JAL-3949 - refactor logging from jalview.bin.Cache to jalview.bin.Console

[jalview.git] / test / jalview / ws / rest / ShmmrRSBSService.java

diff --git a/test/jalview/ws/rest/ShmmrRSBSService.java b/test/jalview/ws/rest/ShmmrRSBSService.java
index 7a56045..a9668a9 100644 (file)
--- a/test/jalview/ws/rest/ShmmrRSBSService.java
+++ b/test/jalview/ws/rest/ShmmrRSBSService.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1)
- * 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.
  * 
@@ -20,25 +20,16 @@
  */
 package jalview.ws.rest;
 
-import static org.junit.Assert.*;
+import static org.testng.AssertJUnit.assertNotNull;
+import static org.testng.AssertJUnit.assertTrue;
 
-import java.io.BufferedReader;
-import java.io.IOException;
-import java.util.ArrayList;
-import java.util.Hashtable;
-import java.util.List;
-import java.util.Map;
-
-import jalview.datamodel.AlignmentI;
-import jalview.datamodel.AlignmentView;
 import jalview.gui.AlignFrame;
-import jalview.io.FileParse;
-import jalview.ws.rest.InputType;
-import jalview.ws.rest.params.SeqGroupIndexVector;
+import jalview.gui.JvOptionPane;
 
-import org.junit.AfterClass;
-import org.junit.BeforeClass;
-import org.junit.Test;
+import java.util.Map;
+
+import org.testng.annotations.BeforeClass;
+import org.testng.annotations.Test;
 
 /**
  * @author jimp
@@ -47,21 +38,14 @@ import org.junit.Test;
 public class ShmmrRSBSService
 {
 
-  @Test
-  public void testSeparatorListToArrayForRestServiceDescriptions()
+  @BeforeClass(alwaysRun = true)
+  public void setUpJvOptionPane()
   {
-    assertTrue(
-            "separatorListToArray is faulty.",
-            RestServiceDescription.separatorListToArray(
-                    "foo=',',min='foo',max='1,2,3',fa=','", ",").length == 4);
-    assertTrue("separatorListToArray is faulty.",
-            RestServiceDescription.separatorListToArray(
-                    "minsize='2', sep=','", ",").length != 2); // probably
-                                                               // should come as
-                                                               // 2
+    JvOptionPane.setInteractiveMode(false);
+    JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
   }
 
-  @Test
+  @Test(groups = { "Functional" })
   public void testShmmrService()
   {
 
@@ -71,17 +55,17 @@ public class ShmmrRSBSService
                     RestClient.makeShmmrRestClient().service));
   }
 
-  @Test
+  @Test(groups = { "Functional" })
   public void testShmmrServiceDataprep() throws Exception
   {
     RestClient _rc = RestClient.makeShmmrRestClient();
     assertNotNull(_rc);
     AlignFrame alf = new jalview.io.FileLoader(false)
             .LoadFileWaitTillLoaded("examples/testdata/smad.fa",
-                    jalview.io.FormatAdapter.FILE);
+                    jalview.io.DataSourceType.FILE);
     assertNotNull("Couldn't find test data.", alf);
     alf.loadJalviewDataFile("examples/testdata/smad_groups.jva",
-            jalview.io.FormatAdapter.FILE, null, null);
+            jalview.io.DataSourceType.FILE, null, null);
     assertTrue(
             "Couldn't load the test data's annotation file (should be 5 groups but found "
                     + alf.getViewport().getAlignment().getGroups().size()
@@ -91,7 +75,7 @@ public class ShmmrRSBSService
     RestClient rc = new RestClient(_rc.service, alf, true);
 
     assertNotNull("Couldn't creat RestClient job.", rc);
-    jalview.bin.Cache.initLogger();
+    jalview.bin.Console.initLogger();
     RestJob rjb = new RestJob(0, new RestJobThread(rc),
             rc.av.getAlignment(), null);
     rjb.setAlignmentForInputs(rc.service.getInputParams().values(),