* server is a WSDL2Java generated stub for an archetypal MsaWSI service.
*/
ext.vamsas.MuscleWS server;
-
+ // JBPNote Nasty object-global state setting methods shouldn't be allowed
private boolean setWebService(String MsaWSName) {
if (MsaWServices.info.containsKey(MsaWSName)) {
WebServiceName = MsaWSName;
}
}
+ private boolean locateWebService() {
+ // TODO: MuscleWS transmuted to generic MsaWS client
+ MuscleWSServiceLocator loc = new MuscleWSServiceLocator(); // Default
+ try {
+ this.server = (MuscleWS) loc.getMuscleWS(new java.net.URL(WsURL));
+ ((MuscleWSSoapBindingStub) this.server).setTimeout(60000); // One minute timeout
+ }
+ catch (Exception ex) {
+ wsInfo.setProgressText("Serious! "+WebServiceName+" Service location failed\nfor URL :"
+ +WsURL+"\n"+ex.getMessage());
+ wsInfo.setStatus(wsInfo.ERROR);
+ ex.printStackTrace();
+ return false;
+ }
+ loc.getEngine().setOption("axis","1");
+ return true;
+ }
public MsaWSClient(String MsaWSName, String altitle, SequenceI[] msa, boolean submitGaps, boolean preserveOrder)
{
wsInfo = new jalview.gui.WebserviceInfo(WebServiceJobTitle, WebServiceReference);
+ if (!locateWebService())
+ return;
+
wsInfo.setProgressText(((submitGaps) ? "Re-alignment" : "Alignment")+" of "+altitle+"\nJob details\n");
- // TODO: MuscleWS transmuted to generic MsaWS client
- MuscleWSServiceLocator loc = new MuscleWSServiceLocator(); // Default
- try {
- this.server = (MuscleWS) loc.getMuscleWS(new java.net.URL(WsURL));
- ((MuscleWSSoapBindingStub) this.server).setTimeout(60000); // One minute timeout
- }
- catch (Exception ex) {
- wsInfo.setProgressText("Serious! "+WebServiceName+" Service location failed\nfor URL :"
- +WsURL+"\n"+ex.getMessage());
- wsInfo.setStatus(wsInfo.ERROR);
- ex.printStackTrace();
- }
- loc.getEngine().setOption("axis","1");
MsaWSThread musclethread = new MsaWSThread(WebServiceName+" alignment of "+altitle, msa, submitGaps, preserveOrder);
wsInfo.setthisService(musclethread);
musclethread.start();