private final String getNetworkViewString(final CyNetworkView networkView) {
final ByteArrayOutputStream stream = new ByteArrayOutputStream();
CyWriter writer = cytoscapeJsWriterFactory.createWriter(stream, networkView);
String jsonString = null;
try {
writer.run(null);
jsonString = stream.toString("UTF-8");
stream.close();
} catch (Exception e) {
e.printStackTrace();
}
return jsonString;
}
protected final String getNetworkString(final CyNetwork network) {
final ByteArrayOutputStream stream = new ByteArrayOutputStream();
CyWriter writer = cytoscapeJsWriterFactory.createWriter(stream, network);
String jsonString = null;
try {
writer.run(new HeadlessTaskMonitor());
jsonString = stream.toString("UTF-8");
stream.close();
} catch (Exception e) {
throw getError(
"Could not serialize network into JSON.", e, Response.Status.PRECONDITION_FAILED);
}
return jsonString;
}
private final Response imageGenerator(
final String fileType,
PresentationWriterFactory factory,
final CyNetworkView view,
int width,
int height) {
final Collection<RenderingEngine<?>> re = renderingEngineManager.getRenderingEngines(view);
if (re.isEmpty()) {
throw new IllegalArgumentException("No rendering engine.");
}
try {
RenderingEngine<?> engine = null;
for (RenderingEngine<?> r : re) {
if (r.getRendererId().equals(DING_ID)) {
engine = r;
break;
}
}
if (engine == null) {
throw new IllegalArgumentException("Could not find Ding rendering eigine.");
}
final ByteArrayOutputStream baos = new ByteArrayOutputStream();
final CyWriter writer = factory.createWriter(baos, engine);
if (fileType.equals("png")) {
// Do some hack to set properties...
// TODO: Are there cleaner way to access these props?
final Object zl = writer.getClass().getMethod("getZoom").invoke(writer);
final BoundedDouble bound = (BoundedDouble) zl;
// System.out.println("UB = " + bound.getUpperBound());
// System.out.println("LB = " + bound.getLowerBound());
// Set large upper bound for generating large PNG.
bound.setBounds(bound.getLowerBound(), 5000.0);
writer.getClass().getMethod("setHeightInPixels", int.class).invoke(writer, height);
}
writer.run(new HeadlessTaskMonitor());
final byte[] imageData = baos.toByteArray();
return Response.ok(new ByteArrayInputStream(imageData)).build();
} catch (Exception e) {
e.printStackTrace();
throw getError("Could not create image.", e, Response.Status.INTERNAL_SERVER_ERROR);
}
}
private final String getNetworkViewsAsCX(final CyRootNetwork root) {
final CyNetworkViewWriterFactory cxWriterFactory =
viewWriterFactoryManager.getFactory(CyNetworkViewWriterFactoryManager.CX_WRITER_ID);
final ByteArrayOutputStream stream = new ByteArrayOutputStream();
CyWriter writer = cxWriterFactory.createWriter(stream, root.getSubNetworkList().get(0));
String jsonString = null;
try {
writer.run(null);
jsonString = stream.toString("UTF-8");
stream.close();
} catch (Exception e) {
throw getError(
"Failed to serialize network into CX: " + root, e, Response.Status.INTERNAL_SERVER_ERROR);
}
return jsonString;
}
