import jalview.api.SequenceRenderer;
import jalview.datamodel.Alignment;
import jalview.datamodel.AlignmentI;
-import jalview.datamodel.HiddenColumns;
import jalview.datamodel.PDBEntry;
import jalview.datamodel.PDBEntry.Type;
import jalview.datamodel.Sequence;
import jalview.datamodel.SequenceI;
import jalview.gui.JvOptionPane;
+import jalview.gui.StructureViewer.ViewerType;
import jalview.io.DataSourceType;
import jalview.io.FileFormats;
import jalview.structure.AtomSpec;
+import jalview.structure.StructureCommandsI.SuperposeData;
import jalview.structure.StructureSelectionManager;
-import jalview.structures.models.AAStructureBindingModel.SuperposeData;
import java.io.IOException;
import java.util.Arrays;
}
@Override
- public String superposeStructures(AlignmentI[] alignments,
- int[] structureIndices, HiddenColumns[] hiddenCols)
- {
- return null;
- }
-
- @Override
public void highlightAtoms(List<AtomSpec> atoms)
{
}
{
return 0;
}
+
+ @Override
+ protected ViewerType getViewerType()
+ {
+ return null;
+ }
};
String[][] chains = binder.getChains();
assertFalse(chains == null || chains[0] == null,
}
@Override
- public String superposeStructures(AlignmentI[] als, int[] alm,
- HiddenColumns[] alc)
- {
- return null;
- }
-
- @Override
public SequenceRenderer getSequenceRenderer(
AlignmentViewPanel alignment)
{
{
return 0;
}
+
+ @Override
+ protected ViewerType getViewerType()
+ {
+ return null;
+ }
};
}
SuperposeData[] structs = new SuperposeData[testee.getStructureFiles().length];
for (int i = 0; i < structs.length; i++)
{
- structs[i] = testee.new SuperposeData(al.getWidth());
+ structs[i] = new SuperposeData(al.getWidth(), 0);
}
/*
* initialise BitSet of 'superposable columns' to true (would be false for
SuperposeData[] structs = new SuperposeData[al.getHeight()];
for (int i = 0; i < structs.length; i++)
{
- structs[i] = testee.new SuperposeData(al.getWidth());
+ structs[i] = new SuperposeData(al.getWidth(), 0);
}
/*
* initialise BitSet of 'superposable columns' to true (would be false for
assertFalse(matched.get(4)); // superposable, but hidden, column
assertTrue(matched.get(5));
}
-}
+}
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