Author: ruschein
Date: 2010-08-05 08:55:37 -0700 (Thu, 05 Aug 2010)
New Revision: 21217
Added:
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/common/SliderTracker.java
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScalingDirectionTracker.java
Modified:
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/common/CheckBoxTracker.java
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/rotate/RotatePanel.java
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScaleLayouter.java
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScalePanel.java
Log:
Now we allow scaling along the x- and y-axes separately.
Modified:
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/common/CheckBoxTracker.java
===================================================================
---
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/common/CheckBoxTracker.java
2010-08-05 15:54:00 UTC (rev 21216)
+++
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/common/CheckBoxTracker.java
2010-08-05 15:55:37 UTC (rev 21217)
@@ -1,14 +1,6 @@
-
/*
- Copyright (c) 2006, 2007, The Cytoscape Consortium (www.cytoscape.org)
+ Copyright (c) 2006, 2007, 2010, The Cytoscape Consortium (www.cytoscape.org)
- The Cytoscape Consortium is:
- - Institute for Systems Biology
- - University of California San Diego
- - Memorial Sloan-Kettering Cancer Center
- - Institut Pasteur
- - Agilent Technologies
-
This library is free software; you can redistribute it and/or modify it
under the terms of the GNU Lesser General Public License as published
by the Free Software Foundation; either version 2.1 of the License, or
@@ -33,9 +25,9 @@
along with this library; if not, write to the Free Software Foundation,
Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
*/
-
package ManualLayout.common;
+
import ManualLayout.rotate.RotatePanel;
import ManualLayout.rotate.RotationLayouter;
@@ -78,14 +70,10 @@
import javax.swing.event.ChangeListener;
-/**
- *
- */
public class CheckBoxTracker implements SelectEventListener,
PropertyChangeListener {
+ private JCheckBox jCheckBox;
+ private Set<String> listeningNetworks;
- JCheckBox jCheckBox;
- Set<String> listeningNetworks;
-
public CheckBoxTracker(JCheckBox j) {
jCheckBox = j;
listeningNetworks = new HashSet<String>();
@@ -94,12 +82,7 @@
}
public void onSelectEvent(SelectEvent event) {
- if
(Cytoscape.getCurrentNetworkView().getSelectedNodeIndices().length == 0) {
- jCheckBox.setEnabled(false);
- } else {
- jCheckBox.setEnabled(true);
- jCheckBox.setSelected(false);
- }
+
jCheckBox.setSelected(Cytoscape.getCurrentNetworkView().getSelectedNodeIndices().length
> 0);
}
public void propertyChange(PropertyChangeEvent e) {
Added:
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/common/SliderTracker.java
===================================================================
---
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/common/SliderTracker.java
(rev 0)
+++
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/common/SliderTracker.java
2010-08-05 15:55:37 UTC (rev 21217)
@@ -0,0 +1,68 @@
+/*
+ Copyright (c) 2010, The Cytoscape Consortium (www.cytoscape.org)
+
+ This library is free software; you can redistribute it and/or modify it
+ under the terms of the GNU Lesser General Public License as published
+ by the Free Software Foundation; either version 2.1 of the License, or
+ any later version.
+
+ This library 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. The software and
+ documentation provided hereunder is on an "as is" basis, and the
+ Institute for Systems Biology and the Whitehead Institute
+ have no obligations to provide maintenance, support,
+ updates, enhancements or modifications. In no event shall the
+ Institute for Systems Biology and the Whitehead Institute
+ be liable to any party for direct, indirect, special,
+ incidental or consequential damages, including lost profits, arising
+ out of the use of this software and its documentation, even if the
+ Institute for Systems Biology and the Whitehead Institute
+ have been advised of the possibility of such damage. See
+ the GNU Lesser General Public License for more details.
+
+ You should have received a copy of the GNU Lesser General Public License
+ along with this library; if not, write to the Free Software Foundation,
+ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
+*/
+package ManualLayout.common;
+
+
+import cytoscape.Cytoscape;
+import cytoscape.CyNetwork;
+import cytoscape.data.SelectEvent;
+import cytoscape.data.SelectEventListener;
+import cytoscape.view.CytoscapeDesktop;
+
+import java.beans.PropertyChangeEvent;
+import java.beans.PropertyChangeListener;
+
+import javax.swing.JCheckBox;
+import javax.swing.JPanel;
+import javax.swing.JSlider;
+
+
+public class SliderTracker implements SelectEventListener,
PropertyChangeListener {
+ private final JSlider slider;
+ private final JCheckBox controllingCheckBox;
+
+ public SliderTracker(final JSlider slider, final JCheckBox
controllingCheckBox) {
+ this.slider = slider;
+ this.controllingCheckBox = controllingCheckBox;
+
+
Cytoscape.getDesktop().getNetworkViewManager().getSwingPropertyChangeSupport()
+
.addPropertyChangeListener(CytoscapeDesktop.NETWORK_VIEW_FOCUSED, this);
+ }
+
+ public void onSelectEvent(final SelectEvent event) {
+ final boolean currentNetworkHasSelectedNodes =
+
Cytoscape.getCurrentNetworkView().getSelectedNodeIndices().length > 0;
+
+ slider.setEnabled(!controllingCheckBox.isSelected() ||
currentNetworkHasSelectedNodes);
+ }
+
+ public void propertyChange(final PropertyChangeEvent e) {
+ if (e.getPropertyName() ==
CytoscapeDesktop.NETWORK_VIEW_FOCUSED)
+
Cytoscape.getCurrentNetwork().addSelectEventListener(this);
+ }
+}
Modified:
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/rotate/RotatePanel.java
===================================================================
---
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/rotate/RotatePanel.java
2010-08-05 15:54:00 UTC (rev 21216)
+++
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/rotate/RotatePanel.java
2010-08-05 15:55:37 UTC (rev 21217)
@@ -1,14 +1,6 @@
-
/*
- Copyright (c) 2006, 2007, The Cytoscape Consortium (www.cytoscape.org)
+ Copyright (c) 2006, 2007, 2010, The Cytoscape Consortium (www.cytoscape.org)
- The Cytoscape Consortium is:
- - Institute for Systems Biology
- - University of California San Diego
- - Memorial Sloan-Kettering Cancer Center
- - Institut Pasteur
- - Agilent Technologies
-
This library is free software; you can redistribute it and/or modify it
under the terms of the GNU Lesser General Public License as published
by the Free Software Foundation; either version 2.1 of the License, or
@@ -33,7 +25,6 @@
along with this library; if not, write to the Free Software Foundation,
Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
*/
-
package ManualLayout.rotate;
import cytoscape.Cytoscape;
@@ -58,25 +49,20 @@
import cytoscape.graph.layout.algorithm.MutablePolyEdgeGraphLayout;
+
/**
- *
* GUI for rotation of manualLayout
*
* Rewrite based on the class RotateAction 9/13/2006
Peng-Liang Wang
- *
*/
public class RotatePanel extends JPanel implements ChangeListener,
PolymorphicSlider {
+ private JCheckBox jCheckBox;
+ private JSlider jSlider;
+ private int prevValue;
- JCheckBox jCheckBox;
- JSlider jSlider;
- int prevValue;
+ private boolean startAdjusting = true;
+ private ViewChangeEdit currentEdit = null;
- boolean startAdjusting = true;
- ViewChangeEdit currentEdit = null;
-
- /**
- * Creates a new RotatePanel object.
- */
public RotatePanel() {
// set up the user interface
JLabel jLabel = new JLabel();
@@ -95,8 +81,7 @@
prevValue = jSlider.getValue();
- jCheckBox = new JCheckBox();
- jCheckBox.setText("Rotate Selected Nodes Only");
+ jCheckBox = new JCheckBox("Rotate Selected Nodes Only", /*
selected = */true);
new CheckBoxTracker( jCheckBox );
@@ -121,9 +106,9 @@
new SliderStateTracker(this);
- setMinimumSize(new Dimension(100,1000));
- setPreferredSize(new Dimension(100,1000));
- setMaximumSize(new Dimension(100,1000));
+ setMinimumSize(new Dimension(100,1200));
+ setPreferredSize(new Dimension(100,1200));
+ setMaximumSize(new Dimension(100,1200));
}
public void updateSlider(int x) {
Modified:
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScaleLayouter.java
===================================================================
---
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScaleLayouter.java
2010-08-05 15:54:00 UTC (rev 21216)
+++
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScaleLayouter.java
2010-08-05 15:55:37 UTC (rev 21217)
@@ -1,6 +1,33 @@
-//package cytoscape.graph.layout.impl;
+/*
+ Copyright (c) 2006, 2007, 2010, The Cytoscape Consortium (www.cytoscape.org)
+
+ This library is free software; you can redistribute it and/or modify it
+ under the terms of the GNU Lesser General Public License as published
+ by the Free Software Foundation; either version 2.1 of the License, or
+ any later version.
+
+ This library 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. The software and
+ documentation provided hereunder is on an "as is" basis, and the
+ Institute for Systems Biology and the Whitehead Institute
+ have no obligations to provide maintenance, support,
+ updates, enhancements or modifications. In no event shall the
+ Institute for Systems Biology and the Whitehead Institute
+ be liable to any party for direct, indirect, special,
+ incidental or consequential damages, including lost profits, arising
+ out of the use of this software and its documentation, even if the
+ Institute for Systems Biology and the Whitehead Institute
+ have been advised of the possibility of such damage. See
+ the GNU Lesser General Public License for more details.
+
+ You should have received a copy of the GNU Lesser General Public License
+ along with this library; if not, write to the Free Software Foundation,
+ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
+*/
package ManualLayout.scale;
+
import com.nerius.math.xform.AffineTransform3D;
import com.nerius.math.xform.Scale3D;
import com.nerius.math.xform.Translation3D;
@@ -10,10 +37,13 @@
import cytoscape.util.intr.IntEnumerator;
-/**
- *
- */
public final class ScaleLayouter {
+ public enum Direction {
+ X_AXIS_ONLY,
+ Y_AXIS_ONLY,
+ BOTH_AXES
+ };
+
private final MutablePolyEdgeGraphLayout m_graph;
private final Translation3D m_translationToOrig;
private final Translation3D m_translationFromOrig;
@@ -66,8 +96,7 @@
yMax = Math.max(yMax, nodeYPosition);
}
- if (xMax < 0) // Nothing is movable.
- {
+ if (xMax < 0) { // Nothing is movable.
m_translationToOrig = null;
m_translationFromOrig = null;
} else {
@@ -86,17 +115,28 @@
* @exception IllegalArgumentException if
* scaleFactor < 0.001 or if scaleFactor > 1000.0.
**/
- public void scaleGraph(double scaleFactor) {
+ public void scaleGraph(double scaleFactor, final Direction direction) {
if ((scaleFactor < 0.001d) || (scaleFactor > 1000.0d))
throw new IllegalArgumentException("scaleFactor is
outside allowable range [0.001, 1000.0]");
if (m_translationToOrig == null)
return;
- final AffineTransform3D xform =
m_translationToOrig.concatenatePost((new Scale3D(scaleFactor,
-
scaleFactor,
-
1.0d))
-
.concatenatePost(m_translationFromOrig));
+ double xFactor = scaleFactor, yFactor = scaleFactor;
+ switch (direction) {
+ case X_AXIS_ONLY:
+ yFactor = 1.0;
+ break;
+ case Y_AXIS_ONLY:
+ xFactor = 1.0;
+ break;
+ case BOTH_AXES:
+ /* Intentionally empty! */
+ break;
+ }
+
+ final AffineTransform3D xform =
m_translationToOrig.concatenatePost(
+ (new Scale3D(xFactor, yFactor,
1.0d)).concatenatePost(m_translationFromOrig));
IntEnumerator nodes = m_graph.nodes();
while (nodes.numRemaining() > 0) {
Modified:
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScalePanel.java
===================================================================
---
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScalePanel.java
2010-08-05 15:54:00 UTC (rev 21216)
+++
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScalePanel.java
2010-08-05 15:55:37 UTC (rev 21217)
@@ -1,14 +1,6 @@
-
/*
- Copyright (c) 2006, 2007, The Cytoscape Consortium (www.cytoscape.org)
+ Copyright (c) 2006, 2007, 2010, The Cytoscape Consortium (www.cytoscape.org)
- The Cytoscape Consortium is:
- - Institute for Systems Biology
- - University of California San Diego
- - Memorial Sloan-Kettering Cancer Center
- - Institut Pasteur
- - Agilent Technologies
-
This library is free software; you can redistribute it and/or modify it
under the terms of the GNU Lesser General Public License as published
by the Free Software Foundation; either version 2.1 of the License, or
@@ -33,15 +25,12 @@
along with this library; if not, write to the Free Software Foundation,
Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
*/
-
package ManualLayout.scale;
+
import ManualLayout.common.*;
import cytoscape.Cytoscape;
-
-//import cytoscape.util.CytoscapeAction;
-//import cytoscape.view.cytopanels.CytoPanelState;
import cytoscape.graph.layout.algorithm.MutablePolyEdgeGraphLayout;
import ding.view.DGraphView;
@@ -57,16 +46,12 @@
import java.util.Hashtable;
import javax.swing.AbstractAction;
-
+import javax.swing.ButtonGroup;
import javax.swing.JCheckBox;
-
-//import javax.swing.JMenu;
-import javax.swing.JDialog;
-
-//import javax.swing.JCheckBoxMenuItem;
import javax.swing.JButton;
import javax.swing.JLabel;
import javax.swing.JPanel;
+import javax.swing.JRadioButton;
import javax.swing.JSlider;
import javax.swing.WindowConstants;
import javax.swing.event.ChangeEvent;
@@ -81,19 +66,18 @@
*
*/
public class ScalePanel extends JPanel implements ChangeListener,
PolymorphicSlider {
+ private JCheckBox jCheckBox;
+ private JSlider jSlider;
+ private JRadioButton alongXAxisOnlyRadioButton;
+ private JRadioButton alongYAxisOnlyRadioButton;
+ private JRadioButton alongBothAxesRadioButton;
+ private ButtonGroup radioButtonGroup;
+ private int prevValue;
- JCheckBox jCheckBox;
- JSlider jSlider;
- int prevValue;
+ private boolean startAdjusting = true;
+ private ViewChangeEdit currentEdit = null;
- boolean startAdjusting = true;
- ViewChangeEdit currentEdit = null;
-
- /**
- * Creates a new ScalePanel object.
- */
public ScalePanel() {
- // setup interface
JLabel jLabel = new JLabel();
jLabel.setText("Scale:");
@@ -109,7 +93,6 @@
jSlider.addChangeListener(this);
-
prevValue = jSlider.getValue();
Hashtable<Integer,JLabel> labels = new
Hashtable<Integer,JLabel>();
@@ -123,11 +106,16 @@
jSlider.setLabelTable(labels);
- jCheckBox = new JCheckBox();
- jCheckBox.setText("Scale Selected Nodes Only");
-
+ jCheckBox = new JCheckBox("Scale Selected Nodes Only", /*
selected = */true);
new CheckBoxTracker( jCheckBox );
+ alongXAxisOnlyRadioButton = new JRadioButton("along x-axis
only");
+ alongYAxisOnlyRadioButton = new JRadioButton("along y-axis
only");
+ alongBothAxesRadioButton = new JRadioButton("along both axes",
/* selected = */true);
+ radioButtonGroup = new ButtonGroup();
+ radioButtonGroup.add(alongXAxisOnlyRadioButton);
+ radioButtonGroup.add(alongYAxisOnlyRadioButton);
+ radioButtonGroup.add(alongBothAxesRadioButton);
setLayout(new GridBagLayout());
@@ -164,9 +152,28 @@
new SliderStateTracker(this);
- setMinimumSize(new java.awt.Dimension(100,1000));
- setPreferredSize(new java.awt.Dimension(100,1000));
- setMaximumSize(new java.awt.Dimension(100,1000));
+ gbc.gridy = 4;
+ gbc.anchor = GridBagConstraints.WEST;
+ gbc.fill = GridBagConstraints.NONE;
+ gbc.insets = new Insets(20, 15, 0, 15);
+ add(alongXAxisOnlyRadioButton, gbc);
+
+ gbc.gridy = 5;
+ gbc.anchor = GridBagConstraints.WEST;
+ gbc.fill = GridBagConstraints.NONE;
+ gbc.insets = new Insets(0, 15, 0, 15);
+ add(alongYAxisOnlyRadioButton, gbc);
+
+ gbc.gridy = 6;
+ gbc.anchor = GridBagConstraints.WEST;
+ gbc.fill = GridBagConstraints.NONE;
+ gbc.insets = new Insets(0, 15, 0, 15);
+ add(alongBothAxesRadioButton, gbc);
+ /*
+ setMinimumSize(new java.awt.Dimension(100,2200));
+ setPreferredSize(new java.awt.Dimension(100,2200));
+ setMaximumSize(new java.awt.Dimension(100,2200));
+ */
}
public void updateSlider(int x) {
@@ -179,7 +186,7 @@
}
public void stateChanged(ChangeEvent e) {
- if ( e.getSource() != jSlider )
+ if (e.getSource() != jSlider)
return;
// only create the edit when we're beginning to adjust
@@ -199,12 +206,20 @@
double neededIncrementalScaleFactor =
currentAbsoluteScaleFactor / prevAbsoluteScaleFactor;
- scale.scaleGraph(neededIncrementalScaleFactor);
+ final ScaleLayouter.Direction direction;
+ if (alongXAxisOnlyRadioButton.isSelected())
+ direction = ScaleLayouter.Direction.X_AXIS_ONLY;
+ else if (alongYAxisOnlyRadioButton.isSelected())
+ direction = ScaleLayouter.Direction.Y_AXIS_ONLY;
+ else
+ direction = ScaleLayouter.Direction.BOTH_AXES;
+
+ scale.scaleGraph(neededIncrementalScaleFactor, direction);
Cytoscape.getCurrentNetworkView().updateView();
prevValue = jSlider.getValue();
// only post the edit when we're finished adjusting
- if ( !jSlider.getValueIsAdjusting() ) {
+ if (!jSlider.getValueIsAdjusting()) {
currentEdit.post();
startAdjusting = true;
}
Added:
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScalingDirectionTracker.java
===================================================================
---
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScalingDirectionTracker.java
(rev 0)
+++
coreplugins/trunk/ManualLayout/src/main/java/ManualLayout/scale/ScalingDirectionTracker.java
2010-08-05 15:55:37 UTC (rev 21217)
@@ -0,0 +1,95 @@
+/*
+ Copyright (c) 2010, The Cytoscape Consortium (www.cytoscape.org)
+
+ This library is free software; you can redistribute it and/or modify it
+ under the terms of the GNU Lesser General Public License as published
+ by the Free Software Foundation; either version 2.1 of the License, or
+ any later version.
+
+ This library 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. The software and
+ documentation provided hereunder is on an "as is" basis, and the
+ Institute for Systems Biology and the Whitehead Institute
+ have no obligations to provide maintenance, support,
+ updates, enhancements or modifications. In no event shall the
+ Institute for Systems Biology and the Whitehead Institute
+ be liable to any party for direct, indirect, special,
+ incidental or consequential damages, including lost profits, arising
+ out of the use of this software and its documentation, even if the
+ Institute for Systems Biology and the Whitehead Institute
+ have been advised of the possibility of such damage. See
+ the GNU Lesser General Public License for more details.
+
+ You should have received a copy of the GNU Lesser General Public License
+ along with this library; if not, write to the Free Software Foundation,
+ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA.
+*/
+package ManualLayout.scale;
+
+
+import cytoscape.Cytoscape;
+import cytoscape.CyNetwork;
+
+import cytoscape.data.SelectEvent;
+import cytoscape.data.SelectEventListener;
+
+import cytoscape.graph.layout.algorithm.MutablePolyEdgeGraphLayout;
+
+import cytoscape.util.CytoscapeAction;
+
+import cytoscape.view.CytoscapeDesktop;
+
+import cytoscape.view.cytopanels.BiModalJSplitPane;
+import cytoscape.view.cytopanels.CytoPanelImp;
+import cytoscape.view.cytopanels.CytoPanelListener;
+import cytoscape.view.cytopanels.CytoPanelState;
+
+import java.awt.Dimension;
+import java.awt.event.ActionEvent;
+
+import java.beans.PropertyChangeEvent;
+import java.beans.PropertyChangeListener;
+
+import java.util.HashSet;
+import java.util.Set;
+
+import javax.swing.JCheckBoxMenuItem;
+import javax.swing.JCheckBox;
+import javax.swing.JMenu;
+import javax.swing.JPanel;
+import javax.swing.JSplitPane;
+import javax.swing.SwingConstants;
+import javax.swing.event.ChangeEvent;
+import javax.swing.event.ChangeListener;
+
+
+public class ScalingDirectionTracker implements SelectEventListener,
PropertyChangeListener {
+ private JCheckBox jCheckBox;
+ private Set<String> listeningNetworks;
+
+ public ScalingDirectionTracker(JCheckBox j) {
+ jCheckBox = j;
+ listeningNetworks = new HashSet<String>();
+
Cytoscape.getDesktop().getNetworkViewManager().getSwingPropertyChangeSupport()
+
.addPropertyChangeListener(CytoscapeDesktop.NETWORK_VIEW_FOCUSED,this);
+ }
+
+ public void onSelectEvent(SelectEvent event) {
+
jCheckBox.setSelected(Cytoscape.getCurrentNetworkView().getSelectedNodeIndices().length
> 0);
+ }
+
+ public void propertyChange(PropertyChangeEvent e) {
+ if (e.getPropertyName() ==
CytoscapeDesktop.NETWORK_VIEW_FOCUSED) {
+ CyNetwork curr = Cytoscape.getCurrentNetwork();
+ String nid = curr.getIdentifier();
+
+ // only add this as a listener if it hasn't been done
already
+ if ( !listeningNetworks.contains(nid) )
+ curr.addSelectEventListener(this);
+
+ // to make sure we're set intially
+ onSelectEvent(null);
+ }
+ }
+}
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