/*
* ------------------------------------------------------------------------
*
* 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 javax.swing.event.ChangeEvent;
import javax.swing.event.ChangeListener;
import org.knime.core.node.ExecutionContext;
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.SettingsModelString;
import org.knime.knip.base.data.img.ImgPlusCell;
import org.knime.knip.base.data.img.ImgPlusValue;
import org.knime.knip.base.node.IterableIntervalsNodeDialog;
import org.knime.knip.base.node.IterableIntervalsNodeFactory;
import org.knime.knip.base.node.IterableIntervalsNodeModel;
import org.knime.knip.core.algorithm.types.ThresholdingType;
import org.knime.knip.core.ops.interval.AutoThreshold;
import org.knime.knip.core.util.EnumUtils;
import net.imagej.ImgPlus;
import net.imglib2.IterableInterval;
import net.imglib2.ops.img.UnaryRelationAssigment;
import net.imglib2.ops.operation.UnaryOperation;
import net.imglib2.ops.relation.real.unary.RealGreaterThanConstant;
import net.imglib2.type.logic.BitType;
import net.imglib2.type.numeric.RealType;
/**
* New global thresholder which supports ROI calculation
*
* @author <a href="mailto:dietzc85@googlemail.com">Christian Dietz</a>
* @author <a href="mailto:horn_martin@gmx.de">Martin Horn</a>
* @author <a href="mailto:michael.zinsmaier@googlemail.com">Michael Zinsmaier</a>
* @param <T>
* @param <L>
*/
public class ThresholderNodeFactory3<T extends RealType<T>, L extends Comparable<L>>
extends IterableIntervalsNodeFactory<T, BitType, L> {
private static SettingsModelDouble createManualThresholdModel() {
return new SettingsModelDouble("manual_threshold", 0);
}
private static SettingsModelString createThresholderSelectionModel() {
return new SettingsModelString("thresholder", ThresholdingType.MANUAL.name());
}
/**
* {@inheritDoc}
*/
@Override
protected IterableIntervalsNodeDialog<T> createNodeDialog() {
return new IterableIntervalsNodeDialog<T>(true) {
private boolean activeDimSelection;
@Override
public void addDialogComponents() {
final SettingsModelDouble settModManual = createManualThresholdModel();
addDialogComponent("Options", "Manual Threshold",
new DialogComponentNumber(settModManual, "Threshold Value", .01));
final SettingsModelString method = createThresholderSelectionModel();
addDialogComponent("Options", "Thresholding Method", new DialogComponentStringSelection(method,
"Method", EnumUtils.getStringListFromToString(ThresholdingType.values())));
method.addChangeListener(new ChangeListener() {
@Override
public void stateChanged(final ChangeEvent arg0) {
final String selectedMethod = method.getStringValue();
if (EnumUtils.valueForName(selectedMethod,
ThresholdingType.values()) == ThresholdingType.MANUAL) {
settModManual.setEnabled(true);
activeDimSelection = false;
} else {
activeDimSelection = true;
settModManual.setEnabled(false);
}
m_dimSelectionModel.setEnabled(activeDimSelection);
}
});
}
/**
* {@inheritDoc}
*/
@Override
protected boolean forceActiveDimensionSelection() {
return activeDimSelection;
}
/**
* {@inheritDoc}
*/
@Override
protected String getDefaultSuffixForAppend() {
return "_ts";
}
};
}
/**
* {@inheritDoc}
*/
@Override
public IterableIntervalsNodeModel<T, BitType, L> createNodeModel() {
return new IterableIntervalsNodeModel<T, BitType, L>() {
/*
* The value of the manual threshold
*/
private final SettingsModelDouble m_manualThreshold = createManualThresholdModel();
/*
* The selected thresholder
*/
private final SettingsModelString m_thresholderSettings = createThresholderSelectionModel();
// the selected thresholder
private ThresholdingType m_thresholder;
// the element of the current iteration
private T m_currentElement;
/**
* {@inheritDoc}
*/
@Override
protected void prepareExecute(final ExecutionContext exec) {
super.prepareExecute(exec);
m_thresholder =
EnumUtils.valueForName(m_thresholderSettings.getStringValue(), ThresholdingType.values());
}
@Override
public void prepareOperation(final T element) {
m_currentElement = element;
}
/**
* {@inheritDoc}
*/
@SuppressWarnings("unchecked")
@Override
protected ImgPlusCell<BitType> compute(final ImgPlusValue<T> cellValue) throws Exception {
final ImgPlus<T> fromCell = cellValue.getImgPlus();
if (fromCell.firstElement() instanceof BitType) {
super.setWarningMessage("Image of type 'BitType' remain untouched.");
return m_cellFactory.createCell((ImgPlus<BitType>)fromCell);
}
return super.compute(cellValue);
}
@Override
public UnaryOperation<IterableInterval<T>, IterableInterval<BitType>> operation() {
if (m_thresholder == ThresholdingType.MANUAL) {
final T type = m_currentElement.createVariable();
type.setReal(Math.max(Math.min(m_manualThreshold.getDoubleValue(), type.getMaxValue()),
type.getMinValue()));
return new UnaryRelationAssigment<T>(new RealGreaterThanConstant<T>(type));
} else {
return new AutoThreshold<T>(m_thresholder);
}
}
@Override
protected void addSettingsModels(final List<SettingsModel> settingsModels) {
m_manualThreshold.setEnabled(true);
m_dimSelectionModel.setEnabled(false);
settingsModels.add(m_manualThreshold);
settingsModels.add(m_thresholderSettings);
}
@Override
protected BitType getOutType(final T inType) {
return new BitType();
}
/**
* {@inheritDoc}
*/
@Override
protected void postExecute() {
m_currentElement = null;
}
};
}
}