X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fio%2Fgff%2FGffHelperFactoryTest.java;h=f607cd159dd9d1b9d58daf0e4d5b8fc1322efafb;hb=0ccaf35f7e6a5cc62d4f433b39d574d0aa4b2d26;hp=657b5bd35c81f649e4b33313ed919ba8ef6ed76b;hpb=8f920d337154e092f5f9056ffde3cdf2735eca43;p=jalview.git

diff --git a/test/jalview/io/gff/GffHelperFactoryTest.java b/test/jalview/io/gff/GffHelperFactoryTest.java
index 657b5bd..f607cd1 100644
--- a/test/jalview/io/gff/GffHelperFactoryTest.java
+++ b/test/jalview/io/gff/GffHelperFactoryTest.java
@@ -1,14 +1,44 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ 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.io.gff;
 
 import static org.testng.AssertJUnit.assertNull;
 import static org.testng.AssertJUnit.assertSame;
 import static org.testng.AssertJUnit.assertTrue;
 
+import jalview.gui.JvOptionPane;
+
+import org.testng.annotations.BeforeClass;
 import org.testng.annotations.Test;
 
 public class GffHelperFactoryTest
 {
 
+  @BeforeClass(alwaysRun = true)
+  public void setUpJvOptionPane()
+  {
+    JvOptionPane.setInteractiveMode(false);
+    JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
+  }
+
   @Test(groups = "Functional")
   public void testGetHelper()
   {
@@ -21,7 +51,8 @@ public class GffHelperFactoryTest
      */
     String gff = "submitted\taffine:local\tsimilarity\t20\t30\t99\t+\t.\t";
     // no attributes (column 9 data):
-    assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof Gff2Helper);
+    assertTrue(GffHelperFactory
+            .getHelper(gff.split(tabRegex)) instanceof Gff2Helper);
 
     // attributes set but unhandled featureGroup - get generic handler
     gff = "submitted\taffine:local\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
@@ -30,32 +61,40 @@ public class GffHelperFactoryTest
 
     // handled featureGroup (exonerate model) values
     gff = "submitted\texonerate:protein2dna:local\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
-    assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+    assertTrue(GffHelperFactory
+            .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
 
     gff = "submitted\tprotein2genome\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
-    assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+    assertTrue(GffHelperFactory
+            .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
 
     gff = "submitted\tcoding2coding\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
-    assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+    assertTrue(GffHelperFactory
+            .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
 
     gff = "submitted\tcoding2genome\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
-    assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+    assertTrue(GffHelperFactory
+            .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
 
     gff = "submitted\tcdna2genome\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
-    assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+    assertTrue(GffHelperFactory
+            .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
 
     gff = "submitted\tgenome2genome\tsimilarity\t20\t30\t99\t+\t.\tID=$1";
-    assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+    assertTrue(GffHelperFactory
+            .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
 
     // not case-sensitive:
     gff = "submitted\tgenome2genome\tSIMILARITY\t20\t30\t99\t+\t.\tID=$1";
-    assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
+    assertTrue(GffHelperFactory
+            .getHelper(gff.split(tabRegex)) instanceof ExonerateHelper);
 
     /*
      * InterProScan has 'protein_match' in column 3
      */
     gff = "Submitted\tPANTHER\tprotein_match\t1\t1174\t0.0\t+\t.\tName=PTHR32154";
-    assertTrue(GffHelperFactory.getHelper(gff.split(tabRegex)) instanceof InterProScanHelper);
+    assertTrue(GffHelperFactory
+            .getHelper(gff.split(tabRegex)) instanceof InterProScanHelper);
 
     /*
      * nothing specific - return the generic GFF3 class if Name=Value is present in col9