+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
+ * Copyright (C) 2014 The Jalview Authors
+ *
+ * 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 <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
package jalview.ws.jws2.jabaws2;
import jalview.gui.AlignFrame;
import jalview.gui.Desktop;
+import jalview.util.MessageManager;
import jalview.ws.jws2.JabaParamStore;
import jalview.ws.jws2.MsaWSClient;
import jalview.ws.jws2.SequenceAnnotationWSClient;
import compbio.data.msa.SequenceAnnotation;
import compbio.metadata.PresetManager;
import compbio.metadata.RunnerConfig;
-import compbio.ws.client.Jws2Client;
-import compbio.ws.client.Services;
public class Jws2Instance
{
public String hosturl;
public String serviceType;
+
public String action;
+
public JABAService service;
+
public String description;
- public Jws2Instance(String hosturl, String serviceType, String action, String description,
- JABAService service)
+ public String docUrl;
+
+ /**
+ *
+ * @param hosturl
+ * Service endpoint
+ * @param serviceType
+ * Category for this service's analysis
+ * @param action
+ * text describing their action that service performs (eg 'aligning',
+ * 'analysing')
+ * @param description
+ * Description from JABAWS registry
+ * @param service
+ * JABAWS registry ID for service
+ */
+ public Jws2Instance(String hosturl, String serviceType, String action,
+ String description, JABAService service)
{
super();
this.hosturl = hosturl;
this.serviceType = serviceType;
this.service = service;
- this.action=action;
+ this.action = action;
this.description = description;
-
+ int p = description.indexOf("MORE INFORMATION:");
+ if (p > -1)
+ {
+ docUrl = description.substring(description.indexOf("http", p)).trim();
+ if (docUrl.indexOf('\n') > -1)
+ {
+ docUrl = docUrl.substring(0, docUrl.indexOf("\n")).trim();
+ }
+
+ }
}
PresetManager presets = null;
*/
public String getActionText()
{
- return action+" with " + serviceType;
+ return action + " with " + serviceType;
}
/**
{
return ((SequenceAnnotation) service).getRunnerOptions();
}
- throw new Error("Implementation Error: Runner Config not available for a JABAWS service of type "+serviceType+" ("+service.getClass()+")");
+ throw new Error(MessageManager.formatMessage("error.implementation_error_runner_config_not_available", new String[]{serviceType,service.getClass().toString()}));
}
@Override
: null));
} catch (Exception ex)
{
+ System.err.println("Unexpected exception creating JabaParamStore.");
+ ex.printStackTrace();
}
}
if (service instanceof MsaWS<?>)
{
new MsaWSClient().attachWSMenuEntry(atpoint, this, alignFrame);
- } else
- if (service instanceof SequenceAnnotation<?>){
- new SequenceAnnotationWSClient().attachWSMenuEntry(atpoint, this, alignFrame);
}
+ else if (service instanceof SequenceAnnotation<?>)
+ {
+ new SequenceAnnotationWSClient().attachWSMenuEntry(atpoint, this,
+ alignFrame);
+ }
+ }
+
+ public String getServiceTypeURI()
+ {
+ return "java:" + serviceType;
+ }
+
+ jalview.ws.uimodel.AlignAnalysisUIText aaui;
+
+ public jalview.ws.uimodel.AlignAnalysisUIText getAlignAnalysisUI()
+ {
+ return aaui;
}
-}
\ No newline at end of file
+}