1 package jalview.ws.jws2;
3 import javax.swing.JMenuItem;
5 import jalview.analysis.SeqsetUtils;
6 import jalview.bin.Cache;
7 import jalview.datamodel.AlignmentView;
8 import jalview.datamodel.SequenceI;
9 import jalview.gui.AlignFrame;
10 import jalview.ws.WSClient;
11 import jalview.ws.WSMenuEntryProviderI;
12 import jalview.ws.api.JPredMutlipleAlignmentServiceI;
13 import jalview.ws.api.ServiceWithParameters;
15 public class JPredClient extends WSClient
17 JPredMutlipleAlignmentServiceI server;
19 public JPredClient(ServiceWithParameters sh, String title,
20 AlignmentView alView, AlignFrame alFrame, boolean viewOnly)
22 server = (JPredMutlipleAlignmentServiceI) sh.getEndpoint();
23 wsInfo = setWebService(sh, false);
24 startClient(title, alView, alFrame, viewOnly);
27 private void startClient(String title, AlignmentView view,
28 AlignFrame frame, boolean viewOnly)
30 var msf = view.getSequences();
31 var seq = msf[0].getSeq('-');
33 throw new RuntimeException("You need more than one sequence.");
34 var aln = new SequenceI[msf.length];
35 for (int i = 0; i < msf.length; i++)
37 aln[i] = msf[i].getSeq('-');
39 int[] delMap = viewOnly ?
40 view.getVisibleContigMapFor(seq.gapMap()) : null;
41 var sequenceInfo = SeqsetUtils.uniquify(aln, true);
42 var thread = new JPredThread(wsInfo, title, server, sequenceInfo, aln,
43 delMap, view, frame, WsURL);
44 wsInfo.setthisService(thread);
45 wsInfo.setVisible(true);
49 // sh parameter should be moved to the WSMenuEntryProvider interface
50 public static WSMenuEntryProviderI getMenuEntryProvider(ServiceWithParameters sh)
52 return (menu, frame) -> {
53 final JMenuItem mi = new JMenuItem(sh.getName());
54 mi.setToolTipText(sh.getHostURL());
55 mi.addActionListener((event) -> {
56 var view = frame.gatherSeqOrMsaForSecStrPrediction();
57 if (view.getSequences().length > 1)
59 new JPredClient(sh, frame.getTitle(), view, frame, true);
63 Cache.log.error("Single sequence not supported");