SampleReportServiceImpl.java

package net.sourceforge.seqware.common.business.impl;

import java.util.List;
import net.sourceforge.seqware.common.business.SampleReportService;
import net.sourceforge.seqware.common.dao.SampleReportDAO;
import net.sourceforge.seqware.common.model.IUS;
import net.sourceforge.seqware.common.model.Lane;
import net.sourceforge.seqware.common.model.Sample;
import net.sourceforge.seqware.common.model.SampleReportRow;
import net.sourceforge.seqware.common.model.SequencerRun;
import net.sourceforge.seqware.common.model.SequencerRunReportId;
import net.sourceforge.seqware.common.model.Study;
import net.sourceforge.seqware.common.model.Workflow;

/**
 * <p>
 * SampleReportServiceImpl class.
 * </p>
 * 
 * @author boconnor
 * @version $Id: $Id
 */
public class SampleReportServiceImpl implements SampleReportService {

    private SampleReportDAO sampleReportDAO = null;

    /**
     * <p>
     * Setter for the field <code>sampleReportDAO</code>.
     * </p>
     * 
     * @param dao
     *            a {@link net.sourceforge.seqware.common.dao.SampleReportDAO} object.
     */
    public void setSampleReportDAO(SampleReportDAO dao) {
        this.sampleReportDAO = dao;
    }

    /** {@inheritDoc} */
    @Override
    public List<Status> getStatusesForStudy(Study study) {
        return sampleReportDAO.getStatusesForStudy(study);
    }

    /** {@inheritDoc} */
    @Override
    public List<Workflow> getWorkflowsForStudy(Study study) {
        return sampleReportDAO.getWorkflowsForStudy(study);
    }

    /** {@inheritDoc} */
    @Override
    public List<Workflow> getWorkflows(SequencerRun seqRun) {
        return sampleReportDAO.getWorkflows(seqRun);
    }

    /** {@inheritDoc} */
    @Override
    public int countOfStatus(Study study, Status status) {
        return sampleReportDAO.countOfStatus(study, status);
    }

    /** {@inheritDoc} */
    @Override
    public int countOfStatus(SequencerRun seqRun, Status status) {
        return sampleReportDAO.countOfStatus(seqRun, status);
    }

    /** {@inheritDoc} */
    @Override
    public int countOfStatus(Study study, Workflow workflow, Status status) {
        return sampleReportDAO.countOfStatus(study, workflow, status);
    }

    /** {@inheritDoc} */
    @Override
    public int countOfStatus(SequencerRun seqRun, Workflow workflow, Status status) {
        return sampleReportDAO.countOfStatus(seqRun, workflow, status);
    }

    /** {@inheritDoc} */
    @Override
    public int countOfRows(SequencerRun seqRun) {
        return sampleReportDAO.countOfRows(seqRun);
    }

    /** {@inheritDoc} */
    @Override
    public List<Sample> getChildSamples(Study study) {
        return sampleReportDAO.getChildSamples(study);
    }

    /** {@inheritDoc} */
    @Override
    public Status getStatus(Study study, Sample childSample, Workflow workflow) {
        return sampleReportDAO.getStatus(study, childSample, workflow);
    }

    /** {@inheritDoc} */
    @Override
    public Status getStatus(Study study, Sample sample, IUS ius, Lane lane, SequencerRun seqRun, Workflow workflow) {
        if (seqRun == null) {
            return getStatus(study, sample, workflow);
        }
        return sampleReportDAO.getStatus(study, sample, ius, lane, seqRun, workflow);
    }

    /** {@inheritDoc} */
    @Override
    public List<Status> getStatusesForWorkflow(Study study, Workflow workflow) {
        return sampleReportDAO.getStatusesForWorkflow(study, workflow);
    }

    /** {@inheritDoc} */
    @Override
    public List<SampleReportRow> getRowsForSequencerRun(SequencerRun sr) {
        if (sr == null) {
            return getRowsWithSequencerRuns();
        }
        return sampleReportDAO.getRowsForSequencerRun(sr);
    }

    /** {@inheritDoc} */
    @Override
    public List<SampleReportRow> getRowsWithSequencerRuns() {
        return sampleReportDAO.getRowsWithSequencerRuns();
    }

    /** {@inheritDoc} */
    @Override
    public List<Status> getStatusesForWorkflow(SequencerRun seqRun, Workflow workflow) {
        return sampleReportDAO.getStatusesForWorkflow(seqRun, workflow);
    }

    /** {@inheritDoc} */
    @Override
    public List<Status> getStatusesForSequencerRun(SequencerRun seqRun) {
        return sampleReportDAO.getStatusesForSequencerRun(seqRun);
    }

    /** {@inheritDoc} */
    @Override
    public List<SequencerRunReportId> getSequencerRunReportIds(SequencerRun seqRun, String sortField, String sortOrder, int offset,
            int limit) {
        return sampleReportDAO.getSequencerRunReportIds(seqRun, sortField, sortOrder, offset, limit);
    }

    /** {@inheritDoc} */
    @Override
    public List<SequencerRunReportId> getSequencerRunReportIds(SequencerRun seqRun) {
        return sampleReportDAO.getSequencerRunReportIds(seqRun);
    }

    /** {@inheritDoc} */
    @Override
    public List<SequencerRunReportId> getSequencerRunReportIds(SequencerRun seqRun, String sortField, String orderType) {
        return getSequencerRunReportIds(seqRun, sortField, orderType, 0, Integer.MAX_VALUE);
    }

}