Merge branch 'develop' into bug/JAL-2255_seq-fetcher-broken-on-linux

[jalview.git] / test / jalview / io / TCoffeeScoreFileTest.java

diff --git a/test/jalview/io/TCoffeeScoreFileTest.java b/test/jalview/io/TCoffeeScoreFileTest.java
index 181aabd..38c9a89 100644 (file)
--- a/test/jalview/io/TCoffeeScoreFileTest.java
+++ b/test/jalview/io/TCoffeeScoreFileTest.java
@@ -20,6 +20,7 @@
  */
 package jalview.io;
 
+import jalview.gui.JvOptionPane;
 import jalview.io.TCoffeeScoreFile.Block;
 import jalview.io.TCoffeeScoreFile.Header;
 
@@ -29,11 +30,19 @@ import java.io.IOException;
 import java.util.List;
 
 import org.testng.AssertJUnit;
+import org.testng.annotations.BeforeClass;
 import org.testng.annotations.Test;
 
 public class TCoffeeScoreFileTest
 {
 
+  @BeforeClass(alwaysRun = true)
+  public void setUpJvOptionPane()
+  {
+    JvOptionPane.setInteractiveMode(false);
+    JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
+  }
+
   final static File SCORE_FILE = new File(
           "test/jalview/io/tcoffee.score_ascii");
 
@@ -45,7 +54,7 @@ public class TCoffeeScoreFileTest
   {
 
     TCoffeeScoreFile scoreFile = new TCoffeeScoreFile(SCORE_FILE.getPath(),
-            AppletFormatAdapter.FILE);
+            DataSourceType.FILE);
     AssertJUnit.assertTrue(scoreFile.getWarningMessage(),
             scoreFile.isValid());
 
@@ -73,7 +82,7 @@ public class TCoffeeScoreFileTest
     try
     {
       TCoffeeScoreFile result = new TCoffeeScoreFile(ALIGN_FILE.getPath(),
-              FormatAdapter.FILE);
+              DataSourceType.FILE);
       AssertJUnit.assertFalse(result.isValid());
     } catch (IOException x)
     {
@@ -86,7 +95,7 @@ public class TCoffeeScoreFileTest
   public void testHeightAndWidth() throws IOException
   {
     TCoffeeScoreFile result = new TCoffeeScoreFile(SCORE_FILE.getPath(),
-            FormatAdapter.FILE);
+            DataSourceType.FILE);
     AssertJUnit.assertTrue(result.isValid());
     AssertJUnit.assertEquals(8, result.getHeight());
     AssertJUnit.assertEquals(83, result.getWidth());
@@ -107,7 +116,7 @@ public class TCoffeeScoreFileTest
             + "1QCF   99999999999999999999999999974-------2---------24\n"
             + "cons   999999999999999999999999999851000110321100001134\n"
             + "\n" + "\n";
-    FileParse source = new FileParse(BLOCK, FormatAdapter.PASTE);
+    FileParse source = new FileParse(BLOCK, DataSourceType.PASTE);
     Block block = TCoffeeScoreFile.readBlock(source, 0);
 
     AssertJUnit.assertNotNull(block);
@@ -145,7 +154,7 @@ public class TCoffeeScoreFileTest
   {
 
     TCoffeeScoreFile parser = new TCoffeeScoreFile(SCORE_FILE.getPath(),
-            FormatAdapter.FILE);
+            DataSourceType.FILE);
 
     AssertJUnit
             .assertEquals(
@@ -190,7 +199,7 @@ public class TCoffeeScoreFileTest
   {
 
     TCoffeeScoreFile parser = new TCoffeeScoreFile(SCORE_FILE.getPath(),
-            FormatAdapter.FILE);
+            DataSourceType.FILE);
     AssertJUnit.assertTrue(parser.getWarningMessage(), parser.isValid());
     List<String> scores = parser.getScoresList();
     AssertJUnit
@@ -237,7 +246,7 @@ public class TCoffeeScoreFileTest
   {
 
     TCoffeeScoreFile parser = new TCoffeeScoreFile(SCORE_FILE.getPath(),
-            FormatAdapter.FILE);
+            DataSourceType.FILE);
     AssertJUnit.assertTrue(parser.getWarningMessage(), parser.isValid());
     byte[][] scores = parser.getScoresArray();
 
@@ -267,7 +276,7 @@ public class TCoffeeScoreFileTest
   public void testHeightAndWidthWithResidueNumbers() throws Exception
   {
     String file = "test/jalview/io/tcoffee.score_ascii_with_residue_numbers";
-    TCoffeeScoreFile result = new TCoffeeScoreFile(file, FormatAdapter.FILE);
+    TCoffeeScoreFile result = new TCoffeeScoreFile(file, DataSourceType.FILE);
     AssertJUnit.assertTrue(result.isValid());
     AssertJUnit.assertEquals(5, result.getHeight());
     AssertJUnit.assertEquals(84, result.getWidth());