test.eurocarbdb.dataaccess.core.ReferenceTest.java Source code

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Here is the source code for test.eurocarbdb.dataaccess.core.ReferenceTest.java

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/*
*   EuroCarbDB, a framework for carbohydrate bioinformatics
*
*   Copyright (c) 2006-2009, Eurocarb project, or third-party contributors as
*   indicated by the @author tags or express copyright attribution
*   statements applied by the authors.  
*
*   This copyrighted material is made available to anyone wishing to use, modify,
*   copy, or redistribute it subject to the terms and conditions of the GNU
*   Lesser General Public License, as published by the Free Software Foundation.
*   A copy of this license accompanies this distribution in the file LICENSE.txt.
*
*   This program 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 Lesser General Public License
*   for more details.
*
*   Last commit: $Rev: 1278 $ by $Author: glycoslave $ on $Date:: 2009-06-27 #$  
*/

package test.eurocarbdb.dataaccess.core;

import java.util.*;

import org.testng.annotations.*;
// import org.testng.SkipException;

import org.hibernate.Criteria;
import org.hibernate.criterion.Restrictions;

import org.eurocarbdb.dataaccess.Eurocarb;
import org.eurocarbdb.dataaccess.EntityManager;
import org.eurocarbdb.dataaccess.core.*;

import test.eurocarbdb.dataaccess.CoreApplicationTest;

import static org.eurocarbdb.dataaccess.Eurocarb.getEntityManager;

/**
*   Tests {@link Reference}.
*   
*   @author mjh
*   @version $Rev: 1278 $
*/
@Test(groups = { "ecdb.db.core.reference" })
public class ReferenceTest extends CoreApplicationTest {
    // private Reference gs1;

    @Test
    public void coreReferenceDataExists() {
        super.setup();
        int i = getEntityManager().countAll(Reference.class);
        System.out.println("total references in data store = " + i);
        // if ( i == 0 )
        //     throw new SkipException();

        super.teardown();
    }

    @Test(dependsOnMethods = { "coreReferenceDataExists" })
    public void coreReferenceSequenceAssociations() throws Exception {
        super.setup();

        Criteria q = getEntityManager().createQuery(Reference.class)
                .add(Restrictions.sizeGt("glycanSequenceReferences", 0)).setMaxResults(20);

        List<Reference> refs = (List<Reference>) q.list();

        // if ( refs == null || refs.size() == 0 ) 
        //     throw new SkipException();

        for (Reference r : refs) {
            System.out.println("reference: " + r);

            assert r.getGlycanSequenceReferences() != null;
            assert r.getGlycanSequenceReferences().size() > 0;

            System.out.println("glycanSequenceReferences:");
            for (GlycanSequenceReference gsr : r.getGlycanSequenceReferences()) {
                System.out.println(" -> " + gsr);
            }

            System.out.println();
        }

        super.teardown();
    }

    @Test(dependsOnMethods = { "coreReferenceDataExists" })
    public void coreReferenceEvidenceAssociations() throws Exception {
        super.setup();

        Criteria q = getEntityManager().createQuery(Reference.class)
                .add(Restrictions.sizeGt("referencedEvidence", 0)).setMaxResults(20);

        List<Reference> refs = (List<Reference>) q.list();

        // if ( refs == null || refs.size() == 0 ) 
        //     throw new SkipException();

        for (Reference r : refs) {
            System.out.println("reference: " + r);

            assert r.getReferencedEvidence() != null;
            assert r.getReferencedEvidence().size() > 0;

            System.out.println("referencedEvidence:");
            for (ReferencedEvidence re : r.getReferencedEvidence()) {
                System.out.println(" -> " + re);
            }

            System.out.println();
        }

        super.teardown();
    }

} // end class