au.com.nicta.ct.experiment.coordinates.CtAxesModel.java Source code

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Here is the source code for au.com.nicta.ct.experiment.coordinates.CtAxesModel.java

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// ====================================================================================================================
// Copyright (c) 2013, National ICT Australia Ltd and The Walter and Eliza Hall Institute of Medical Research.
// All rights reserved.
//
// This software and source code is made available under a GPL v2 licence.
// The terms of the licence can be read here: http://www.gnu.org/licenses/gpl-2.0.txt
//
// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES,
// INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
// DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
// SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
// SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
// WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
// OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
// ====================================================================================================================

package au.com.nicta.ct.experiment.coordinates;

import au.com.nicta.ct.db.CtSession;
import au.com.nicta.ct.db.hibernate.CtCoordinates;
import au.com.nicta.ct.db.hibernate.CtCoordinatesTypes;
import au.com.nicta.ct.db.hibernate.CtExperiments;
import au.com.nicta.ct.db.hibernate.CtExperimentsAxes;
import java.util.ArrayList;
import java.util.Collection;
import java.util.Iterator;
import java.util.List;
import org.hibernate.Query;
import org.hibernate.Session;

/**
 * say I have channels, time, and position.
 * A sequence is holding all axes fixed and varying one.
 *
 * experiment has a number of axes.
 * Any axis can be changed, but only one axis is a range.
 * 
 * @author davidjr
 */
public class CtAxesModel {

    protected CtExperiments _e;
    protected ArrayList<CtExperimentsAxes> _axes = new ArrayList<CtExperimentsAxes>();
    //    protected CtExperimentsAxes _range; // this axis is represented as a range

    public CtAxesModel() {

    }

    public CtExperimentsAxes find(CtCoordinatesTypes ct) {
        for (CtExperimentsAxes ea : _axes) {
            CtCoordinates c1 = ea.getCtCoordinatesByFkCoordinate1();
            CtCoordinatesTypes ct1 = c1.getCtCoordinatesTypes();

            if (ct.getPkCoordinateType() == ct1.getPkCoordinateType()) {
                return ea;
            }
        }

        return null;
    }

    public CtExperimentsAxes find(String coordinateType) {
        for (CtExperimentsAxes ea : _axes) {
            CtCoordinates c1 = ea.getCtCoordinatesByFkCoordinate1();
            CtCoordinatesTypes ct1 = c1.getCtCoordinatesTypes();

            String name = ct1.getName();

            if (name.equals(coordinateType)) {
                return ea;
            }
        }

        return null;
    }

    public void create(CtExperiments e) {
        _e = e;
        String query = " from CtExperimentsAxes where ctExperiments =" + e.getPkExperiment();
        createAxes(query);
    }

    protected String createQuery() {
        if (_e == null)
            return null;
        String query = " from CtExperimentsAxes where ctExperiments =" + _e.getPkExperiment();
        return query;
    }

    //
    //    public void createWith( int pkExperiment ) {
    //        String query = " from CtExperimentsAxes where ctExperiments ="+pkExperiment;
    //        create( e, query );
    //    }

    public void createAxes(String query) {

        if (query == null) {
            return;
        }

        Session s = CtSession.Current();
        s.beginTransaction();

        Query q = s.createQuery(query);

        List results = q.list();

        createAxes(results);

        s.getTransaction().commit();
    }

    public CtExperiments experiment() {
        return _e;
    }

    public void clear() {
        _e = null;
        _axes.clear();
        //        _range = null;
    }

    protected void createAxes(List queryResults) {
        //        clear();
        _axes.clear();

        if (queryResults.isEmpty()) {
            return;
        }

        Iterator i = queryResults.iterator();

        while (i.hasNext()) {

            CtExperimentsAxes ea = (CtExperimentsAxes) i.next();

            _axes.add(ea);
        }
    }

    public Collection<CtExperimentsAxes> axes() {
        return _axes;
    }

    public Collection<String> axesCoordinatesTypes() {
        ArrayList<String> al = new ArrayList<String>();

        for (CtExperimentsAxes ea : _axes) {

            String coordinateType = ea.getCtCoordinatesByFkCoordinate1().getCtCoordinatesTypes().getName();

            al.add(coordinateType);
        }

        return al;
    }
    //    public CtExperimentsAxes range() {
    //        return _range;
    //    }
}