/**
 * --------------------------------------------------------------------------
 *                   OpenMS -- Open-Source Mass Spectrometry
 * --------------------------------------------------------------------------
 * Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
 * ETH Zurich, and Freie Universitaet Berlin 2002-2013.
 * 
 * This software is released under a three-clause BSD license:
 *  * Redistributions of source code must retain the above copyright
 *    notice, this list of conditions and the following disclaimer.
 *  * Redistributions in binary form must reproduce the above copyright
 *    notice, this list of conditions and the following disclaimer in the
 *    documentation and/or other materials provided with the distribution.
 *  * Neither the name of any author or any participating institution
 *    may be used to endorse or promote products derived from this software
 *    without specific prior written permission.
 * For a full list of authors, refer to the file AUTHORS.
 * --------------------------------------------------------------------------
 * 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 ANY OF THE AUTHORS OR THE CONTRIBUTING
 * INSTITUTIONS 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 de.openms.knime.idTextReader;

import java.io.File;
import java.io.IOException;
import java.net.URI;
import java.util.List;

import org.knime.core.data.DataTableSpec;
import org.knime.core.data.uri.IURIPortObject;
import org.knime.core.data.uri.URIContent;
import org.knime.core.node.BufferedDataTable;
import org.knime.core.node.CanceledExecutionException;
import org.knime.core.node.ExecutionContext;
import org.knime.core.node.ExecutionMonitor;
import org.knime.core.node.InvalidSettingsException;
import org.knime.core.node.NodeLogger;
import org.knime.core.node.NodeModel;
import org.knime.core.node.NodeSettingsRO;
import org.knime.core.node.NodeSettingsWO;
import org.knime.core.node.port.PortObject;
import org.knime.core.node.port.PortObjectSpec;
import org.knime.core.node.port.PortType;

import de.openms.knime.TextExporterParser;

/**
 * This is the model implementation of IDTextReader.
 * 
 * 
 * @author Stephan Aiche and the OpenMS Team
 */
public class IDTextReaderNodeModel extends NodeModel {

    // the logger instance
    private static final NodeLogger logger = NodeLogger
            .getLogger(IDTextReaderNodeModel.class);

    /**
     * Constructor for the node model.
     */
    protected IDTextReaderNodeModel() {
        super(new PortType[] { new PortType(IURIPortObject.class) },
                new PortType[] { new PortType(BufferedDataTable.class) });
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected BufferedDataTable[] execute(final PortObject[] inObjects,
            final ExecutionContext exec) throws Exception {

        IURIPortObject obj = (IURIPortObject) inObjects[0];
        List<URIContent> uris = obj.getURIContents();
        if (uris.size() == 0) {
            throw new Exception(
                    "No URI was supplied in URIPortObject at input port 0");
        } else if (uris.size() != 1) {
            throw new Exception(String.format(
                    "We can only demangle a single file but got %d.",
                    uris.size()));
        }

        URI relURI = uris.get(0).getURI();
        File cXMLFile = new File(relURI);

        TextExporterParser parser = new TextExporterParser("PEPTIDE");
        BufferedDataTable out = parser.parseFile(cXMLFile, exec);

        return new BufferedDataTable[] { out };
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected void reset() {
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected DataTableSpec[] configure(final PortObjectSpec[] inSpecs)
            throws InvalidSettingsException {
        return new DataTableSpec[] { null };
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected void saveSettingsTo(final NodeSettingsWO settings) {
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected void loadValidatedSettingsFrom(final NodeSettingsRO settings)
            throws InvalidSettingsException {
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected void validateSettings(final NodeSettingsRO settings)
            throws InvalidSettingsException {
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected void loadInternals(final File internDir,
            final ExecutionMonitor exec) throws IOException,
            CanceledExecutionException {
    }

    /**
     * {@inheritDoc}
     */
    @Override
    protected void saveInternals(final File internDir,
            final ExecutionMonitor exec) throws IOException,
            CanceledExecutionException {
    }
}