JAL-1782 JAL-1780 JAL-653 JAL-1892 update patched refactored test suite with TestNG

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

diff --git a/test/jalview/io/PhylipFileTests.java b/test/jalview/io/PhylipFileTests.java
index 9db4763..d335731 100644 (file)
--- a/test/jalview/io/PhylipFileTests.java
+++ b/test/jalview/io/PhylipFileTests.java
@@ -3,7 +3,7 @@ package jalview.io;
 import static org.testng.AssertJUnit.assertNotNull;
 import static org.testng.AssertJUnit.assertTrue;
 
-import jalview.datamodel.Alignment;
+import jalview.datamodel.AlignmentI;
 import jalview.datamodel.SequenceI;
 
 import java.io.IOException;
@@ -106,7 +106,7 @@ public class PhylipFileTests
   private void testDataExtraction(String file) throws IOException
   {
     AppletFormatAdapter rf = new AppletFormatAdapter();
-    Alignment al = rf.readFile(file, AppletFormatAdapter.FILE,
+    AlignmentI al = rf.readFile(file, AppletFormatAdapter.FILE,
             PhylipFile.FILE_DESC);
     assertNotNull("Couldn't read supplied alignment data.", al);
 
@@ -151,13 +151,13 @@ public class PhylipFileTests
   public void testIO(String file) throws IOException
   {
     AppletFormatAdapter rf = new AppletFormatAdapter();
-    Alignment al = rf.readFile(file, AppletFormatAdapter.FILE,
+    AlignmentI al = rf.readFile(file, AppletFormatAdapter.FILE,
             PhylipFile.FILE_DESC);
     assertNotNull("Couldn't read supplied alignment data.", al);
 
     String outputfile = rf.formatSequences(PhylipFile.FILE_DESC, al, true);
 
-    Alignment al_input = new AppletFormatAdapter().readFile(outputfile,
+    AlignmentI al_input = new AppletFormatAdapter().readFile(outputfile,
             AppletFormatAdapter.PASTE, PhylipFile.FILE_DESC);
     assertNotNull("Couldn't parse reimported alignment data.", al_input);