimella
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*/
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public class FirecrestReadData {
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final private int laneNumber;
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final private int tileNumber;
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final private int xCoordinate;
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final private int yCoordinate;
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final private FourIntensity[] intensities;
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/**
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* Constructor that takes everything to populate this object
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*
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* @param laneNumber
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* @param tileNumber
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* @param xCoordinate
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* @param yCoordinate
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* @param intensities
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*/
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public FirecrestReadData(int laneNumber, int tileNumber, int xCoordinate, int yCoordinate, FourIntensity[] intensities) {
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this.laneNumber = laneNumber;
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this.tileNumber = tileNumber;
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this.xCoordinate = xCoordinate;
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this.yCoordinate = yCoordinate;
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this.intensities = intensities;
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}
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/**
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* Composes a name for this read from its values.
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*
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* @return the read name
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*/
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public String getReadName() {
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return this.laneNumber + ":" + this.tileNumber + ":" + this.xCoordinate + ":" + this.yCoordinate + "#0";
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}
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public int getLaneNumber() { return laneNumber; }
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public int getTileNumber() { return tileNumber; }
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public int getXCoordinate() { return xCoordinate; }
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public int getYCoordinate() { return yCoordinate; }
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public FourIntensity[] getIntensities() { return intensities; }
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}
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