org.mzd.shap.analysis.blast.bean.Iteration.java Source code

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Here is the source code for org.mzd.shap.analysis.blast.bean.Iteration.java

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/**
 *
 * Copyright 2010 Matthew Z DeMaere.
 * 
 * This file is part of SHAP.
 *
 * SHAP 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.
 * 
 * SHAP 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 SHAP.  If not, see <http://www.gnu.org/licenses/>.
 * 
 */
package org.mzd.shap.analysis.blast.bean;

import java.util.ArrayList;
import java.util.List;

import org.apache.commons.lang.builder.ToStringBuilder;
import org.apache.commons.lang.builder.ToStringStyle;

import com.thoughtworks.xstream.annotations.XStreamAlias;

@XStreamAlias("Iteration")
public class Iteration {
    @XStreamAlias("Iteration_iter-num")
    private Integer number;
    @XStreamAlias("Iteration_query-ID")
    private String queryId;
    @XStreamAlias("Iteration_query-def")
    private String queryDefinition;
    @XStreamAlias("Iteration_query-len")
    private Integer queryLength;
    @XStreamAlias("Iteration_hits")
    private List<Hit> hits = new ArrayList<Hit>();
    @XStreamAlias("Iteration_stat")
    private Statistics statistics;
    @XStreamAlias("Iteration_message")
    private String message;

    @Override
    public String toString() {
        return new ToStringBuilder(this, ToStringStyle.MULTI_LINE_STYLE).append("number", getNumber())
                .append("queryId", getQueryId()).append("queryDefinition", getQueryDefinition())
                .append("queryLength", getQueryLength()).append("hits", getHits())
                .append("statistics", getStatistics()).append("message", getMessage()).toString();
    }

    public Integer getNumber() {
        return number;
    }

    public void setNumber(Integer number) {
        this.number = number;
    }

    public String getQueryId() {
        return queryId;
    }

    public void setQueryId(String queryId) {
        this.queryId = queryId;
    }

    public String getQueryDefinition() {
        return queryDefinition;
    }

    public void setQueryDefinition(String queryDefinition) {
        this.queryDefinition = queryDefinition;
    }

    public Integer getQueryLength() {
        return queryLength;
    }

    public void setQueryLength(Integer queryLength) {
        this.queryLength = queryLength;
    }

    public List<Hit> getHits() {
        return hits;
    }

    public void setHits(List<Hit> hits) {
        this.hits = hits;
    }

    public void addHit(Hit hit) {
        getHits().add(hit);
    }

    public Statistics getStatistics() {
        return statistics;
    }

    public void setStatistics(Statistics statistics) {
        this.statistics = statistics;
    }

    public String getMessage() {
        return message;
    }

    public void setMessage(String message) {
        this.message = message;
    }

}