use of cbit.vcell.graph.ReactionCartoon.RuleAnalysisChanged in project vcell by virtualcell.
the class ViewObservablesMapPanel method initialize.
private void initialize() {
try {
// --------------------------------------- the split panels
setName("ViewGeneratedSpeciesPanel");
setLayout(new BorderLayout());
JPanel topPanel = new JPanel();
topPanel.setLayout(new GridBagLayout());
JPanel bottomPanel = new JPanel();
bottomPanel.setLayout(new GridBagLayout());
JSplitPane splitPaneHorizontal = new JSplitPane(JSplitPane.VERTICAL_SPLIT);
splitPaneHorizontal.setDividerSize(10);
splitPaneHorizontal.setOneTouchExpandable(true);
splitPaneHorizontal.setDividerLocation(260);
splitPaneHorizontal.setResizeWeight(0.5);
splitPaneHorizontal.setTopComponent(topPanel);
splitPaneHorizontal.setBottomComponent(bottomPanel);
add(splitPaneHorizontal, BorderLayout.CENTER);
// ---------------------------------------- species shape panel
shapePanelSpecies = new LargeShapePanel() {
@Override
public void paintComponent(Graphics g) {
super.paintComponent(g);
if (spls != null) {
spls.paintSelf(g);
}
}
@Override
public DisplayMode getDisplayMode() {
return DisplayMode.other;
}
@Override
public RuleAnalysisChanged hasStateChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasStateChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(String reactionRuleName, MolecularTypePattern mtp) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(MolecularTypePattern molecularTypePattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleParticipantSignature getSignature() {
return null;
}
@Override
public GroupingCriteria getCriteria() {
return null;
}
@Override
public boolean isViewSingleRow() {
return true;
}
};
shapePanelSpecies.setLayout(new GridBagLayout());
shapePanelSpecies.setBackground(Color.white);
// not really editable but we don't want the brown contours here
shapePanelSpecies.setEditable(true);
shapePanelSpecies.setShowMoleculeColor(true);
shapePanelSpecies.setShowNonTrivialOnly(true);
Border loweredBevelBorder = BorderFactory.createLoweredBevelBorder();
JScrollPane scrollPaneSpecies = new JScrollPane(shapePanelSpecies);
scrollPaneSpecies.setBorder(loweredBevelBorder);
scrollPaneSpecies.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_ALWAYS);
scrollPaneSpecies.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_NEVER);
JPanel optionsPanelSpecies = new JPanel();
optionsPanelSpecies.setLayout(new GridBagLayout());
getZoomSmallerButtonSpecies().setEnabled(true);
getZoomLargerButtonSpecies().setEnabled(true);
shapePanelSpecies.zoomSmaller();
shapePanelSpecies.zoomSmaller();
GridBagConstraints gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 0;
gbc.insets = new Insets(0, 0, 0, 10);
gbc.anchor = GridBagConstraints.WEST;
optionsPanelSpecies.add(getZoomLargerButtonSpecies(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 1;
gbc.insets = new Insets(2, 0, 4, 10);
gbc.anchor = GridBagConstraints.WEST;
optionsPanelSpecies.add(getZoomSmallerButtonSpecies(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 2;
gbc.weightx = 1;
// fake cell used for filling all the vertical empty space
gbc.weighty = 1;
gbc.anchor = GridBagConstraints.WEST;
gbc.insets = new Insets(4, 4, 4, 10);
optionsPanelSpecies.add(new JLabel(""), gbc);
JPanel containerOfScrollPanelSpecies = new JPanel();
containerOfScrollPanelSpecies.setLayout(new BorderLayout());
containerOfScrollPanelSpecies.add(optionsPanelSpecies, BorderLayout.WEST);
containerOfScrollPanelSpecies.add(scrollPaneSpecies, BorderLayout.CENTER);
Dimension dimS = new Dimension(500, 125);
// dimension of shape panel
containerOfScrollPanelSpecies.setPreferredSize(dimS);
containerOfScrollPanelSpecies.setMinimumSize(dimS);
containerOfScrollPanelSpecies.setMaximumSize(dimS);
shapePanelObservable = new LargeShapePanel() {
@Override
public void paintComponent(Graphics g) {
super.paintComponent(g);
for (SpeciesPatternLargeShape sps : spsList) {
if (sps == null) {
continue;
}
sps.paintSelf(g);
}
}
@Override
public DisplayMode getDisplayMode() {
return DisplayMode.other;
}
@Override
public RuleAnalysisChanged hasStateChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasStateChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(String reactionRuleName, MolecularTypePattern mtp) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(MolecularTypePattern molecularTypePattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleParticipantSignature getSignature() {
return null;
}
@Override
public GroupingCriteria getCriteria() {
return null;
}
@Override
public boolean isViewSingleRow() {
return true;
}
};
//
DefaultScrollTableCellRenderer rbmSpeciesPatternCellRenderer = new DefaultScrollTableCellRenderer() {
@Override
public Component getTableCellRendererComponent(JTable table, Object value, boolean isSelected, boolean hasFocus, int row, int column) {
super.getTableCellRendererComponent(table, value, isSelected, hasFocus, row, column);
if (table.getModel() instanceof GeneratedSpeciesTableModel2) {
Object selectedObject = null;
if (table.getModel() == speciesTableModel) {
selectedObject = speciesTableModel.getValueAt(row);
}
if (selectedObject != null) {
if (selectedObject instanceof GeneratedSpeciesTableRow && value instanceof String) {
SpeciesPattern sp = ((GeneratedSpeciesTableRow) selectedObject).getSpecies().getSpeciesPattern();
String text = "<html>";
text += RbmTableRenderer.toHtml(sp, isSelected);
text += "</html>";
setText(text);
}
}
}
return this;
}
};
// shapePanelObservable.setLayout(null);
shapePanelObservable.setLayout(new GridBagLayout());
shapePanelObservable.setBackground(Color.white);
shapePanelObservable.setEditable(true);
shapePanelObservable.setShowMoleculeColor(true);
shapePanelObservable.setShowNonTrivialOnly(true);
JScrollPane scrollPaneObservable = new JScrollPane(shapePanelObservable);
scrollPaneObservable.setBorder(loweredBevelBorder);
scrollPaneObservable.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_ALWAYS);
scrollPaneObservable.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_NEVER);
JPanel optionsPanelObservable = new JPanel();
optionsPanelObservable.setLayout(new GridBagLayout());
getZoomSmallerButtonObservable().setEnabled(true);
getZoomLargerButtonObservable().setEnabled(true);
shapePanelObservable.zoomSmaller();
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 0;
gbc.insets = new Insets(0, 0, 0, 10);
gbc.anchor = GridBagConstraints.WEST;
optionsPanelObservable.add(getZoomLargerButtonObservable(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 1;
gbc.insets = new Insets(2, 0, 4, 10);
gbc.anchor = GridBagConstraints.WEST;
optionsPanelObservable.add(getZoomSmallerButtonObservable(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 2;
gbc.weightx = 1;
// fake cell used for filling all the vertical empty space
gbc.weighty = 1;
gbc.anchor = GridBagConstraints.WEST;
gbc.insets = new Insets(4, 4, 4, 10);
optionsPanelObservable.add(new JLabel(""), gbc);
JPanel containerOfScrollPanelObservable = new JPanel();
containerOfScrollPanelObservable.setLayout(new BorderLayout());
containerOfScrollPanelObservable.add(optionsPanelObservable, BorderLayout.WEST);
containerOfScrollPanelObservable.add(scrollPaneObservable, BorderLayout.CENTER);
Dimension dimO = new Dimension(500, 100);
// dimension of shape panel
containerOfScrollPanelObservable.setPreferredSize(dimO);
containerOfScrollPanelObservable.setMinimumSize(dimO);
containerOfScrollPanelObservable.setMaximumSize(dimO);
// -------------- connection between tables, table models, selection models, renderers, event handlers
speciesTable = new EditorScrollTable();
speciesTableModel = new GeneratedSpeciesTableModel2(speciesTable, owner);
speciesTable.setModel(speciesTableModel);
speciesTable.getSelectionModel().addListSelectionListener(eventHandlerS);
speciesTable.getModel().addTableModelListener(eventHandlerS);
observablesTable = new EditorScrollTable();
observablesTableModel = new ObservablesGroupTableModel(observablesTable, owner, speciesTableModel);
observablesTable.setModel(observablesTableModel);
observablesTable.getSelectionModel().addListSelectionListener(eventHandlerO);
observablesTable.getModel().addTableModelListener(eventHandlerO);
speciesTable.getColumnModel().getColumn(GeneratedSpeciesTableModel2.iColDefinition).setCellRenderer(rbmSpeciesPatternCellRenderer);
DefaultTableCellRenderer rightRenderer = new DefaultTableCellRenderer();
rightRenderer.setHorizontalAlignment(JLabel.RIGHT);
// speciesTable.getColumnModel().getColumn(GeneratedSpeciesTableModel2.iColMultiplier).setCellRenderer(rightRenderer); // right align
// left column wide enough for title
speciesTable.getColumnModel().getColumn(GeneratedSpeciesTableModel2.iColMultiplier).setMaxWidth(70);
speciesTable.addMouseMotionListener(new // add toolTipText for each table cell
MouseMotionAdapter() {
public void mouseMoved(MouseEvent e) {
Point p = e.getPoint();
int row = speciesTable.rowAtPoint(p);
int column = speciesTable.columnAtPoint(p);
speciesTable.setToolTipText(String.valueOf(speciesTable.getValueAt(row, column)));
}
});
// ---------------------------------------------- top panel
int gridy = 0;
gbc = new java.awt.GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.weightx = 1.0;
gbc.weighty = 1.0;
gbc.gridwidth = 8;
gbc.fill = GridBagConstraints.BOTH;
gbc.insets = new Insets(4, 4, 4, 4);
observablesTable.setPreferredScrollableViewportSize(new Dimension(400, 200));
topPanel.add(observablesTable.getEnclosingScrollPane(), gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.anchor = GridBagConstraints.LINE_END;
gbc.insets = new Insets(4, 4, 4, 4);
topPanel.add(new JLabel("Search "), gbc);
textFieldSearchObservables = new JTextField(70);
textFieldSearchObservables.addActionListener(eventHandlerO);
textFieldSearchObservables.getDocument().addDocumentListener(eventHandlerO);
textFieldSearchObservables.putClientProperty("JTextField.variant", "search");
gbc = new java.awt.GridBagConstraints();
gbc.weightx = 1.0;
gbc.gridx = 1;
gbc.gridy = gridy;
gbc.gridwidth = 3;
gbc.anchor = GridBagConstraints.LINE_START;
gbc.fill = java.awt.GridBagConstraints.HORIZONTAL;
gbc.insets = new Insets(4, 0, 4, 4);
topPanel.add(textFieldSearchObservables, gbc);
gbc = new GridBagConstraints();
gbc.gridx = 4;
gbc.gridy = gridy;
gbc.fill = GridBagConstraints.HORIZONTAL;
gbc.insets = new Insets(4, 4, 4, 10);
topPanel.add(totalObservablesLabel, gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
// gbc.weightx = 1.0;
gbc.gridwidth = 8;
gbc.anchor = GridBagConstraints.LINE_END;
gbc.fill = java.awt.GridBagConstraints.BOTH;
gbc.insets = new Insets(4, 4, 4, 4);
topPanel.add(containerOfScrollPanelObservable, gbc);
// -------------------------------------------- bottom panel
gridy = 0;
gbc = new java.awt.GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.weightx = 1.0;
gbc.weighty = 1.0;
gbc.gridwidth = 8;
gbc.fill = GridBagConstraints.BOTH;
gbc.insets = new Insets(4, 4, 4, 4);
speciesTable.setPreferredScrollableViewportSize(new Dimension(400, 200));
bottomPanel.add(speciesTable.getEnclosingScrollPane(), gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.anchor = GridBagConstraints.LINE_END;
gbc.insets = new Insets(4, 4, 4, 4);
bottomPanel.add(new JLabel("Search "), gbc);
textFieldSearchSpecies = new JTextField(70);
textFieldSearchSpecies.addActionListener(eventHandlerS);
textFieldSearchSpecies.getDocument().addDocumentListener(eventHandlerS);
textFieldSearchSpecies.putClientProperty("JTextField.variant", "search");
gbc = new java.awt.GridBagConstraints();
gbc.weightx = 1.0;
gbc.gridx = 1;
gbc.gridy = gridy;
gbc.gridwidth = 3;
gbc.anchor = GridBagConstraints.LINE_START;
gbc.fill = java.awt.GridBagConstraints.HORIZONTAL;
gbc.insets = new Insets(4, 0, 4, 4);
bottomPanel.add(textFieldSearchSpecies, gbc);
gbc = new GridBagConstraints();
gbc.gridx = 4;
gbc.gridy = gridy;
gbc.fill = GridBagConstraints.HORIZONTAL;
gbc.insets = new Insets(4, 4, 4, 10);
bottomPanel.add(totalSpeciesLabel, gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
// gbc.weightx = 1.0;
gbc.gridwidth = 8;
gbc.anchor = GridBagConstraints.LINE_END;
gbc.fill = java.awt.GridBagConstraints.BOTH;
gbc.insets = new Insets(4, 4, 4, 4);
bottomPanel.add(containerOfScrollPanelSpecies, gbc);
// rendering the small shapes of the flattened species in the Depiction column of this viewer table)
// TODO: this renderer is almost identical with the one in BioModelEditorModelPanel (which paints the small shapes
// of a species context in the Depiction column of the species table)
DefaultScrollTableCellRenderer rbmSpeciesShapeDepictionCellRenderer = new DefaultScrollTableCellRenderer() {
SpeciesPatternSmallShape spss = null;
@Override
public Component getTableCellRendererComponent(JTable table, Object value, boolean isSelected, boolean hasFocus, int row, int column) {
super.getTableCellRendererComponent(table, value, isSelected, hasFocus, row, column);
if (table.getModel() instanceof VCellSortTableModel<?>) {
Object selectedObject = null;
if (table.getModel() == speciesTableModel) {
selectedObject = speciesTableModel.getValueAt(row);
}
if (selectedObject != null) {
if (selectedObject instanceof GeneratedSpeciesTableRow) {
SpeciesContext sc = ((GeneratedSpeciesTableRow) selectedObject).getSpecies();
// sp cannot be null
SpeciesPattern sp = sc.getSpeciesPattern();
Graphics panelContext = table.getGraphics();
spss = new SpeciesPatternSmallShape(4, 2, sp, panelContext, sc, isSelected, issueManager);
}
} else {
spss = null;
}
}
setText("");
return this;
}
@Override
public void paintComponent(Graphics g) {
super.paintComponent(g);
if (spss != null) {
spss.paintSelf(g);
}
}
};
speciesTable.getColumnModel().getColumn(GeneratedSpeciesTableModel2.iColDepiction).setCellRenderer(rbmSpeciesShapeDepictionCellRenderer);
speciesTable.getColumnModel().getColumn(GeneratedSpeciesTableModel2.iColDepiction).setPreferredWidth(400);
speciesTable.getColumnModel().getColumn(GeneratedSpeciesTableModel2.iColDepiction).setMinWidth(400);
speciesTable.getColumnModel().getColumn(GeneratedSpeciesTableModel2.iColDefinition).setPreferredWidth(30);
speciesTable.setAutoResizeMode(JTable.AUTO_RESIZE_LAST_COLUMN);
DefaultScrollTableCellRenderer rbmObservableShapeDepictionCellRenderer = new DefaultScrollTableCellRenderer() {
List<SpeciesPatternSmallShape> spssList = new ArrayList<SpeciesPatternSmallShape>();
SpeciesPatternSmallShape spss = null;
@Override
public Component getTableCellRendererComponent(JTable table, Object value, boolean isSelected, boolean hasFocus, int row, int column) {
super.getTableCellRendererComponent(table, value, isSelected, hasFocus, row, column);
if (table.getModel() instanceof VCellSortTableModel<?>) {
Object selectedObject = null;
if (table.getModel() == observablesTableModel) {
selectedObject = observablesTableModel.getValueAt(row);
}
if (selectedObject != null && selectedObject instanceof ObservablesGroupTableRow) {
ObservablesGroupTableRow ogtr = ((ObservablesGroupTableRow) selectedObject);
String obsName = ogtr.getObservableGroupObject().getObservableGroupName();
RbmObservable observable = ogtr.getObservable(obsName);
Graphics panelContext = table.getGraphics();
int xPos = 4;
spssList.clear();
for (int i = 0; i < observable.getSpeciesPatternList().size(); i++) {
SpeciesPattern sp = observable.getSpeciesPatternList().get(i);
spss = new SpeciesPatternSmallShape(xPos, 2, sp, panelContext, observable, isSelected, issueManager);
xPos += spss.getWidth() + 6;
spssList.add(spss);
}
} else {
spssList.clear();
}
}
setText("");
return this;
}
@Override
public void paintComponent(Graphics g) {
super.paintComponent(g);
for (SpeciesPatternSmallShape spss : spssList) {
if (spss == null) {
continue;
}
spss.paintSelf(g);
}
}
};
observablesTable.getColumnModel().getColumn(ObservablesGroupTableModel.iColDepiction).setCellRenderer(rbmObservableShapeDepictionCellRenderer);
observablesTable.getColumnModel().getColumn(ObservablesGroupTableModel.iColDepiction).setPreferredWidth(150);
observablesTable.getColumnModel().getColumn(ObservablesGroupTableModel.iColDepiction).setMinWidth(150);
observablesTable.getColumnModel().getColumn(ObservablesGroupTableModel.iColDefinition).setPreferredWidth(80);
observablesTable.getColumnModel().getColumn(ObservablesGroupTableModel.iColExpression).setPreferredWidth(100);
observablesTable.setAutoResizeMode(JTable.AUTO_RESIZE_LAST_COLUMN);
} catch (java.lang.Throwable ivjExc) {
handleException(ivjExc);
}
}
use of cbit.vcell.graph.ReactionCartoon.RuleAnalysisChanged in project vcell by virtualcell.
the class SpeciesPropertiesPanel method initialize.
/**
* Initialize the class.
*/
private void initialize() {
try {
Border border = BorderFactory.createLineBorder(Color.gray);
shapePanel = new // glyph (shape) panel
LargeShapePanel() {
@Override
public void paintComponent(Graphics g) {
super.paintComponent(g);
if (spls != null) {
spls.paintSelf(g);
}
}
@Override
public DisplayMode getDisplayMode() {
return DisplayMode.other;
}
@Override
public RuleAnalysisChanged hasStateChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasStateChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(String reactionRuleName, MolecularTypePattern mtp) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(MolecularTypePattern molecularTypePattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleParticipantSignature getSignature() {
return null;
}
@Override
public GroupingCriteria getCriteria() {
return null;
}
@Override
public boolean isViewSingleRow() {
return true;
}
};
shapePanel.setBorder(border);
shapePanel.setBackground(Color.white);
shapePanel.setZoomFactor(-1);
shapePanel.setEditable(true);
shapePanel.setShowMoleculeColor(true);
shapePanel.setShowNonTrivialOnly(true);
// Dimension ms = new Dimension(350, 80);
// shapePanel.setMinimumSize(ms);
shapePanel.addMouseListener(new MouseAdapter() {
@Override
public void mouseClicked(MouseEvent e) {
super.mouseClicked(e);
if (e.getButton() == 1) {
// left click selects the object (we highlight it)
Point whereClicked = e.getPoint();
PointLocationInShapeContext locationContext = new PointLocationInShapeContext(whereClicked);
manageMouseActivity(locationContext);
} else if (e.getButton() == 3) {
// right click invokes popup menu (only if the object is highlighted)
Point whereClicked = e.getPoint();
PointLocationInShapeContext locationContext = new PointLocationInShapeContext(whereClicked);
manageMouseActivity(locationContext);
if (locationContext.getDeepestShape() != null && !locationContext.getDeepestShape().isHighlighted()) {
// TODO: (maybe) add code here to highlight the shape if it's not highlighted already but don't show the menu
// return;
}
showPopupMenu(e, locationContext);
}
}
private void manageMouseActivity(PointLocationInShapeContext locationContext) {
Graphics g = shapePanel.getGraphics();
spls.turnHighlightOffRecursive(g);
if (spls.contains(locationContext)) {
// check if mouse is inside shape
System.out.println("left click inside shape " + locationContext.getDeepestShape().toString());
}
locationContext.highlightDeepestShape();
locationContext.paintDeepestShape(g);
}
});
shapePanel.addMouseMotionListener(new MouseMotionAdapter() {
public void mouseMoved(MouseEvent e) {
Point overWhat = e.getPoint();
PointLocationInShapeContext locationContext = new PointLocationInShapeContext(overWhat);
spls.contains(locationContext);
HighlightableShapeInterface hsi = locationContext.getDeepestShape();
if (hsi == null) {
shapePanel.setToolTipText(null);
} else {
shapePanel.setToolTipText("Right click for " + hsi.getDisplayType() + " menus");
}
for (MolecularTypeLargeShape mtls : spls.getMolecularTypeLargeShapes()) {
Rectangle r = mtls.getAnchorHotspot();
if (r != null && r.contains(overWhat)) {
mtls.getMolecularType();
shapePanel.setToolTipText(mtls.getAnchorsHTML());
break;
}
}
}
});
// ----------------------------------------------------------------------------------
leftPanel = new JPanel();
GridBagLayout mgr = new GridBagLayout();
mgr.rowHeights = new int[] { 100, 100 };
leftPanel.setLayout(mgr);
leftPanel.setBackground(Color.white);
speciesPropertiesTree = new BioModelNodeEditableTree();
speciesPropertiesTreeModel = new SpeciesPropertiesTreeModel(speciesPropertiesTree);
speciesPropertiesTree.setModel(speciesPropertiesTreeModel);
JPanel generalPanel = new JPanel();
generalPanel.setLayout(new GridBagLayout());
Dimension size = new Dimension(100, 150);
generalPanel.setMinimumSize(size);
nameTextField = new JTextField();
nameTextField.setEditable(false);
int gridy = 0;
GridBagConstraints gbc = new java.awt.GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.insets = new Insets(2, 4, 2, 4);
gbc.anchor = GridBagConstraints.LINE_END;
JLabel label = new JLabel("Species Name");
generalPanel.add(label, gbc);
gbc = new java.awt.GridBagConstraints();
gbc.gridx = 1;
gbc.gridy = gridy;
// significantly longer than the sbmlName text field
gbc.weightx = 0.7;
gbc.fill = java.awt.GridBagConstraints.BOTH;
gbc.insets = new Insets(2, 4, 2, 4);
gbc.anchor = GridBagConstraints.LINE_START;
generalPanel.add(nameTextField, gbc);
sbmlNameTextField = new JTextField();
sbmlNameTextField.setEditable(false);
sbmlNameTextField.setEnabled(false);
gbc = new java.awt.GridBagConstraints();
gbc.gridx = 2;
gbc.gridy = gridy;
gbc.insets = new Insets(2, 8, 2, 2);
gbc.anchor = GridBagConstraints.LINE_END;
generalPanel.add(new JLabel("Sbml Name"), gbc);
gbc = new java.awt.GridBagConstraints();
gbc.gridx = 3;
gbc.gridy = gridy;
gbc.weightx = 0.3;
gbc.fill = java.awt.GridBagConstraints.BOTH;
gbc.insets = new Insets(2, 4, 2, 4);
gbc.anchor = GridBagConstraints.LINE_START;
generalPanel.add(sbmlNameTextField, gbc);
gridy++;
gbc = new java.awt.GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.insets = new Insets(2, 4, 2, 4);
gbc.anchor = GridBagConstraints.FIRST_LINE_END;
generalPanel.add(new JLabel("Linked Pathway Object(s)"), gbc);
linkedPOScrollPane = new JScrollPane();
gbc = new java.awt.GridBagConstraints();
gbc.weightx = 1.0;
gbc.weighty = 0.1;
gbc.gridx = 1;
gbc.gridy = gridy;
gbc.gridwidth = 3;
gbc.anchor = GridBagConstraints.LINE_START;
gbc.fill = java.awt.GridBagConstraints.BOTH;
gbc.insets = new Insets(2, 4, 2, 4);
generalPanel.add(linkedPOScrollPane, gbc);
GridBagConstraints gbc1 = new GridBagConstraints();
gbc1.gridx = 0;
gbc1.gridy = 0;
gbc1.gridwidth = 1;
gbc1.weightx = 1;
gbc1.weighty = 1;
gbc1.fill = GridBagConstraints.BOTH;
leftPanel.add(generalPanel, gbc1);
scrollPane = new JScrollPane(shapePanel);
scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
// -----------------------------------------------------------
JPanel optionsPanel = new JPanel();
optionsPanel.setLayout(new GridBagLayout());
getZoomSmallerButton().setEnabled(true);
getZoomLargerButton().setEnabled(true);
GridBagConstraints gbc2 = new GridBagConstraints();
gbc2.gridx = 0;
gbc2.gridy = 0;
gbc2.insets = new Insets(4, 4, 0, 10);
gbc2.anchor = GridBagConstraints.WEST;
optionsPanel.add(getZoomLargerButton(), gbc2);
gbc2 = new GridBagConstraints();
gbc2.gridx = 0;
gbc2.gridy = 1;
gbc2.insets = new Insets(4, 4, 4, 10);
gbc2.anchor = GridBagConstraints.WEST;
optionsPanel.add(getZoomSmallerButton(), gbc2);
gbc2 = new GridBagConstraints();
gbc2.gridx = 0;
gbc2.gridy = 2;
gbc2.weightx = 1;
// fake cell used for filling all the vertical empty space
gbc2.weighty = 1;
gbc2.anchor = GridBagConstraints.WEST;
gbc2.insets = new Insets(4, 4, 4, 10);
optionsPanel.add(new JLabel(""), gbc2);
JPanel containerOfScrollPanel = new JPanel();
containerOfScrollPanel.setLayout(new BorderLayout());
containerOfScrollPanel.add(optionsPanel, BorderLayout.WEST);
containerOfScrollPanel.add(scrollPane, BorderLayout.CENTER);
// gbc1 = new GridBagConstraints();
gbc1.gridx = 0;
gbc1.gridy = 1;
gbc1.weightx = 1;
gbc1.weighty = 0.1;
gbc1.fill = GridBagConstraints.BOTH;
leftPanel.add(containerOfScrollPanel, gbc1);
setName("SpeciesEditorPanel");
setLayout(new BorderLayout());
setBackground(Color.white);
add(leftPanel, BorderLayout.CENTER);
initConnections();
} catch (java.lang.Throwable ivjExc) {
handleException(ivjExc);
}
}
use of cbit.vcell.graph.ReactionCartoon.RuleAnalysisChanged in project vcell by virtualcell.
the class ObservablePropertiesPanel method initialize.
private void initialize() {
observableTree = new BioModelNodeEditableTree();
observableTreeModel = new ObservableTreeModel(observableTree);
observableTree.setModel(observableTreeModel);
setLayout(new GridBagLayout());
// --------------------------------------------------------------------------------------------------------
splitPaneHorizontal.setOneTouchExpandable(true);
splitPaneHorizontal.setDividerLocation(120);
splitPaneHorizontal.setResizeWeight(0.1);
Border border = BorderFactory.createLineBorder(Color.gray);
Border loweredEtchedBorder = BorderFactory.createEtchedBorder(EtchedBorder.LOWERED);
Border loweredBevelBorder = BorderFactory.createLoweredBevelBorder();
TitledBorder annotationBorder = BorderFactory.createTitledBorder(loweredEtchedBorder, " Annotation ");
annotationBorder.setTitleJustification(TitledBorder.LEFT);
annotationBorder.setTitlePosition(TitledBorder.TOP);
annotationBorder.setTitleFont(getFont().deriveFont(Font.BOLD));
shapePanel = new LargeShapePanel() {
@Override
public void paintComponent(Graphics g) {
super.paintComponent(g);
for (SpeciesPatternLargeShape sps : spsList) {
if (sps == null) {
continue;
}
sps.paintSelf(g);
}
}
@Override
public DisplayMode getDisplayMode() {
return DisplayMode.other;
}
@Override
public RuleAnalysisChanged hasStateChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasStateChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(String reactionRuleName, MolecularTypePattern mtp) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(MolecularTypePattern molecularTypePattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleParticipantSignature getSignature() {
return null;
}
@Override
public GroupingCriteria getCriteria() {
return null;
}
@Override
public boolean isViewSingleRow() {
return true;
}
};
shapePanel.setBorder(border);
shapePanel.setBackground(Color.white);
shapePanel.setLayout(null);
shapePanel.setZoomFactor(-1);
shapePanel.setEditable(true);
shapePanel.setShowMoleculeColor(true);
shapePanel.setShowNonTrivialOnly(true);
shapePanel.addMouseListener(new MouseAdapter() {
@Override
public void mouseClicked(MouseEvent e) {
super.mouseClicked(e);
if (e.getButton() == 1) {
// left click selects the object (we highlight it)
Point whereClicked = e.getPoint();
PointLocationInShapeContext locationContext = new PointLocationInShapeContext(whereClicked);
manageMouseActivity(locationContext);
} else if (e.getButton() == 3) {
// right click invokes popup menu (only if the object is highlighted)
Point whereClicked = e.getPoint();
PointLocationInShapeContext locationContext = new PointLocationInShapeContext(whereClicked);
manageMouseActivity(locationContext);
if (locationContext.getDeepestShape() != null && !locationContext.getDeepestShape().isHighlighted()) {
// TODO: (maybe) add code here to highlight the shape if it's not highlighted already but don't show the menu
// return;
}
showPopupMenu(e, locationContext);
}
}
private void manageMouseActivity(PointLocationInShapeContext locationContext) {
Graphics g = shapePanel.getGraphics();
for (SpeciesPatternLargeShape sps : spsList) {
sps.turnHighlightOffRecursive(g);
}
for (SpeciesPatternLargeShape sps : spsList) {
if (sps.contains(locationContext)) {
// check if mouse is inside shape
break;
}
}
locationContext.highlightDeepestShape();
locationContext.paintDeepestShape(g);
}
});
// shapePanel.addMouseListener(eventHandler); // alternately use this
shapePanel.addMouseMotionListener(new MouseMotionAdapter() {
public void mouseMoved(MouseEvent e) {
Point overWhat = e.getPoint();
PointLocationInShapeContext locationContext = new PointLocationInShapeContext(overWhat);
for (SpeciesPatternLargeShape sps : spsList) {
if (sps.contains(locationContext)) {
break;
}
}
HighlightableShapeInterface hsi = locationContext.getDeepestShape();
if (hsi == null) {
shapePanel.setToolTipText(null);
} else {
shapePanel.setToolTipText("Right click for " + hsi.getDisplayType() + " menus");
}
for (SpeciesPatternLargeShape sps : spsList) {
for (MolecularTypeLargeShape mtls : sps.getMolecularTypeLargeShapes()) {
Rectangle r = mtls.getAnchorHotspot();
if (r != null && r.contains(overWhat)) {
mtls.getMolecularType();
shapePanel.setToolTipText(mtls.getAnchorsHTML());
break;
}
}
}
}
});
JPanel optionsPanel = new JPanel();
// gray options panel
optionsPanel.setPreferredSize(new Dimension(140, 200));
optionsPanel.setLayout(new GridBagLayout());
getZoomSmallerButton().setEnabled(true);
getZoomLargerButton().setEnabled(true);
int gridy = 0;
GridBagConstraints gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.gridwidth = 3;
// top, left bottom, right
gbc.insets = new Insets(4, 4, 2, 4);
gbc.fill = GridBagConstraints.HORIZONTAL;
gbc.anchor = GridBagConstraints.NORTHWEST;
optionsPanel.add(getAddSpeciesButton(), gbc);
ButtonGroup bg = new ButtonGroup();
bg.add(getSequenceMultimolecularButton());
bg.add(getSequencePolimerEqualButton());
bg.add(getSequencePolimerGreaterButton());
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.gridwidth = 2;
gbc.insets = new Insets(8, 4, 2, 4);
gbc.fill = GridBagConstraints.HORIZONTAL;
optionsPanel.add(getSequenceMultimolecularButton(), gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.insets = new Insets(4, 10, 2, 4);
gbc.fill = GridBagConstraints.HORIZONTAL;
JLabel label = new JLabel("Polymer of");
label.setToolTipText("Compact notation available below for single-Molecule polymers");
optionsPanel.add(label, gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.insets = new Insets(2, 4, 1, 2);
gbc.fill = GridBagConstraints.HORIZONTAL;
optionsPanel.add(getSequencePolimerEqualButton(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 1;
gbc.gridy = gridy;
gbc.gridwidth = 2;
gbc.insets = new Insets(2, 4, 1, 4);
gbc.fill = GridBagConstraints.HORIZONTAL;
optionsPanel.add(getLengthEqualTextField(), gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.insets = new Insets(1, 4, 4, 2);
gbc.fill = GridBagConstraints.HORIZONTAL;
optionsPanel.add(getSequencePolimerGreaterButton(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 1;
gbc.gridy = gridy;
gbc.gridwidth = 2;
gbc.insets = new Insets(1, 4, 4, 4);
gbc.fill = GridBagConstraints.HORIZONTAL;
optionsPanel.add(getLengthGreaterTextField(), gbc);
// --- zoom buttons in their own panel, for alignment ---
JPanel buttonPanel = new JPanel();
buttonPanel.setLayout(new GridBagLayout());
GridBagConstraints gbc2 = new GridBagConstraints();
gbc2.gridx = 0;
gbc2.gridy = 0;
gbc2.insets = new Insets(1, 1, 1, 1);
gbc2.anchor = GridBagConstraints.WEST;
buttonPanel.add(getZoomLargerButton(), gbc2);
gbc2 = new GridBagConstraints();
gbc2.gridx = 1;
gbc2.gridy = 0;
gbc2.insets = new Insets(1, 1, 1, 1);
gbc2.anchor = GridBagConstraints.WEST;
buttonPanel.add(getZoomSmallerButton(), gbc2);
// ---------------------------------------------------
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.anchor = GridBagConstraints.WEST;
gbc.insets = new Insets(1, 4, 4, 2);
gbc.fill = GridBagConstraints.HORIZONTAL;
// zoom buttons panel
optionsPanel.add(buttonPanel, gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.gridwidth = 3;
gbc.weightx = 1;
// fake cell used for filling all the vertical empty space
gbc.weighty = 1;
gbc.anchor = GridBagConstraints.WEST;
gbc.insets = new Insets(2, 1, 2, 10);
optionsPanel.add(new JLabel(""), gbc);
// -----------------------------------------------------------------------------------------
// JPanel generalPanel = new JPanel(); // right bottom panel, contains just the annotation
// generalPanel.setBorder(annotationBorder);
// generalPanel.setLayout(new GridBagLayout());
//
// gridy = 0;
// annotationTextArea = new javax.swing.JTextArea("", 1, 30);
// annotationTextArea.setLineWrap(true);
// annotationTextArea.setWrapStyleWord(true);
// annotationTextArea.setFont(new Font("monospaced", Font.PLAIN, 11));
// annotationTextArea.setEditable(false);
// javax.swing.JScrollPane jsp = new javax.swing.JScrollPane(annotationTextArea);
//
// gbc = new java.awt.GridBagConstraints();
// gbc.weightx = 1.0;
// gbc.weighty = 0.1;
// gbc.gridx = 0;
// gbc.gridy = gridy;
// gbc.anchor = GridBagConstraints.LINE_START;
// gbc.fill = java.awt.GridBagConstraints.BOTH;
// gbc.insets = new Insets(4, 4, 4, 4);
// generalPanel.add(jsp, gbc);
// where we display the shapes
scrollPane = new JScrollPane(shapePanel);
scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
JPanel containerOfScrollPanel = new JPanel();
containerOfScrollPanel.setLayout(new BorderLayout());
containerOfScrollPanel.add(optionsPanel, BorderLayout.WEST);
containerOfScrollPanel.add(scrollPane, BorderLayout.CENTER);
// splitPaneHorizontal.setTopComponent(containerOfScrollPanel);
// splitPaneHorizontal.setBottomComponent(generalPanel);
// splitPaneHorizontal.setResizeWeight(0.9d);
// splitPaneHorizontal.setDividerLocation(0.8d);
setName("ObservablePropertiesPanel");
setLayout(new BorderLayout());
add(containerOfScrollPanel, BorderLayout.CENTER);
setBackground(Color.white);
// annotationTextArea.addFocusListener(eventHandler);
// annotationTextArea.addMouseListener(eventHandler);
}
use of cbit.vcell.graph.ReactionCartoon.RuleAnalysisChanged in project vcell by virtualcell.
the class SpeciesContextSpecPanel method initialize.
private void initialize() {
try {
shapePanel = new // glyph (shape) panel
LargeShapePanel() {
@Override
public void paintComponent(Graphics g) {
super.paintComponent(g);
if (spls != null) {
spls.paintSelf(g);
}
}
@Override
public DisplayMode getDisplayMode() {
return DisplayMode.other;
}
@Override
public RuleAnalysisChanged hasStateChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasStateChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(String reactionRuleName, MolecularTypePattern mtp) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(MolecularTypePattern molecularTypePattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleParticipantSignature getSignature() {
return null;
}
@Override
public GroupingCriteria getCriteria() {
return null;
}
@Override
public boolean isViewSingleRow() {
return true;
}
};
shapePanel.addMouseMotionListener(new MouseMotionAdapter() {
public void mouseMoved(MouseEvent e) {
Point overWhat = e.getPoint();
PointLocationInShapeContext locationContext = new PointLocationInShapeContext(overWhat);
spls.contains(locationContext);
shapePanel.setToolTipText("View-Only panel");
}
});
shapePanel.setBackground(new Color(0xe0e0e0));
shapePanel.setZoomFactor(-2);
shapePanel.setEditable(false);
shapePanel.setShowMoleculeColor(false);
shapePanel.setShowNonTrivialOnly(false);
// --------------------------------------------------------------
JPanel upperPanel = new JPanel();
upperPanel.setLayout(new java.awt.BorderLayout());
upperPanel.add(getScrollPaneTable().getEnclosingScrollPane(), BorderLayout.CENTER);
getScrollPaneTable().setModel(getSpeciesContextSpecParameterTableModel());
scrollPane = new JScrollPane(shapePanel);
scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_AS_NEEDED);
scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_AS_NEEDED);
JPanel optionsPanel = new JPanel();
optionsPanel.setLayout(new GridBagLayout());
getZoomSmallerButton().setEnabled(true);
getZoomLargerButton().setEnabled(true);
GridBagConstraints gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 0;
gbc.insets = new Insets(4, 4, 0, 10);
gbc.anchor = GridBagConstraints.WEST;
optionsPanel.add(getZoomLargerButton(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 1;
gbc.insets = new Insets(4, 4, 4, 10);
gbc.anchor = GridBagConstraints.WEST;
optionsPanel.add(getZoomSmallerButton(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 2;
gbc.weightx = 1;
// fake cell used for filling all the vertical empty space
gbc.weighty = 1;
gbc.anchor = GridBagConstraints.WEST;
gbc.insets = new Insets(4, 4, 4, 10);
optionsPanel.add(new JLabel(""), gbc);
JPanel containerOfScrollPanel = new JPanel();
containerOfScrollPanel.setLayout(new BorderLayout());
containerOfScrollPanel.add(optionsPanel, BorderLayout.WEST);
containerOfScrollPanel.add(scrollPane, BorderLayout.CENTER);
// ------------------------------------------------
splitPaneHorizontal.setTopComponent(upperPanel);
splitPaneHorizontal.setBottomComponent(containerOfScrollPanel);
splitPaneHorizontal.setOneTouchExpandable(true);
// upper panel is 165 pixel height
splitPaneHorizontal.setDividerLocation(165);
splitPaneHorizontal.setResizeWeight(1);
setLayout(new BorderLayout());
add(splitPaneHorizontal, BorderLayout.CENTER);
setBackground(Color.white);
setName("SpeciesContextSpecPanel");
} catch (java.lang.Throwable ivjExc) {
handleException(ivjExc);
}
}
use of cbit.vcell.graph.ReactionCartoon.RuleAnalysisChanged in project vcell by virtualcell.
the class OutputSpeciesResultsPanel method initialize.
private void initialize() {
try {
setName("ViewGeneratedSpeciesPanel");
setLayout(new GridBagLayout());
shapePanel = new LargeShapePanel() {
@Override
public void paintComponent(Graphics g) {
super.paintComponent(g);
if (spls != null) {
spls.paintSelf(g);
}
}
@Override
public DisplayMode getDisplayMode() {
return DisplayMode.other;
}
@Override
public RuleAnalysisChanged hasStateChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasStateChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(String reactionRuleName, MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasBondChanged(MolecularComponentPattern molecularComponentPattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(String reactionRuleName, MolecularTypePattern mtp) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleAnalysisChanged hasNoMatch(MolecularTypePattern molecularTypePattern) {
return RuleAnalysisChanged.UNCHANGED;
}
@Override
public RuleParticipantSignature getSignature() {
return null;
}
@Override
public GroupingCriteria getCriteria() {
return null;
}
@Override
public boolean isViewSingleRow() {
return true;
}
};
Border loweredBevelBorder = BorderFactory.createLoweredBevelBorder();
shapePanel.setLayout(new GridBagLayout());
shapePanel.setBackground(Color.white);
// not really editable but we don't want the brown contours here
shapePanel.setEditable(true);
// we work with a "fake" model and cannot show proper molecule color
shapePanel.setShowMoleculeColor(false);
shapePanel.setShowNonTrivialOnly(false);
JScrollPane scrollPane = new JScrollPane(shapePanel);
scrollPane.setBorder(loweredBevelBorder);
scrollPane.setHorizontalScrollBarPolicy(JScrollPane.HORIZONTAL_SCROLLBAR_ALWAYS);
scrollPane.setVerticalScrollBarPolicy(JScrollPane.VERTICAL_SCROLLBAR_NEVER);
JPanel optionsPanel = new JPanel();
optionsPanel.setLayout(new GridBagLayout());
getZoomSmallerButton().setEnabled(true);
getZoomLargerButton().setEnabled(false);
GridBagConstraints gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 0;
gbc.insets = new Insets(0, 0, 0, 10);
gbc.anchor = GridBagConstraints.WEST;
optionsPanel.add(getZoomLargerButton(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 1;
gbc.insets = new Insets(2, 0, 4, 10);
gbc.anchor = GridBagConstraints.WEST;
optionsPanel.add(getZoomSmallerButton(), gbc);
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = 2;
gbc.weightx = 1;
// fake cell used for filling all the vertical empty space
gbc.weighty = 1;
gbc.anchor = GridBagConstraints.WEST;
gbc.insets = new Insets(4, 4, 4, 10);
optionsPanel.add(new JLabel(""), gbc);
JPanel containerOfScrollPanel = new JPanel();
containerOfScrollPanel.setLayout(new BorderLayout());
containerOfScrollPanel.add(optionsPanel, BorderLayout.WEST);
containerOfScrollPanel.add(scrollPane, BorderLayout.CENTER);
Dimension dim = new Dimension(500, 135);
// dimension of shape panel
containerOfScrollPanel.setPreferredSize(dim);
containerOfScrollPanel.setMinimumSize(dim);
containerOfScrollPanel.setMaximumSize(dim);
// ------------------------------------------------------------------------
table = new EditorScrollTable();
tableModel = new OutputSpeciesResultsTableModel();
table.setModel(tableModel);
table.getSelectionModel().addListSelectionListener(eventHandler);
table.getModel().addTableModelListener(eventHandler);
DefaultTableCellRenderer rightRenderer = new DefaultTableCellRenderer();
rightRenderer.setHorizontalAlignment(JLabel.RIGHT);
int gridy = 0;
gbc = new java.awt.GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.weightx = 1.0;
gbc.weighty = 1.0;
gbc.gridwidth = 8;
gbc.fill = GridBagConstraints.BOTH;
gbc.insets = new Insets(4, 4, 4, 4);
table.setPreferredScrollableViewportSize(new Dimension(400, 200));
add(table.getEnclosingScrollPane(), gbc);
// add toolTipText for each table cell
table.addMouseMotionListener(new MouseMotionAdapter() {
public void mouseMoved(MouseEvent e) {
Point p = e.getPoint();
int row = table.rowAtPoint(p);
int column = table.columnAtPoint(p);
table.setToolTipText(String.valueOf(table.getValueAt(row, column)));
}
});
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.anchor = GridBagConstraints.LINE_END;
gbc.insets = new Insets(4, 4, 4, 4);
add(new JLabel("Search "), gbc);
textFieldSearch = new JTextField(70);
textFieldSearch.addActionListener(eventHandler);
textFieldSearch.getDocument().addDocumentListener(eventHandler);
textFieldSearch.putClientProperty("JTextField.variant", "search");
gbc = new java.awt.GridBagConstraints();
gbc.weightx = 1.0;
gbc.gridx = 1;
gbc.gridy = gridy;
gbc.gridwidth = 3;
gbc.anchor = GridBagConstraints.LINE_START;
gbc.fill = java.awt.GridBagConstraints.HORIZONTAL;
gbc.insets = new Insets(4, 0, 4, 4);
add(textFieldSearch, gbc);
gbc = new GridBagConstraints();
gbc.gridx = 4;
gbc.gridy = gridy;
gbc.fill = GridBagConstraints.HORIZONTAL;
gbc.insets = new Insets(4, 4, 4, 10);
add(totalSpeciesLabel, gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
// gbc.weightx = 1.0;
gbc.gridwidth = 8;
gbc.anchor = GridBagConstraints.LINE_END;
gbc.fill = java.awt.GridBagConstraints.BOTH;
gbc.insets = new Insets(4, 4, 4, 4);
add(containerOfScrollPanel, gbc);
gridy++;
gbc = new GridBagConstraints();
gbc.gridx = 0;
gbc.gridy = gridy;
gbc.weightx = 1.0;
gbc.gridwidth = 2;
gbc.anchor = GridBagConstraints.WEST;
gbc.fill = java.awt.GridBagConstraints.HORIZONTAL;
gbc.insets = new Insets(4, 4, 4, 4);
add(getSpeciesFileLocationPanel(), gbc);
// // button to copy to clipboard the content of the JTextField.
// // TODO: do not delete! this is how it's done
// JButton buttonCopy = new JButton("Copy");
// buttonCopy.setToolTipText("Copy to clipboard the species file path");
// buttonCopy.addActionListener(new ActionListener() {
// public void actionPerformed(ActionEvent le) {
// if(speciesFileLocationTextField.getSelectionStart() == speciesFileLocationTextField.getSelectionEnd()) {
// speciesFileLocationTextField.setSelectionStart(0);
// speciesFileLocationTextField.setSelectionEnd(speciesFileLocationTextField.getText().length());
// }
// speciesFileLocationTextField.copy();
// speciesFileLocationTextField.setSelectionStart(0);
// speciesFileLocationTextField.setSelectionEnd(0);
// }
// });
// gbc = new GridBagConstraints();
// gbc.gridx = 4;
// gbc.gridy = gridy;
// gbc.fill = java.awt.GridBagConstraints.HORIZONTAL;
// gbc.insets = new Insets(4,4,4,4);
// add(buttonCopy, gbc);
// rendering the small shapes of the flattened species in the Depiction column of this viewer table)
DefaultScrollTableCellRenderer rbmSpeciesShapeDepictionCellRenderer = new DefaultScrollTableCellRenderer() {
SpeciesPatternSmallShape spss = null;
@Override
public Component getTableCellRendererComponent(JTable table, Object value, boolean isSelected, boolean hasFocus, int row, int column) {
super.getTableCellRendererComponent(table, value, isSelected, hasFocus, row, column);
if (table.getModel() instanceof VCellSortTableModel<?>) {
Object selectedObject = null;
if (table.getModel() == tableModel) {
selectedObject = tableModel.getValueAt(row);
}
if (selectedObject != null) {
if (selectedObject instanceof GeneratedSpeciesTableRow) {
SpeciesContext sc = ((GeneratedSpeciesTableRow) selectedObject).species;
if (sc == null || sc.getSpeciesPattern() == null) {
spss = null;
} else {
SpeciesPattern sp = sc.getSpeciesPattern();
Graphics panelContext = table.getGraphics();
spss = new SpeciesPatternSmallShape(4, 2, sp, ssm, panelContext, sc, isSelected, issueManager);
}
}
} else {
spss = null;
}
}
setText("");
return this;
}
@Override
public void paintComponent(Graphics g) {
super.paintComponent(g);
if (spss != null) {
spss.paintSelf(g);
}
}
};
table.getColumnModel().getColumn(OutputSpeciesResultsTableModel.iColDepiction).setCellRenderer(rbmSpeciesShapeDepictionCellRenderer);
table.getColumnModel().getColumn(OutputSpeciesResultsTableModel.iColDepiction).setPreferredWidth(400);
table.getColumnModel().getColumn(OutputSpeciesResultsTableModel.iColDepiction).setMinWidth(400);
table.getColumnModel().getColumn(OutputSpeciesResultsTableModel.iColDefinition).setPreferredWidth(30);
table.setAutoResizeMode(JTable.AUTO_RESIZE_LAST_COLUMN);
} catch (java.lang.Throwable ivjExc) {
handleException(ivjExc);
}
}
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