Generate 2D coordinates with CDK via an XMPP service.js

// connect to the XMPP hive
xmpp.connect();
 
// we are going to call the generate2Dcoordinates function of the descriptor service
service = xmpp.getService("cdk.ws1.bmc.uu.se");
service.discoverSync(5000);
service.getFunctions();
f = service.getFunction("generate2Dcoordinates");
 
// we use Bioclipse to create a CML document, starting from a SMILES
smiles = "COC";
mol = cdk.fromSMILES(smiles)
js.clear()
js.print("Molecule SMILES: " + smiles + "\n");
result = f.invokeSync(mol.getCML(), 900000);
cmlReturned = xmpp.toString(result);
 
// convert the returned CML into CMLXOM and extract the value
mol2d = cdk.fromCml(cmlReturned);
ui.open(mol2d)