Examples with CyTable org.cytoscape.model.CyTable used on opensource projects

Example 26 with CyTable

use of org.cytoscape.model.CyTable in project cytoscape-impl by cytoscape.

the class AbstractTableBrowser method handleEvent.

@Override
public void handleEvent(SessionAboutToBeSavedEvent e) {
    Map<CyTable, BrowserTable> browserTables = getAllBrowserTablesMap();
    List<TableColumnStat> tableColumnStatList = new ArrayList<>();
    for (CyTable table : browserTables.keySet()) {
        TableColumnStat tcs = new TableColumnStat(table.getTitle());
        BrowserTable browserTable = browserTables.get(table);
        BrowserTableModel model = (BrowserTableModel) browserTable.getModel();
        BrowserTableColumnModel colM = (BrowserTableColumnModel) browserTable.getColumnModel();
        List<String> visAttrs = browserTable.getVisibleAttributeNames();
        colM.setAllColumnsVisible();
        Collection<String> attrs = model.getAllAttributeNames();
        for (String name : attrs) {
            int viewIndex = browserTable.convertColumnIndexToView(model.mapColumnNameToColumnIndex(name));
            tcs.addColumnStat(name, viewIndex, visAttrs.contains(name));
        }
        browserTable.setVisibleAttributeNames(visAttrs);
        tableColumnStatList.add(tcs);
    }
    TableColumnStatFileIO.write(tableColumnStatList, e, appFileName);
}

Example 27 with CyTable

use of org.cytoscape.model.CyTable in project cytoscape-impl by cytoscape.

the class GlobalTableBrowser method actionPerformed.

@Override
public void actionPerformed(final ActionEvent e) {
    final CyTable table = (CyTable) tableChooser.getSelectedItem();
    if (table == currentTable || table == null)
        return;
    currentTable = table;
    serviceRegistrar.getService(CyApplicationManager.class).setCurrentTable(table);
    showSelectedTable();
}

Example 28 with CyTable

use of org.cytoscape.model.CyTable in project cytoscape-impl by cytoscape.

the class GlobalTableBrowser method handleEvent.

/**
 * Switch to new table when it is registered to the table manager.
 *
 * Note: This combo box only displays Global Table.
 */
@Override
public void handleEvent(TableAddedEvent e) {
    final CyTable newTable = e.getTable();
    if (newTable.isPublic() || showPrivateTables()) {
        final CyTableManager tableManager = serviceRegistrar.getService(CyTableManager.class);
        if (tableManager.getGlobalTables().contains(newTable)) {
            final GlobalTableComboBoxModel comboBoxModel = (GlobalTableComboBoxModel) tableChooser.getModel();
            comboBoxModel.addAndSetSelectedItem(newTable);
            getToolBar().updateEnableState(tableChooser);
        }
        if (tableChooser.getItemCount() == 1) {
            invokeOnEDT(() -> {
                serviceRegistrar.registerService(GlobalTableBrowser.this, CytoPanelComponent.class, new Properties());
            });
        }
    }
}

Example 29 with CyTable

use of org.cytoscape.model.CyTable in project cytoscape-impl by cytoscape.

the class ClearErrorsEdit method run.

@Override
public void run(final TaskMonitor tm) throws Exception {
    final CyTable table = column.getTable();
    final EquationCompiler compiler = serviceRegistrar.getService(EquationCompiler.class);
    final List<ErrorEquation> errorEquations = new ArrayList<>();
    for (CyRow row : table.getAllRows()) {
        if (cancelled)
            return;
        final Object raw = row.getRaw(column.getName());
        if (raw instanceof Equation) {
            final Equation eq = (Equation) raw;
            final boolean success = compiler.compile(eq.toString(), TableBrowserUtil.getAttNameToTypeMap(table, null));
            // TODO: success is incorrectly set to yes on broken equations [=ABS(String)]
            if (!success || row.get(column.getName(), column.getType()) == null)
                errorEquations.add(new ErrorEquation(row, column.getName(), eq));
        }
    }
    for (ErrorEquation err : errorEquations) {
        if (cancelled) {
            restoreDeletedEquations();
            return;
        }
        deletedEquations.add(err);
        err.clear();
    }
    if (!deletedEquations.isEmpty()) {
        final UndoSupport undoSupport = serviceRegistrar.getService(UndoSupport.class);
        undoSupport.postEdit(new ClearErrorsEdit(column.getName(), deletedEquations));
    }
}

Example 30 with CyTable

use of org.cytoscape.model.CyTable in project cytoscape-impl by cytoscape.

the class ClearAllErrorsTaskFactory method isReady.

@Override
public boolean isReady(final CyColumn column) {
    final CyTable table = column.getTable();
    final EquationCompiler compiler = serviceRegistrar.getService(EquationCompiler.class);
    for (CyRow row : table.getAllRows()) {
        final Object raw = row.getRaw(column.getName());
        if (raw instanceof Equation) {
            final Equation eq = (Equation) raw;
            final boolean success = compiler.compile(eq.toString(), TableBrowserUtil.getAttNameToTypeMap(table, null));
            // TODO: success is incorrectly set to yes on broken equations [=ABS(String)]
            if (!success || row.get(column.getName(), column.getType()) == null)
                return true;
        }
    }
    return false;
}