X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fstructure%2FStructureSelectionManagerTest.java;fp=test%2Fjalview%2Fstructure%2FStructureSelectionManagerTest.java;h=5ca2cb13e8ac74be53fcf6d82ccc38890c9564ac;hb=304e64fb34b32659be1bbfd39fb4e15b2f79586e;hp=044cbc7385059a5e8e55c35fe461ddb6b38cc49b;hpb=cfb79b69d9fa44595560659bd95d1d1cd27677ad;p=jalview.git

diff --git a/test/jalview/structure/StructureSelectionManagerTest.java b/test/jalview/structure/StructureSelectionManagerTest.java
index 044cbc7..5ca2cb1 100644
--- a/test/jalview/structure/StructureSelectionManagerTest.java
+++ b/test/jalview/structure/StructureSelectionManagerTest.java
@@ -125,10 +125,10 @@ public class StructureSelectionManagerTest extends Jalview2xmlBase
     acf3.addMap(new Sequence("s3", "ttt"), new Sequence("p3", "p"),
             new MapList(new int[] { 1, 3 }, new int[] { 1, 1 }, 1, 1));
 
-    List<AlignedCodonFrame> set1 = new ArrayList<AlignedCodonFrame>();
+    List<AlignedCodonFrame> set1 = new ArrayList<>();
     set1.add(acf1);
     set1.add(acf2);
-    List<AlignedCodonFrame> set2 = new ArrayList<AlignedCodonFrame>();
+    List<AlignedCodonFrame> set2 = new ArrayList<>();
     set2.add(acf2);
     set2.add(acf3);
 
@@ -220,7 +220,7 @@ public class StructureSelectionManagerTest extends Jalview2xmlBase
     assertEquals(1, pmap.getSeqs().size());
     assertEquals("4IM2|A", pmap.getSeqs().get(0).getName());
 
-    List<int[]> structuremap1 = new ArrayList(
+    List<int[]> structuremap1 = new ArrayList<>(
             sm.getMapping(P4IM2_MISSING)[0]
                     .getPDBResNumRanges(seq.getStart(), seq.getEnd()));
 
@@ -315,8 +315,7 @@ public class StructureSelectionManagerTest extends Jalview2xmlBase
     // positional mapping to atoms for color by structure is still wrong, even
     // though panel looks correct.
 
-    StructureMappingcommandSet smcr[] = JmolCommands
-            .getColourBySequenceCommand(apssm,
+    String[] smcr = new JmolCommands().colourBySequence(apssm,
             new String[]
             { pdbe.getFile() },
             new SequenceI[][]
@@ -324,12 +323,10 @@ public class StructureSelectionManagerTest extends Jalview2xmlBase
                     new SequenceRenderer(alf.alignPanel.getAlignViewport()),
                     alf.alignPanel);
     // Expected - all residues are white
-    for (StructureMappingcommandSet smm : smcr)
+    for (String c : smcr)
     {
-      for (String c : smm.commands)
-      {
-        System.out.println(c);
-      }
+      assertTrue(c.contains("color[255,255,255]"));
+      System.out.println(c);
     }
   }