Fixed error when calling _matchResidue(). OpenMM now uses compiled.* functions

pdbfixer/pdbfixer.py

@@ -35,6 +35,7 @@ __version__ = "1.5"
 import simtk.openmm as mm
 import simtk.openmm as mm
 import simtk.openmm.app as app
 import simtk.openmm.app as app
 import simtk.unit as unit
 import simtk.unit as unit
+from simtk.openmm.app.internal import compiled
 from simtk.openmm.app.internal.pdbstructure import PdbStructure
 from simtk.openmm.app.internal.pdbstructure import PdbStructure
 from simtk.openmm.app.internal.pdbx.reader.PdbxReader import PdbxReader
 from simtk.openmm.app.internal.pdbx.reader.PdbxReader import PdbxReader
 from simtk.openmm.app.element import hydrogen, oxygen
 from simtk.openmm.app.element import hydrogen, oxygen
@@ -1131,7 +1132,7 @@ class PDBFixer(object):
 
 
             signature = app.forcefield._createResidueSignature([atom.element for atom in residue.atoms()])
             signature = app.forcefield._createResidueSignature([atom.element for atom in residue.atoms()])
             if signature in forcefield._templateSignatures:
             if signature in forcefield._templateSignatures:
-                if any(app.forcefield._matchResidue(residue, t, bondedToAtom) is not None for t in forcefield._templateSignatures[signature]):
+                if any(compiled.matchResidueToTemplate(residue, t, bondedToAtom, False) is not None for t in forcefield._templateSignatures[signature]):
                     continue
                     continue
 
 
             # Create a new template.
             # Create a new template.