/*
* ------------------------------------------------------------------------
*
* Copyright (C) 2003 - 2013
* University of Konstanz, Germany and
* KNIME GmbH, Konstanz, Germany
* Website: http://www.knime.org; Email: contact@knime.org
*
* This program is free software; you can redistribute it and/or modify
* it under the terms of the GNU General Public License, Version 3, as
* published by the Free Software Foundation.
*
* 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 General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with this program; if not, see <http://www.gnu.org/licenses>.
*
* Additional permission under GNU GPL version 3 section 7:
*
* KNIME interoperates with ECLIPSE solely via ECLIPSE's plug-in APIs.
* Hence, KNIME and ECLIPSE are both independent programs and are not
* derived from each other. Should, however, the interpretation of the
* GNU GPL Version 3 ("License") under any applicable laws result in
* KNIME and ECLIPSE being a combined program, KNIME GMBH herewith grants
* you the additional permission to use and propagate KNIME together with
* ECLIPSE with only the license terms in place for ECLIPSE applying to
* ECLIPSE and the GNU GPL Version 3 applying for KNIME, provided the
* license terms of ECLIPSE themselves allow for the respective use and
* propagation of ECLIPSE together with KNIME.
*
* Additional permission relating to nodes for KNIME that extend the Node
* Extension (and in particular that are based on subclasses of NodeModel,
* NodeDialog, and NodeView) and that only interoperate with KNIME through
* standard APIs ("Nodes"):
* Nodes are deemed to be separate and independent programs and to not be
* covered works. Notwithstanding anything to the contrary in the
* License, the License does not apply to Nodes, you are not required to
* license Nodes under the License, and you are granted a license to
* prepare and propagate Nodes, in each case even if such Nodes are
* propagated with or for interoperation with KNIME. The owner of a Node
* may freely choose the license terms applicable to such Node, including
* when such Node is propagated with or for interoperation with KNIME.
* --------------------------------------------------------------------- *
*
*/
package org.knime.knip.base.nodes.proc;
import java.util.List;
import org.knime.core.node.defaultnodesettings.DialogComponentNumber;
import org.knime.core.node.defaultnodesettings.DialogComponentStringSelection;
import org.knime.core.node.defaultnodesettings.SettingsModel;
import org.knime.core.node.defaultnodesettings.SettingsModelDouble;
import org.knime.core.node.defaultnodesettings.SettingsModelDoubleBounded;
import org.knime.core.node.defaultnodesettings.SettingsModelString;
import org.knime.knip.base.node.ImgPlusToImgPlusNodeDialog;
import org.knime.knip.base.node.ImgPlusToImgPlusNodeFactory;
import org.knime.knip.base.node.ImgPlusToImgPlusNodeModel;
import org.knime.knip.core.util.ImgPlusFactory;
import net.imagej.ImgPlus;
import net.imglib2.IterableInterval;
import net.imglib2.RandomAccessibleInterval;
import net.imglib2.exception.IncompatibleTypeException;
import net.imglib2.img.Img;
import net.imglib2.img.ImgFactory;
import net.imglib2.img.ImgView;
import net.imglib2.ops.img.UnaryObjectFactory;
import net.imglib2.ops.operation.UnaryOutputOperation;
import net.imglib2.ops.operation.randomaccessibleinterval.unary.HDomeTransformation;
import net.imglib2.ops.types.ConnectedType;
import net.imglib2.type.NativeType;
import net.imglib2.type.numeric.RealType;
/**
* HDomeNodeFactory
*
* @param <T>
* @param <TMP>
*
* @author <a href="mailto:dietzc85@googlemail.com">Christian Dietz</a>
* @author <a href="mailto:horn_martin@gmx.de">Martin Horn</a>
* @author muethingc, Univeristy of Konstanz
*
*/
public class HDomeNodeFactory<T extends RealType<T> & NativeType<T>, TMP extends IterableInterval<T> & RandomAccessibleInterval<T>>
extends ImgPlusToImgPlusNodeFactory<T, T> {
private static SettingsModelString createConnectionTypeModel() {
return new SettingsModelString("connection_type", ConnectedType.FOUR_CONNECTED.toString());
}
private static SettingsModelDouble createHeightModel() {
return new SettingsModelDoubleBounded("height_dome", 1, 0, Double.MAX_VALUE);
}
private static SettingsModelDouble createSubtractModel() {
return new SettingsModelDoubleBounded("height_subtraction", 0, 0, Double.MAX_VALUE);
}
/**
* {@inheritDoc}
*/
@Override
protected ImgPlusToImgPlusNodeDialog<T> createNodeDialog() {
return new ImgPlusToImgPlusNodeDialog<T>(2, Integer.MAX_VALUE, "X", "Y") {
@Override
public void addDialogComponents() {
addDialogComponent("Options", "Regional Maxima Options", new DialogComponentStringSelection(
createConnectionTypeModel(), "Connection Type", ConnectedType.NAMES));
addDialogComponent("Options", "Regional Maxima Options", new DialogComponentNumber(
createSubtractModel(), "Subtract Domes of Height Before Extraction", 1));
addDialogComponent("Options", "Regional Maxima Options",
new DialogComponentNumber(createHeightModel(), "Height of Domes", 1));
}
/**
* {@inheritDoc}
*/
@Override
protected String getDefaultSuffixForAppend() {
return "_hd";
}
};
}
/**
* {@inheritDoc}
*/
@Override
public ImgPlusToImgPlusNodeModel<T, T> createNodeModel() {
return new ImgPlusToImgPlusNodeModel<T, T>("X", "Y") {
final class HDomOp implements UnaryOutputOperation<ImgPlus<T>, ImgPlus<T>> {
private final T m_type;
public HDomOp(final T type) {
m_type = type;
}
@Override
public UnaryObjectFactory<ImgPlus<T>, ImgPlus<T>> bufferFactory() {
return ImgPlusFactory.<T, T> get(m_type);
}
@Override
public ImgPlus<T> compute(final ImgPlus<T> input, final ImgPlus<T> output) {
HDomeTransformation<T> hDomeTransformation = new HDomeTransformation<T>(
ConnectedType.value(m_connection.getStringValue()), m_height.getDoubleValue(),
m_subtract.getDoubleValue(), wrappedFactory(input.factory()));
// we really want to have the same buffer, that's why we
hDomeTransformation.compute(new ImgView<T>(input, wrappedFactory(input.factory())),
new ImgView<T>(output, wrappedFactory(output.factory())));
return output;
}
/**
* @param factory
* @return
*/
private ImgFactory<T> wrappedFactory(final ImgFactory<T> factory) {
return new ImgFactory<T>() {
@Override
public Img<T> create(final long[] dim, final T type) {
return new ImgView<T>(factory.create(dim, type), this);
}
@Override
public <S> ImgFactory<S> imgFactory(final S type) throws IncompatibleTypeException {
throw new UnsupportedOperationException("not supported by wrapped factory");
}
};
}
@Override
public UnaryOutputOperation<ImgPlus<T>, ImgPlus<T>> copy() {
return new HDomOp(m_type);
}
}
private final SettingsModelString m_connection = createConnectionTypeModel();
private final SettingsModelDouble m_height = createHeightModel();
private final SettingsModelDouble m_subtract = createSubtractModel();
@Override
protected void addSettingsModels(final List<SettingsModel> settingsModels) {
settingsModels.add(m_height);
settingsModels.add(m_connection);
settingsModels.add(m_subtract);
}
@Override
protected UnaryOutputOperation<ImgPlus<T>, ImgPlus<T>> op(final ImgPlus<T> imgPlus) {
return new HDomOp(imgPlus.firstElement().createVariable());
}
@Override
protected int getMinDimensions() {
return 2;
}
};
}
}