test/jalview/ext/jmol/JmolCommandsTest.java

   1 package jalview.ext.jmol;
   2
   3 import jalview.datamodel.Alignment;
   4 import jalview.datamodel.AlignmentI;
   5 import jalview.datamodel.Sequence;
   6 import jalview.datamodel.SequenceI;
   7 import jalview.gui.AlignFrame;
   8 import jalview.gui.SequenceRenderer;
   9 import jalview.structure.StructureMappingcommandSet;
  10 import jalview.structure.StructureSelectionManager;
  11
  12 import org.testng.annotations.Test;
  13
  14 public class JmolCommandsTest
  15 {
  16
  17   @Test(groups = { "Functional" })
  18   public void testGetColourBySequenceCommand_noFeatures()
  19   {
  20     SequenceI seq1 = new Sequence("seq1", "MHRSQTRALK");
  21     SequenceI seq2 = new Sequence("seq2", "MRLEITQSGD");
  22     AlignmentI al = new Alignment(new SequenceI[] { seq1, seq2 });
  23     AlignFrame af = new AlignFrame(al, 800, 500);
  24     SequenceRenderer sr = new SequenceRenderer(af.getViewport());
  25     SequenceI[][] seqs = new SequenceI[][] { { seq1 }, { seq2 } };
  26     String[] files = new String[] { "seq1.pdb", "seq2.pdb" };
  27     StructureSelectionManager ssm = new StructureSelectionManager();
  28
  29     // need some mappings!
  30
  31     StructureMappingcommandSet[] commands = JmolCommands
  32             .getColourBySequenceCommand(ssm, files, seqs, sr, null, al);
  33   }
  34 }