X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fgui%2FAlignViewportTest.java;fp=test%2Fjalview%2Fgui%2FAlignViewportTest.java;h=5ed0cacca927f8c850da8f3c8ac609ae7992af24;hb=2d3f3c952e74f06c177dcf2df644c42de3244d0d;hp=812fd8ff5e6e63436f7994fce03ee6751e357237;hpb=517fd15cba49e7459d9b937461103d2522b927d8;p=jalview.git

diff --git a/test/jalview/gui/AlignViewportTest.java b/test/jalview/gui/AlignViewportTest.java
index 812fd8f..5ed0cac 100644
--- a/test/jalview/gui/AlignViewportTest.java
+++ b/test/jalview/gui/AlignViewportTest.java
@@ -96,57 +96,6 @@ public class AlignViewportTest
     testee = new AlignViewport(al);
   }
 
-  @Test(groups = { "Functional" })
-  public void testCollateForPdb()
-  {
-    // JBP: What behaviour is this supposed to test ?
-    /*
-     * Set up sequence pdb ids
-     */
-    PDBEntry pdb1 = new PDBEntry("1ABC", "B", Type.PDB, "1ABC.pdb");
-    PDBEntry pdb2 = new PDBEntry("2ABC", "C", Type.PDB, "2ABC.pdb");
-    PDBEntry pdb3 = new PDBEntry("3ABC", "D", Type.PDB, "3ABC.pdb");
-
-    /*
-     * seq1 and seq3 refer to 1abcB, seq2 to 2abcC, none to 3abcD
-     */
-    al.getSequenceAt(0).getDatasetSequence()
-            .addPDBId(new PDBEntry("1ABC", "B", Type.PDB, "1ABC.pdb"));
-    al.getSequenceAt(2).getDatasetSequence()
-            .addPDBId(new PDBEntry("1ABC", "B", Type.PDB, "1ABC.pdb"));
-    al.getSequenceAt(1).getDatasetSequence()
-            .addPDBId(new PDBEntry("2ABC", "C", Type.PDB, "2ABC.pdb"));
-    /*
-     * Add a second chain PDB xref to Seq2 - should not result in a duplicate in
-     * the results
-     */
-    al.getSequenceAt(1).getDatasetSequence()
-            .addPDBId(new PDBEntry("2ABC", "D", Type.PDB, "2ABC.pdb"));
-    /*
-     * Seq3 refers to 3abc - this does not match 3ABC (as the code stands)
-     */
-    al.getSequenceAt(2).getDatasetSequence()
-            .addPDBId(new PDBEntry("3abc", "D", Type.PDB, "3ABC.pdb"));
-
-    /*
-     * run method under test
-     */
-    SequenceI[][] seqs = testee.collateForPDB(new PDBEntry[] { pdb1, pdb2,
-        pdb3 });
-
-    // seq1 and seq3 refer to PDBEntry[0]
-    assertEquals(2, seqs[0].length);
-    assertSame(al.getSequenceAt(0), seqs[0][0]);
-    assertSame(al.getSequenceAt(2), seqs[0][1]);
-
-    // seq2 refers to PDBEntry[1]
-    assertEquals(1, seqs[1].length);
-    assertSame(al.getSequenceAt(1), seqs[1][0]);
-
-    // no sequence refers to PDBEntry[2]
-    assertEquals(0, seqs[2].length);
-  }
-
   /**
    * Test that a mapping is not deregistered when a second view is closed but
    * the first still holds a reference to the mapping