Examples with CyApplicationManager org.cytoscape.application.CyApplicationManager used on opensource projects

Example 61 with CyApplicationManager

use of org.cytoscape.application.CyApplicationManager in project cytoscape-impl by cytoscape.

the class FileUtilImpl method getFolder.

@Override
public File getFolder(Component parent, String title, String startDir) {
    if (parent == null)
        throw new NullPointerException("\"parent\" must not be null.");
    final CyApplicationManager applicationManager = serviceRegistrar.getService(CyApplicationManager.class);
    final String osName = System.getProperty("os.name");
    if (osName.startsWith("Mac")) {
        final String property = System.getProperty("apple.awt.fileDialogForDirectories");
        System.setProperty("apple.awt.fileDialogForDirectories", "true");
        try {
            FileDialog chooser;
            if (parent instanceof Dialog)
                chooser = new FileDialog((Dialog) parent, title, FileDialog.LOAD);
            else if (parent instanceof Frame)
                chooser = new FileDialog((Frame) parent, title, FileDialog.LOAD);
            else
                throw new IllegalArgumentException("parent must be Dialog or Frame");
            if (startDir != null)
                chooser.setDirectory(startDir);
            else
                chooser.setDirectory(applicationManager.getCurrentDirectory().getAbsolutePath());
            chooser.setModal(true);
            chooser.setLocationRelativeTo(parent);
            chooser.setVisible(true);
            String file = chooser.getFile();
            String dir = chooser.getDirectory();
            if (file == null || dir == null) {
                return null;
            }
            return new File(dir + File.separator + file);
        } finally {
            if (property != null) {
                System.setProperty("apple.awt.fileDialogForDirectories", property);
            }
        }
    } else {
        // this is not a Mac, use the Swing based file dialog
        final JFileChooser chooser;
        if (startDir != null)
            chooser = new JFileChooser(new File(startDir));
        else
            chooser = new JFileChooser(applicationManager.getCurrentDirectory());
        chooser.setDialogTitle(title);
        chooser.setFileSelectionMode(JFileChooser.DIRECTORIES_ONLY);
        chooser.setAcceptAllFileFilterUsed(false);
        File result = null;
        if (chooser.showOpenDialog(parent) == JFileChooser.APPROVE_OPTION) {
            result = chooser.getSelectedFile();
        }
        if (result != null && chooser.getCurrentDirectory().getPath() != null)
            applicationManager.setCurrentDirectory(chooser.getCurrentDirectory());
        return result;
    }
}

Example 62 with CyApplicationManager

use of org.cytoscape.application.CyApplicationManager in project cytoscape-impl by cytoscape.

the class FileUtilImpl method getFiles.

@Override
public File[] getFiles(final Component parent, final String title, final int loadSaveCustom, String startDir, final String customApproveText, final boolean multiselect, final Collection<FileChooserFilter> filters) {
    if (parent == null)
        throw new NullPointerException("\"parent\" must not be null.");
    final String osName = System.getProperty("os.name");
    final CyApplicationManager applicationManager = serviceRegistrar.getService(CyApplicationManager.class);
    if (osName.startsWith("Mac")) {
        // This is a Macintosh, use the AWT style file dialog
        final String fileDialogForDirectories = System.getProperty("apple.awt.fileDialogForDirectories");
        System.setProperty("apple.awt.fileDialogForDirectories", "false");
        try {
            final FileDialog chooser;
            if (parent instanceof Frame)
                chooser = new FileDialog((Frame) parent, title, loadSaveCustom);
            else if (parent instanceof Dialog)
                chooser = new FileDialog((Dialog) parent, title, loadSaveCustom);
            else if (parent instanceof JMenuItem) {
                JComponent jcomponent = (JComponent) ((JPopupMenu) parent.getParent()).getInvoker();
                chooser = new FileDialog((Frame) jcomponent.getTopLevelAncestor(), title, loadSaveCustom);
            } else {
                throw new IllegalArgumentException("Cannot (not implemented yet) create a dialog " + "own by a parent component of type: " + parent.getClass().getCanonicalName());
            }
            if (startDir != null)
                chooser.setDirectory(startDir);
            else
                chooser.setDirectory(applicationManager.getCurrentDirectory().getAbsolutePath());
            chooser.setModal(true);
            chooser.setFilenameFilter(new CombinedFilenameFilter(filters));
            chooser.setLocationRelativeTo(parent);
            chooser.setMultipleMode(multiselect);
            chooser.setVisible(true);
            if (chooser.getFile() != null) {
                final File[] results;
                if (loadSaveCustom == SAVE) {
                    String newFileName = chooser.getFile();
                    final String fileNameWithExt = addFileExt(filters, newFileName);
                    if (!fileNameWithExt.equals(newFileName)) {
                        final File file = new File(chooser.getDirectory() + File.separator + fileNameWithExt);
                        if (file.exists()) {
                            int answer = JOptionPane.showConfirmDialog(parent, "The file '" + file.getName() + "' already exists. Are you sure you want to overwrite it?", "File exists", JOptionPane.YES_NO_OPTION, JOptionPane.WARNING_MESSAGE);
                            if (// Try again
                            answer == JOptionPane.NO_OPTION)
                                return getFiles(parent, title, loadSaveCustom, file.getParent(), customApproveText, multiselect, filters);
                        }
                        newFileName = fileNameWithExt;
                    }
                    results = new File[1];
                    results[0] = new File(chooser.getDirectory() + File.separator + newFileName);
                } else
                    results = chooser.getFiles();
                if (chooser.getDirectory() != null)
                    applicationManager.setCurrentDirectory(new File(chooser.getDirectory()));
                return results;
            }
        } finally {
            if (fileDialogForDirectories != null)
                System.setProperty("apple.awt.fileDialogForDirectories", fileDialogForDirectories);
        }
        return null;
    } else {
        // this is not a Mac, use the Swing based file dialog
        final JFileChooser chooser;
        if (startDir != null)
            chooser = new JFileChooser(new File(startDir));
        else
            chooser = new JFileChooser(applicationManager.getCurrentDirectory());
        // set multiple selection, if applicable
        chooser.setMultiSelectionEnabled(multiselect);
        // set the dialog title
        chooser.setDialogTitle(title);
        chooser.setAcceptAllFileFilterUsed(loadSaveCustom == LOAD);
        int i = 0;
        FileChooserFilter defaultFilter = null;
        for (final FileChooserFilter filter : filters) {
            // do it now!
            if (++i == filters.size() && defaultFilter == null)
                defaultFilter = filter;
            else // with "All ", make it the default.
            if (defaultFilter == null && filter.getDescription().startsWith("All "))
                defaultFilter = filter;
            chooser.addChoosableFileFilter(filter);
        }
        File[] results = null;
        File tmp = null;
        // set the dialog type
        if (loadSaveCustom == LOAD) {
            if (chooser.showOpenDialog(parent) == JFileChooser.APPROVE_OPTION) {
                if (multiselect)
                    results = chooser.getSelectedFiles();
                else if ((tmp = chooser.getSelectedFile()) != null) {
                    results = new File[1];
                    results[0] = tmp;
                }
                if (filters != null && !filters.isEmpty()) {
                    boolean extensionFound = false;
                    for (int k = 0; k < results.length; ++k) {
                        String path = results[k].getPath();
                        for (final FileChooserFilter filter : filters) {
                            String[] filterExtensions = filter.getExtensions();
                            for (int t = 0; t < filterExtensions.length; ++t) {
                                if (filterExtensions[t].equals("") || path.endsWith("." + filterExtensions[t]))
                                    extensionFound = true;
                            }
                        }
                        if (!extensionFound) {
                            JOptionPane.showMessageDialog(chooser, "Cytoscape does not recognize files with suffix '" + path.substring(path.lastIndexOf(".")) + "' . Please choose another file.", "File extension incorrect", JOptionPane.WARNING_MESSAGE);
                            return null;
                        }
                        extensionFound = false;
                    }
                }
            }
        } else if (loadSaveCustom == SAVE) {
            if (chooser.showSaveDialog(parent) == JFileChooser.APPROVE_OPTION) {
                if (multiselect) {
                    results = chooser.getSelectedFiles();
                } else if ((tmp = chooser.getSelectedFile()) != null) {
                    results = new File[1];
                    results[0] = tmp;
                }
                // not, so we need to do so ourselves:
                for (int k = 0; k < results.length; ++k) {
                    File file = results[k];
                    final String filePath = file.getAbsolutePath();
                    final String filePathWithExt = addFileExt(filters, filePath);
                    // Add an extension to the filename, if necessary and possible
                    if (!filePathWithExt.equals(filePath)) {
                        file = new File(filePathWithExt);
                        results[k] = file;
                    }
                    if (file.exists()) {
                        int answer = JOptionPane.showConfirmDialog(chooser, "The file '" + file.getName() + "' already exists. Are you sure you want to overwrite it?", "File exists", JOptionPane.YES_NO_OPTION, JOptionPane.WARNING_MESSAGE);
                        if (// Try again
                        answer == JOptionPane.NO_OPTION)
                            return getFiles(parent, title, loadSaveCustom, file.getParent(), customApproveText, multiselect, filters);
                    }
                }
            }
        } else {
            if (chooser.showDialog(parent, customApproveText) == JFileChooser.APPROVE_OPTION) {
                if (multiselect)
                    results = chooser.getSelectedFiles();
                else if ((tmp = chooser.getSelectedFile()) != null) {
                    results = new File[1];
                    results[0] = tmp;
                }
            }
        }
        if (results != null && chooser.getCurrentDirectory().getPath() != null)
            applicationManager.setCurrentDirectory(chooser.getCurrentDirectory());
        return results;
    }
}

Example 63 with CyApplicationManager

use of org.cytoscape.application.CyApplicationManager in project cytoscape-impl by cytoscape.

the class NetworkViewMediator method findStylesWithMappedColumn.

private Set<VisualStyle> findStylesWithMappedColumn(final String columnName) {
    final Set<VisualStyle> styles = new HashSet<>();
    if (columnName != null) {
        final CyApplicationManager appMgr = serviceRegistrar.getService(CyApplicationManager.class);
        final RenderingEngineManager engineMgr = serviceRegistrar.getService(RenderingEngineManager.class);
        final RenderingEngine<CyNetwork> renderer = appMgr.getCurrentRenderingEngine();
        final VisualLexicon lexicon = renderer != null ? renderer.getVisualLexicon() : engineMgr.getDefaultVisualLexicon();
        final Set<VisualProperty<?>> properties = lexicon.getAllVisualProperties();
        final VisualMappingManager vmm = serviceRegistrar.getService(VisualMappingManager.class);
        for (final VisualStyle vs : vmm.getAllVisualStyles()) {
            for (final VisualProperty<?> vp : properties) {
                // Check VisualMappingFunction
                final VisualMappingFunction<?, ?> fn = vs.getVisualMappingFunction(vp);
                if (fn != null && fn.getMappingColumnName().equalsIgnoreCase(columnName)) {
                    styles.add(vs);
                    break;
                }
                // Check MappableVisualPropertyValue
                final Object defValue = vs.getDefaultValue(vp);
                if (defValue instanceof MappableVisualPropertyValue) {
                    ((MappableVisualPropertyValue) defValue).update();
                    styles.add(vs);
                    break;
                }
            }
        }
    }
    return styles;
}

Example 64 with CyApplicationManager

use of org.cytoscape.application.CyApplicationManager in project cytoscape-impl by cytoscape.

the class NetworkViewMediator method handleEvent.

// // Event Handlers ////
@Override
public void handleEvent(SetCurrentNetworkViewEvent e) {
    if (loadingSession)
        return;
    final CyNetworkView view = e.getNetworkView();
    final CyApplicationManager appMgr = serviceRegistrar.getService(CyApplicationManager.class);
    final RenderingEngine<CyNetwork> currentEngine = appMgr.getCurrentRenderingEngine();
    // Set current RenderingEngine
    if (view != null) {
        final CyNetworkViewManager netViewMgr = serviceRegistrar.getService(CyNetworkViewManager.class);
        if (netViewMgr.getNetworkViewSet().contains(view)) {
            if (currentEngine == null || currentEngine.getViewModel() != view)
                appMgr.setCurrentRenderingEngine(presentationMap.get(view));
        }
    } else if (view == null && currentEngine != null) {
        appMgr.setCurrentRenderingEngine(null);
    }
}

Example 65 with CyApplicationManager

use of org.cytoscape.application.CyApplicationManager in project cytoscape-impl by cytoscape.

the class NetworkViewMediator method render.

/**
 * Create a visualization container and add presentation to it.
 */
private final void render(final CyNetworkView view) {
    invokeOnEDT(() -> {
        // If already registered in this manager, do not render.
        if (getNetworkViewMainPanel().isRendered(view))
            return;
        NetworkViewRenderer renderer = null;
        final String rendererId = view.getRendererId();
        final CyApplicationManager appMgr = serviceRegistrar.getService(CyApplicationManager.class);
        if (rendererId != null)
            renderer = appMgr.getNetworkViewRenderer(rendererId);
        if (renderer == null)
            renderer = appMgr.getDefaultNetworkViewRenderer();
        final RenderingEngineFactory<CyNetwork> engineFactory = renderer.getRenderingEngineFactory(NetworkViewRenderer.DEFAULT_CONTEXT);
        final RenderingEngineFactory<CyNetwork> thumbnailFactory = renderer.getRenderingEngineFactory(NetworkViewRenderer.THUMBNAIL_CONTEXT);
        final RenderingEngine<CyNetwork> renderingEngine = getNetworkViewMainPanel().addNetworkView(view, engineFactory, thumbnailFactory);
        presentationMap.put(view, renderingEngine);
        final boolean isCurrentView = view.equals(appMgr.getCurrentNetworkView());
        new Thread(() -> {
            serviceRegistrar.getService(RenderingEngineManager.class).addRenderingEngine(renderingEngine);
            if (isCurrentView)
                appMgr.setCurrentRenderingEngine(renderingEngine);
        }).start();
    });
}