gov.nih.nci.caintegrator.studyQueryService.germline.BatchFindingsHandler.java Source code

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Here is the source code for gov.nih.nci.caintegrator.studyQueryService.germline.BatchFindingsHandler.java

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/*L
 *  Copyright SAIC
 *
 *  Distributed under the OSI-approved BSD 3-Clause License.
 *  See http://ncip.github.com/stats-analysis/LICENSE.txt for details.
 */

package gov.nih.nci.caintegrator.studyQueryService.germline;

import java.util.List;
import java.util.Set;

import org.hibernate.Session;

/**
 * Author: Ram Bhattaru
 * Date:   Sep 25, 2006
 * Time:   4:49:24 AM
 */
abstract public class BatchFindingsHandler {

    /*
      1.  For Findings that are requested by regular start & end index with Annotations
      Criteria: start=0  end=end
      2.  For Findings that are requested by regular start & end index: wihtout Annotation
      Criteria: start=start  end=end
      3.  For Findings that are requested by calling populateFindings(). i.e. all Findings
      with Annotation Criteria (start: -1 end: -1)  meaning ignore indexes as it happens
      in a continuos loop
      3.  For Findings that are requested by calling populateFindings(). i.e. all Findings
      without Annotation Criteria (start: start  end: end)
    */

    public static final int BATCH_OBJECT_INCREMENT = 20000;

    protected static int IN_PARAMETERS = 1000;

    protected abstract Set getConcreteTypedFindingSet();

    protected abstract List getConcreteTypedFindingList();

    final protected void populateCurrentResultSet(List findings, List toBePopulated, Session session) {

        /*  1. Remove the first 500 objects and add it to a new HashSet */
        Set toBeSent = getConcreteTypedFindingSet();
        int size = findings.size();
        for (int index = 0; (index < size) && (index <= BATCH_OBJECT_INCREMENT); index++) {
            Object f = findings.remove(0);
            toBeSent.add(f);
        }

        /* 2. Add results to toBePopulated after making sure it is empty */
        do {
            synchronized (toBePopulated) {
                if (toBePopulated.size() == 0) {
                    toBePopulated.add(toBeSent);
                    session.clear();
                    break;
                }
            }
            try {
                Thread.currentThread().sleep(10);
            } catch (InterruptedException e) {
                e.printStackTrace(); // no big deal
            }
        } while (true);
    }

    final protected void process(List toBePopulated, Set toBeSent, Session session) {
        /*  Add results to toBePopulated after making sure it is empty */
        while (true) {
            synchronized (toBePopulated) {
                if (toBePopulated.size() == 0) {
                    toBePopulated.add(toBeSent);
                    session.clear();
                    break;
                }
            }
            try {
                Thread.currentThread().sleep(10);
            } catch (InterruptedException e) {
                e.printStackTrace(); // no big deal
            }
        }
        return;
    }

}