com.actelion.research.orbit.imageAnalysis.components.ModelBrowser Maven / Gradle / Ivy
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Orbit, a versatile image analysis software for biological image-based quantification
/*
* Orbit, a versatile image analysis software for biological image-based quantification.
* Copyright (C) 2009 - 2017 Actelion Pharmaceuticals Ltd., Gewerbestrasse 16, CH-4123 Allschwil, Switzerland.
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* 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 modelList = OrbitModel.LoadFromOrbitUser(null);
for (ModelAnnotation modelAnnotation : modelList) {
System.out.println("model: " + modelAnnotation.getDescription() + " (" + modelAnnotation.getRawAnnotationId() + ")");
}
// display
final JDialog frame = new JDialog(owner, "Orbit Models", true);
frame.setDefaultCloseOperation(WindowConstants.DISPOSE_ON_CLOSE);
frame.setSize(1024, 800);
frame.setLayout(new BorderLayout());
frame.setModal(true);
final TableModel tableModel = new OrbitModelTableModel(modelList);
final JTable table = new JTable(tableModel);
table.setAutoCreateRowSorter(true);
table.getColumnModel().getColumn(4).setCellRenderer(tableCellRenderer);
table.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);
final JXSearchField searchFieldName = new JXSearchField("name");
final JXSearchField searchFieldElb = new JXSearchField("elb");
final JXSearchField searchFieldId = new JXSearchField("id");
searchFieldName.setRecentSearchesSaveKey("com.actelion.research.orbit.OrbitImageAnalysis.searchfield.modelBrowser.name");
searchFieldElb.setRecentSearchesSaveKey("com.actelion.research.orbit.OrbitImageAnalysis.searchfield.modelBrowser.elb");
searchFieldId.setRecentSearchesSaveKey("com.actelion.research.orbit.OrbitImageAnalysis.searchfield.modelBrowser.Id");
prepareSearchfield(searchFieldName);
prepareSearchfield(searchFieldElb);
prepareSearchfield(searchFieldId);
searchFieldName.addActionListener(new ActionListener() {
public void actionPerformed(ActionEvent e) {
System.out.println("find action name: " + searchFieldName.getText());
table.getRowSorter().allRowsChanged();
}
});
searchFieldElb.addActionListener(new ActionListener() {
public void actionPerformed(ActionEvent e) {
System.out.println("find action elb: " + searchFieldElb.getText());
table.getRowSorter().allRowsChanged();
}
});
searchFieldId.addActionListener(new ActionListener() {
public void actionPerformed(ActionEvent e) {
System.out.println("find action id: " + searchFieldId.getText());
table.getRowSorter().allRowsChanged();
}
});
searchFieldId.setInputVerifier(new IntInputVerifier(0));
final JCheckBox onlyMine = new JCheckBox("only mine", false);
onlyMine.addActionListener(new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
System.out.println("only mine: " + onlyMine.isSelected());
table.getRowSorter().allRowsChanged();
}
});
// filter
TableRowSorter sorter = new TableRowSorter<>(tableModel);
RowFilter filter = new RowFilter() {
public boolean include(Entry entry) {
String nameFilter = searchFieldName.getText();
String elbFilter = searchFieldElb.getText();
String idFilter = searchFieldId.getText();
Integer idNum = null;
try {
idNum = Integer.parseInt(idFilter);
} catch (Exception e) {
}
if (onlyMine.isSelected() && !entry.getStringValue(2).equals(username)) return false;
if (nameFilter.length() > 0 && !entry.getStringValue(0).toLowerCase().contains(nameFilter.toLowerCase()))
return false;
if (elbFilter.length() > 0 && !entry.getStringValue(1).toLowerCase().contains(elbFilter.toLowerCase()))
return false;
return !(idNum != null && idNum > 0 && idFilter.length() > 0 && !(entry.getValue(3)).equals(idNum));
}
};
sorter.setRowFilter(filter);
table.setRowSorter(sorter);
final JButton loadButton = new JButton("load");
loadButton.addActionListener(new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
if (table.getSelectedRow() >= 0) {
final ModelAnnotation annotation = (ModelAnnotation) table.getModel().getValueAt(table.convertRowIndexToModel(table.getSelectedRow()), -1);
selectedModel = annotation.getModel();
if (loadInOrbit) {
SwingUtilities.invokeLater(new Runnable() {
@Override
public void run() {
OrbitImageAnalysis.getInstance().loadModel(annotation.getModel(), getNameAndELB(annotation.getDescription())[0]);
}
});
}
frame.setVisible(false);
frame.dispose();
}
}
});
final JButton cancelButton = new JButton("cancel");
cancelButton.addActionListener(new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
frame.setVisible(false);
frame.dispose();
}
});
final JButton delButton = new JButton("delete");
delButton.addActionListener(new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
if (table.getSelectedRow() >= 0) {
final ModelAnnotation annotation = (ModelAnnotation) table.getModel().getValueAt(table.convertRowIndexToModel(table.getSelectedRow()), -1);
// security check
if ((username.equalsIgnoreCase(annotation.getUserId())) || DALConfig.getImageProvider().getAdminUsers().contains(username)) {
if (JOptionPane.showConfirmDialog(frame,
"Do you really want to delete the model '" + annotation.getDescription() + "'",
"Delete Model", JOptionPane.YES_NO_OPTION)
== JOptionPane.YES_OPTION) {
boolean deleted = false;
try {
deleted = DALConfig.getImageProvider().DeleteRawAnnotation(annotation.getRawAnnotationId());
((OrbitModelTableModel) table.getModel()).removeElement(annotation);
table.getRowSorter().allRowsChanged();
} catch (Exception e1) {
e1.printStackTrace();
}
if (deleted)
JOptionPane.showMessageDialog(frame, "Model successfully deleted.", "Success", JOptionPane.INFORMATION_MESSAGE);
else
JOptionPane.showMessageDialog(frame, "Could not delete model (see log for details).", "Failure", JOptionPane.ERROR_MESSAGE);
}
} else {
JOptionPane.showMessageDialog(frame, "Sorry, but you are not the owner of this model.", "Cannot delete model", JOptionPane.ERROR_MESSAGE);
}
}
}
});
final JButton copyButton = new JButton("copy identifier");
copyButton.addActionListener(new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
if (table.getSelectedRow() >= 0) {
ModelAnnotation annotation = (ModelAnnotation) table.getModel().getValueAt(table.convertRowIndexToModel(table.getSelectedRow()), -1);
String ident = annotation.getDescription() + " (" + annotation.getRawAnnotationId() + ")";
Transferable stringSelection = new StringSelection(ident);
Clipboard clpbrd = Toolkit.getDefaultToolkit().getSystemClipboard();
clpbrd.setContents(stringSelection, null);
JOptionPane.showMessageDialog(frame, "Model identifier copied to clipboard.", "Copied to clipboard", JOptionPane.INFORMATION_MESSAGE);
}
}
});
final JButton downloadButton = new JButton("download");
downloadButton.addActionListener(new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
if (table.getSelectedRow() >= 0) {
final ModelAnnotation annotation = (ModelAnnotation) table.getModel().getValueAt(table.convertRowIndexToModel(table.getSelectedRow()), -1);
SwingUtilities.invokeLater(new Runnable() {
@Override
public void run() {
String fn = getNameAndELB(annotation.getDescription())[0];
if (!fn.toLowerCase().endsWith(OrbitUtils.MODEL_ENDING))
fn += OrbitUtils.MODEL_ENDING;
OrbitImageAnalysis.getInstance().saveModel(annotation.getModel(), fn);
//JOptionPane.showMessageDialog(frame,"Model identifier copied to clipboard.","Copied to clipboard",JOptionPane.INFORMATION_MESSAGE);
}
});
}
}
});
JPanel topPanel = new JPanel(new BorderLayout());
JPanel searchPanel = new JPanel(new GridLayout(1, 3));
searchPanel.add(searchFieldName);
searchPanel.add(searchFieldElb);
searchPanel.add(searchFieldId);
topPanel.add(searchPanel, BorderLayout.CENTER);
topPanel.add(onlyMine, BorderLayout.EAST);
frame.add(topPanel, BorderLayout.NORTH);
frame.add(new JScrollPane(table), BorderLayout.CENTER);
JPanel leftBottomPanel = new JPanel();
leftBottomPanel.add(delButton);
leftBottomPanel.add(downloadButton);
leftBottomPanel.add(copyButton);
JPanel rightBottomPanel = new JPanel();
rightBottomPanel.add(loadButton);
rightBottomPanel.add(cancelButton);
JPanel bottomPanel = new JPanel(new BorderLayout());
bottomPanel.add(leftBottomPanel, BorderLayout.WEST);
bottomPanel.add(rightBottomPanel, BorderLayout.EAST);
frame.add(bottomPanel, BorderLayout.SOUTH);
RawUtilsCommon.centerComponent(frame);
frame.setVisible(true);
}
private void prepareSearchfield(JXSearchField searchField) {
searchField.setSearchMode(JXSearchField.SearchMode.INSTANT);
searchField.setInstantSearchDelay(250);
searchField.getRecentSearches().setMaxRecents(40);
if (OrbitUtils.DARKUI) {
searchField.setDisabledTextColor(Color.lightGray);
searchField.setUseSeperatePopupButton(false);
searchField.setLayoutStyle(JXSearchField.LayoutStyle.MAC);
searchField.getPopupButton().setIcon(new ImageIcon(this.getClass().getResource("/resource/nav_down.png")));
searchField.getPopupButton().setPressedIcon(new ImageIcon(this.getClass().getResource("/resource/nav_down.png")));
searchField.getPopupButton().setRolloverIcon(new ImageIcon(this.getClass().getResource("/resource/nav_down.png")));
searchField.getCancelButton().setIcon(new ImageIcon(this.getClass().getResource("/resource/delete2.png")));
searchField.getCancelButton().setPressedIcon(new ImageIcon(this.getClass().getResource("/resource/delete2.png")));
searchField.getCancelButton().setRolloverIcon(new ImageIcon(this.getClass().getResource("/resource/delete2.png")));
}
}
private String[] getNameAndELB(String descr) {
String name = descr;
String elb = "";
// description is in format "[ELB] name" - so we extract the elb form the name here
if (descr.contains("[") && descr.contains("]")) {
elb = descr.substring(descr.indexOf("["), descr.indexOf("]") + 1);
elb = elb.replaceAll("\\[", "").replaceAll("]", "").trim();
name = descr.replaceAll("\\[" + elb + "]", "").trim();
name = name.replaceAll("\\[", "").replaceAll("]", "").trim();
}
return new String[]{name, elb};
}
class OrbitModelTableModel extends AbstractTableModel {
private String[] columnNames = new String[]{"Name", "ELB", "User", "Id", "Date"};
private List modelAnnotations;
public OrbitModelTableModel(List modelAnnotations) {
this.modelAnnotations = modelAnnotations;
}
public int getColumnCount() {
return columnNames.length;
}
public int getRowCount() {
return modelAnnotations.size();
}
public String getColumnName(int col) {
return columnNames[col];
}
public Object getValueAt(int row, int col) {
ModelAnnotation modelAnnotation = modelAnnotations.get(row);
if (col < 0) return modelAnnotation; // <0 return the "full row"
String[] nameAndElb = getNameAndELB(modelAnnotation.getDescription());
String name = nameAndElb[0];
String elb = nameAndElb[1];
switch (col) {
case 0:
return name;
case 1:
return elb;
case 2:
return modelAnnotations.get(row).getUserId();
case 3:
return modelAnnotations.get(row).getRawAnnotationId();
case 4:
return modelAnnotations.get(row).getModifyDate();
default:
return modelAnnotations.get(row).getDescription();
}
}
public Class getColumnClass(int c) {
if (modelAnnotations.size() == 0) return String.class; // no data available
return getValueAt(0, c).getClass();
}
public void removeRow(int row) {
modelAnnotations.remove(row);
}
public void removeElement(ModelAnnotation element) {
modelAnnotations.remove(element);
}
}
protected TableCellRenderer tableCellRenderer = new DefaultTableCellRenderer() {
{
setHorizontalAlignment(JLabel.RIGHT);
}
SimpleDateFormat f = new SimpleDateFormat("HH:mm dd.MM.yyyy");
public Component getTableCellRendererComponent(JTable table,
Object value, boolean isSelected, boolean hasFocus,
int row, int column) {
if (value instanceof Date) {
value = f.format(value);
}
return super.getTableCellRendererComponent(table, value, isSelected,
hasFocus, row, column);
}
};
public OrbitModel getSelectedModel() {
return selectedModel;
}
}