Query.java

/*
 * The MIT License
 *
 * Copyright 2014 Miroslav Cupak (mirocupak@gmail.com).
 *
 * 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.
 */
package com.dnastack.bob.persistence.entity;

import com.dnastack.bob.persistence.enumerated.Chromosome;
import com.dnastack.bob.persistence.enumerated.Reference;
import java.util.Objects;
import javax.persistence.Entity;
import javax.persistence.EnumType;
import javax.persistence.Enumerated;
import javax.persistence.GeneratedValue;
import javax.persistence.GenerationType;
import javax.persistence.Id;
import javax.persistence.ManyToOne;
import javax.validation.constraints.Max;
import javax.validation.constraints.Min;
import javax.validation.constraints.NotNull;
import javax.validation.constraints.Pattern;

/**
 * Generalized beacon query representation.
 *
 * @author Miroslav Cupak (mirocupak@gmail.com)
 * @version 1.0
 */
@Entity
public class Query implements BasicEntity {

    private static final long serialVersionUID = -4843153796455403263L;

    @Id
    @GeneratedValue(strategy = GenerationType.SEQUENCE)
    private Long id;
    @NotNull
    @Enumerated(EnumType.STRING)
    private Chromosome chromosome;
    @NotNull
    @Min(0L)
    @Max(300000000L)
    private Long position;
    @NotNull
    @Pattern(regexp = "([D,I])|([A,C,T,G]+)")
    private String allele;
    @Enumerated(EnumType.STRING)
    private Reference reference;
    @ManyToOne
    private Dataset dataSet;

    public Query() {
    }

    public Query(Chromosome chromosome, Long position, String allele, Reference reference) {
        this.chromosome = chromosome;
        this.position = position;
        this.allele = allele;
        this.reference = reference;
    }

    public Long getId() {
        return id;
    }

    public void setId(Long id) {
        this.id = id;
    }

    public Chromosome getChromosome() {
        return chromosome;
    }

    public void setChromosome(Chromosome chromosome) {
        this.chromosome = chromosome;
    }

    public Long getPosition() {
        return position;
    }

    public void setPosition(Long position) {
        this.position = position;
    }

    public String getAllele() {
        return allele;
    }

    public void setAllele(String allele) {
        this.allele = allele;
    }

    public Reference getReference() {
        return reference;
    }

    public void setReference(Reference reference) {
        this.reference = reference;
    }

    @Override
    public int hashCode() {
        int hash = 3;
        hash = 89 * hash + Objects.hashCode(this.chromosome);
        hash = 89 * hash + Objects.hashCode(this.position);
        hash = 89 * hash + Objects.hashCode(this.allele);
        hash = 89 * hash + Objects.hashCode(this.reference);
        return hash;
    }

    @Override
    public boolean equals(Object obj) {
        if (obj == null) {
            return false;
        }
        if (getClass() != obj.getClass()) {
            return false;
        }
        final Query other = (Query) obj;
        if (this.chromosome != other.chromosome) {
            return false;
        }
        if (!Objects.equals(this.position, other.position)) {
            return false;
        }
        if (!Objects.equals(this.allele, other.allele)) {
            return false;
        }
        if (this.reference != other.reference) {
            return false;
        }
        return true;
    }

    @Override
    public String toString() {
        return "Query{" + "chromosome=" + chromosome + ", position=" + position + ", allele=" + allele + ", reference=" + reference + '}';
    }

}