/* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7) * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle * * This file is part of Jalview. * * Jalview is free software: you can redistribute it and/or * modify it under the terms of the GNU General Public License * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. * * Jalview is distributed in the hope that it will be useful, but * WITHOUT ANY WARRANTY; without even the implied warranty * of MERCHANTABILITY or FITNESS FOR A PARTICULAR * PURPOSE. See the GNU General Public License for more details. * * You should have received a copy of the GNU General Public License along with Jalview. If not, see . */ package jalview.ws.jws2; import java.util.List; import javax.swing.JMenu; import compbio.metadata.Argument; import jalview.gui.AlignFrame; import jalview.gui.Desktop; import jalview.gui.WebserviceInfo; import jalview.gui.WsJobParameters; import jalview.ws.jws2.dm.JabaWsParamSet; import jalview.ws.jws2.jabaws2.Jws2Instance; import jalview.ws.params.WsParamSetI; /** * provides metadata for a jabaws2 service instance - resolves names, etc. * * @author JimP * */ public abstract class Jws2Client extends jalview.ws.WSClient { protected AlignFrame alignFrame; protected WsParamSetI preset; protected List paramset; public Jws2Client(AlignFrame _alignFrame, WsParamSetI preset, List arguments) { alignFrame = _alignFrame; this.preset = preset; if (preset != null) { if (!((preset instanceof JabaPreset) || preset instanceof JabaWsParamSet)) { /* * { this.preset = ((JabaPreset) preset).p; } else if (preset instanceof * JabaWsParamSet) { List newargs = new ArrayList(); * JabaWsParamSet pset = ((JabaWsParamSet) preset); for (Option opt : * pset.getjabaArguments()) { newargs.add(opt); } if (arguments != null * && arguments.size() > 0) { // merge arguments with preset's own * arguments. for (Argument opt : arguments) { newargs.add(opt); } } * paramset = newargs; } else { */ throw new Error( "Implementation error: Can only instantiate Jaba parameter sets."); } } else { // just provided with a bunch of arguments this.paramset = arguments; } } boolean processParams(Jws2Instance sh, boolean editParams) { return processParams(sh, editParams, false); } protected boolean processParams(Jws2Instance sh, boolean editParams, boolean adjustingExisting) { if (editParams) { if (sh.paramStore == null) { sh.paramStore = new JabaParamStore(sh, Desktop.getUserParameterStore()); } WsJobParameters jobParams = (preset == null && paramset != null && paramset .size() > 0) ? new WsJobParameters(null, sh, null, paramset) : new WsJobParameters(sh, preset); if (adjustingExisting) { jobParams.setName("Adjusting parameters for existing Calculation"); } if (!jobParams.showRunDialog()) { return false; } WsParamSetI prset = jobParams.getPreset(); if (prset == null) { paramset = jobParams.isServiceDefaults() ? null : JabaParamStore .getJabafromJwsArgs(jobParams.getJobParams()); this.preset = null; } else { this.preset = prset; // ((JabaPreset) prset).p; paramset = null; // no user supplied parameters. } } return true; } public Jws2Client() { // anonymous constructor - used for headless method calls only } protected WebserviceInfo setWebService(Jws2Instance serv, boolean b) { // serviceHandle = serv; String serviceInstance = serv.action; // serv.service.getClass().getName(); WebServiceName = serv.serviceType; WebServiceJobTitle = serv.getActionText(); WsURL = serv.hosturl; if (!b) { return new WebserviceInfo(WebServiceJobTitle, WebServiceJobTitle + " using service hosted at " + serv.hosturl + "\n" + (serv.description != null ? serv.description : "")); } return null; } /* * Jws2Instance serviceHandle; (non-Javadoc) * * @see jalview.ws.WSMenuEntryProviderI#attachWSMenuEntry(javax.swing.JMenu, * jalview.gui.AlignFrame) * * @Override public void attachWSMenuEntry(JMenu wsmenu, AlignFrame * alignFrame) { if (serviceHandle==null) { throw new * Error("Implementation error: No service handle for this Jws2 service."); } * attachWSMenuEntry(wsmenu, serviceHandle, alignFrame); } */ /** * add the menu item for a particular jws2 service instance * * @param wsmenu * @param service * @param alignFrame */ abstract void attachWSMenuEntry(JMenu wsmenu, final Jws2Instance service, final AlignFrame alignFrame); }