/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
*/
package jalview.ws.jabaws;
-import static org.junit.Assert.*;
+import static org.junit.Assert.assertNotNull;
+import static org.junit.Assert.assertTrue;
+import static org.junit.Assert.fail;
import java.awt.Component;
import java.util.ArrayList;
-import java.util.Arrays;
import java.util.List;
-import java.util.Vector;
import javax.swing.JMenu;
import javax.swing.JMenuItem;
-import jalview.api.AlignCalcManagerI;
-import jalview.datamodel.AlignmentAnnotation;
+import org.junit.AfterClass;
+import org.junit.BeforeClass;
+import org.junit.Test;
+
+import compbio.metadata.WrongParameterException;
+
import jalview.datamodel.AlignmentI;
-import jalview.datamodel.Annotation;
import jalview.gui.Jalview2XML;
import jalview.io.AnnotationFile;
import jalview.io.FormatAdapter;
import jalview.io.StockholmFileTest;
-import jalview.ws.jws2.AADisorderClient;
import jalview.ws.jws2.Jws2Discoverer;
import jalview.ws.jws2.RNAalifoldClient;
import jalview.ws.jws2.SequenceAnnotationWSClient;
-import jalview.ws.jws2.dm.JabaOption;
import jalview.ws.jws2.jabaws2.Jws2Instance;
import jalview.ws.params.AutoCalcSetting;
-import org.junit.AfterClass;
-import org.junit.BeforeClass;
-import org.junit.Test;
-
-import compbio.metadata.WrongParameterException;
-
public class RNAStructExportImport
{
public static String testseqs = "examples/unfolded_RF00031.aln";
System.out.println("State of rnaalifoldws: " + rnaalifoldws);
if (rnaalifoldws == null)
- System.exit(0);
+ {
+ fail("no web service");
+ }
jalview.io.FileLoader fl = new jalview.io.FileLoader(false);
// write out parameters
jalview.gui.AlignFrame nalf = null;
assertTrue("Couldn't write out the Jar file",
- new Jalview2XML(false).SaveAlignment(af,
+ new Jalview2XML(false).saveAlignment(af,
"testRnalifold_param.jar", "trial parameter writeout"));
assertTrue("Couldn't read back the Jar file", (nalf = new Jalview2XML(
- false).LoadJalviewAlign("testRnalifold_param.jar")) != null);
+ false).loadJalviewAlign("testRnalifold_param.jar")) != null);
if (nalf != null)
{
AutoCalcSetting acs = af.getViewport().getCalcIdSettingsFor(