JAL-1780 JAL-653 Format/AppletFormat import and export pipeline regularised, uses...

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

diff --git a/test/jalview/io/PhylipFileTests.java b/test/jalview/io/PhylipFileTests.java
index e411272..d6f28fa 100644 (file)
--- a/test/jalview/io/PhylipFileTests.java
+++ b/test/jalview/io/PhylipFileTests.java
@@ -2,7 +2,7 @@ package jalview.io;
 
 import static org.junit.Assert.assertNotNull;
 import static org.junit.Assert.assertTrue;
-import jalview.datamodel.Alignment;
+import jalview.datamodel.AlignmentI;
 import jalview.datamodel.SequenceI;
 
 import java.io.IOException;
@@ -105,7 +105,7 @@ 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);
 
@@ -150,13 +150,13 @@ 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);