X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fanalysis%2FDnaTest.java;h=d2fa99a98609ceb3f3fd85e4a79ffe07d75d33ae;hb=136c0793b90b72b928c4d77dc109dd5c644e00d3;hp=2e21d9c0e2c2c4daee93ad176325b6a74d15b39a;hpb=fe28b89504fd1b76cc9d9631184aa6e065d7e243;p=jalview.git

diff --git a/test/jalview/analysis/DnaTest.java b/test/jalview/analysis/DnaTest.java
index 2e21d9c..d2fa99a 100644
--- a/test/jalview/analysis/DnaTest.java
+++ b/test/jalview/analysis/DnaTest.java
@@ -28,7 +28,7 @@ import jalview.api.AlignViewportI;
 import jalview.datamodel.AlignedCodon;
 import jalview.datamodel.Alignment;
 import jalview.datamodel.AlignmentI;
-import jalview.datamodel.ColumnSelection;
+import jalview.datamodel.HiddenColumns;
 import jalview.datamodel.Sequence;
 import jalview.datamodel.SequenceI;
 import jalview.gui.AlignViewport;
@@ -133,7 +133,7 @@ public class DnaTest
     AlignmentI alf = new FormatAdapter().readFile(
             JAL_1312_example_align_fasta, DataSourceType.PASTE,
             FileFormat.Fasta);
-    ColumnSelection cs = new ColumnSelection();
+    HiddenColumns cs = new HiddenColumns();
     AlignViewportI av = new AlignViewport(alf, cs);
     Dna dna = new Dna(av, new int[] { 0, alf.getWidth() - 1 });
     AlignmentI translated = dna.translateCdna();
@@ -157,7 +157,7 @@ public class DnaTest
     int vwidth = 15;
     for (int ipos = 0; ipos + vwidth < alf.getWidth(); ipos += vwidth)
     {
-      ColumnSelection cs = new ColumnSelection();
+      HiddenColumns cs = new HiddenColumns();
       if (ipos > 0)
       {
         cs.hideColumns(0, ipos - 1);
@@ -188,7 +188,7 @@ public class DnaTest
   {
     AlignmentI alf = new FormatAdapter().readFile(fasta,
             DataSourceType.PASTE, FileFormat.Fasta);
-    ColumnSelection cs = new ColumnSelection();
+    HiddenColumns cs = new HiddenColumns();
     AlignViewportI av = new AlignViewport(alf, cs);
     Dna dna = new Dna(av, new int[] { 0, alf.getWidth() - 1 });
     AlignmentI translated = dna.translateCdna();
@@ -208,7 +208,7 @@ public class DnaTest
   {
     AlignmentI alf = new FormatAdapter().readFile(fasta,
             DataSourceType.PASTE, FileFormat.Fasta);
-    ColumnSelection cs = new ColumnSelection();
+    HiddenColumns cs = new HiddenColumns();
     cs.hideColumns(6, 14); // hide codons 3/4/5
     cs.hideColumns(24, 35); // hide codons 9-12
     cs.hideColumns(177, 191); // hide codons 60-64
@@ -296,7 +296,7 @@ public class DnaTest
      */
     AlignmentI cdna = new AlignmentGenerator(true)
             .generate(12, 8, 97, 5, 5);
-    ColumnSelection cs = new ColumnSelection();
+    HiddenColumns cs = new HiddenColumns();
     AlignViewportI av = new AlignViewport(cdna, cs);
     Dna dna = new Dna(av, new int[] { 0, cdna.getWidth() - 1 });
     AlignmentI translated = dna.translateCdna();
@@ -542,7 +542,7 @@ public class DnaTest
     assertEquals(seqDs, al.getSequenceAt(0).getDatasetSequence()
             .getSequenceAsString());
 
-    ColumnSelection cs = new ColumnSelection();
+    HiddenColumns cs = new HiddenColumns();
     AlignViewportI av = new AlignViewport(al, cs);
     Dna testee = new Dna(av, new int[] { 0, al.getWidth() - 1 });
     AlignmentI reversed = testee.reverseCdna(false);