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

Example 61 with CyTable

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

the class VirtualColumnAdder method handleEvent.

public void handleEvent(ColumnCreatedEvent e) {
    CyTable src = e.getSource();
    List<CyTable> targets;
    synchronized (lock) {
        targets = tables.get(src);
    }
    String srcName = e.getColumnName();
    CyColumn srcCol = src.getColumn(srcName);
    for (CyTable tgt : targets) tgt.addVirtualColumn(srcName, srcName, src, CyIdentifiable.SUID, srcCol.isImmutable());
}

Example 62 with CyTable

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

the class CyTableImpl method setListX.

private final void setListX(final Object key, final String columnName, final Object value) {
    Object newValue;
    final Object rawValue;
    synchronized (lock) {
        final String normalizedColName = normalizeColumnName(columnName);
        final CyColumn column = types.get(normalizedColName);
        CyRow row = rows.get(key);
        final Class<?> type = column.getListElementType();
        if (value instanceof CyListImpl) {
            rawValue = value;
        } else if (value instanceof List) {
            final List list = (List) value;
            if (!list.isEmpty())
                checkType(list.get(0));
            List<?> listData = columnFactory.createList(type, list);
            rawValue = new CyListImpl(type, listData, eventHelper, row, column, this);
        } else if (!(value instanceof Equation)) {
            throw new IllegalArgumentException("value is a " + value.getClass().getName() + " and not a List for column '" + columnName + "'.");
        } else if (!EqnSupport.listEquationIsCompatible((Equation) value, type)) {
            throw new IllegalArgumentException("value is not a List equation of a compatible type for column '" + columnName + "'.");
        } else {
            rawValue = value;
        }
        final VirtualColumn virtColumn = virtualColumnMap.get(normalizedColName);
        if (virtColumn != null) {
            virtColumn.setValue(key, rawValue);
            newValue = virtColumn.getListValue(key);
        } else {
            ColumnData keyToValueMap = attributes.get(normalizedColName);
            // TODO this is an implicit addRow - not sure if we want to refactor this or not
            keyToValueMap.put(key, rawValue);
            if (rawValue instanceof Equation) {
                final StringBuilder errorMsg = new StringBuilder();
                newValue = EqnSupport.evalEquation((Equation) rawValue, suid, interpreter, currentlyActiveAttributes, columnName, errorMsg, this);
                lastInternalError = errorMsg.toString();
            } else {
                newValue = rawValue;
            }
        }
    }
    if (fireEvents)
        eventHelper.addEventPayload((CyTable) this, new RowSetRecord(getRow(key), columnName, newValue, rawValue), RowsSetEvent.class);
}

Example 63 with CyTable

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

the class ControlPanel method handleEvent.

@Override
public void handleEvent(RowsSetEvent e) {
    if (loadingSession)
        return;
    final CyApplicationManager appMgr = serviceRegistrar.getService(CyApplicationManager.class);
    final CyNetworkView currentView = appMgr.getCurrentNetworkView();
    if (currentView == null)
        return;
    final CyTable tbl = e.getSource();
    final CyNetworkTableManager netTblMgr = serviceRegistrar.getService(CyNetworkTableManager.class);
    final CyNetwork net = netTblMgr.getNetworkForTable(tbl);
    if (net == null || !net.equals(currentView.getModel()) || !tbl.equals(net.getDefaultNodeTable()))
        return;
    final Collection<RowSetRecord> selectedRecords = e.getColumnRecords(CyNetwork.SELECTED);
    if (!selectedRecords.isEmpty())
        updatePanels();
}

Example 64 with CyTable

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

the class FitLabelMappingGenerator method generateMap.

@Override
public <T> Map<T, V> generateMap(final Set<T> tableValues) {
    // Generate map for the current network view.
    final CyApplicationManager appMgr = servicesUtil.get(CyApplicationManager.class);
    final CyNetworkView networkView = appMgr.getCurrentNetworkView();
    // If current view is not available, simply return empty map.
    if (networkView == null)
        return Collections.emptyMap();
    // If given set is empty, return empty map.
    if (tableValues == null || tableValues.isEmpty())
        return Collections.emptyMap();
    // This only works with NAME column.
    final T testName = tableValues.iterator().next();
    if (testName instanceof String == false)
        throw new IllegalArgumentException("This generator only works with 'name' column.");
    final CyNetwork network = networkView.getModel();
    final CyTable nodeTable = networkView.getModel().getDefaultNodeTable();
    final VisualMappingManager vmMgr = servicesUtil.get(VisualMappingManager.class);
    final VisualStyle style = vmMgr.getCurrentVisualStyle();
    // Check label size mapping exists or not
    final VisualMappingFunction<?, Integer> fontSizeMapping = style.getVisualMappingFunction(BasicVisualLexicon.NODE_LABEL_FONT_SIZE);
    // Use default label width for checking.  TODO: should we use mapping?
    final Double maxLabelWidth = style.getDefaultValue(BasicVisualLexicon.NODE_LABEL_WIDTH);
    final Map<T, V> valueMap = new HashMap<T, V>();
    for (final T attrVal : tableValues) {
        final Collection<CyRow> rows = nodeTable.getMatchingRows(CyNetwork.NAME, attrVal);
        CyRow row = null;
        if (rows.isEmpty() == false)
            row = rows.iterator().next();
        else
            continue;
        final Long suid = row.get(CyIdentifiable.SUID, Long.class);
        final View<CyNode> nodeView = networkView.getNodeView(network.getNode(suid));
        if (nodeView == null)
            continue;
        final String labelText = nodeView.getVisualProperty(BasicVisualLexicon.NODE_LABEL);
        final int textLen = labelText.length();
        final int fontSize;
        if (fontSizeMapping == null)
            fontSize = style.getDefaultValue(BasicVisualLexicon.NODE_LABEL_FONT_SIZE);
        else
            fontSize = nodeView.getVisualProperty(BasicVisualLexicon.NODE_LABEL_FONT_SIZE);
        final Double width = fontSize * textLen * 0.7;
        if (maxLabelWidth > width)
            valueMap.put(attrVal, (V) width);
        else
            valueMap.put(attrVal, (V) maxLabelWidth);
    }
    return valueMap;
}

Example 65 with CyTable

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

the class C2CEditor method setValue.

@Override
@SuppressWarnings("unchecked")
public void setValue(final Object value) {
    if (value instanceof ContinuousMapping == false)
        throw new IllegalArgumentException("Value should be ContinuousMapping: this is " + value);
    final CyApplicationManager appMgr = servicesUtil.get(CyApplicationManager.class);
    final CyNetwork currentNetwork = appMgr.getCurrentNetwork();
    if (currentNetwork == null)
        return;
    mapping = (ContinuousMapping<K, V>) value;
    Class<? extends CyIdentifiable> type = (Class<? extends CyIdentifiable>) mapping.getVisualProperty().getTargetDataType();
    final CyNetworkTableManager netTblMgr = servicesUtil.get(CyNetworkTableManager.class);
    final CyTable attr = netTblMgr.getTable(appMgr.getCurrentNetwork(), type, CyNetwork.DEFAULT_ATTRS);
    final VisualMappingManager vmMgr = servicesUtil.get(VisualMappingManager.class);
    editorPanel = new C2CMappingEditorPanel<K, V>(vmMgr.getCurrentVisualStyle(), mapping, attr, servicesUtil);
}