Sets up the structure for which the coordination geometries have to be identified. The structure is analyzed
        with the space group analyzer and a refined structure is used
        :param structure: A pymatgen Structure
        :param

def setup_structure(self, structure):
        """
        Sets up the structure for which the coordination geometries have to be identified. The structure is analyzed
        with the space group analyzer and a refined structure is used
        :param structure: A pymatgen Structure
        :param
        """
        self.initial_structure = structure.copy()
        if self.structure_refinement == self.STRUCTURE_REFINEMENT_NONE:
            self.structure = structure.copy()
            self.spg_analyzer = None
            self.symmetrized_structure = None
        else:
            self.spg_analyzer = SpacegroupAnalyzer(self.initial_structure,
                                                   symprec=
                                                   self.spg_analyzer_options[
                                                       'symprec'],
                                                   angle_tolerance=
                                                   self.spg_analyzer_options[
                                                       'angle_tolerance'])
            if self.structure_refinement == self.STRUCTURE_REFINEMENT_REFINED:
                self.structure = self.spg_analyzer.get_refined_structure()
                self.symmetrized_structure = None
            elif self.structure_refinement == self.STRUCTURE_REFINEMENT_SYMMETRIZED:
                self.structure = self.spg_analyzer.get_refined_structure()
                self.spg_analyzer_refined = SpacegroupAnalyzer(self.structure,
                                                               symprec=
                                                               self.spg_analyzer_options[
                                                                   'symprec'],
                                                               angle_tolerance=
                                                               self.spg_analyzer_options
                                                               [
                                                                   'angle_tolerance'])
                self.symmetrized_structure = self.spg_analyzer_refined.get_symmetrized_structure()