Rotate specific sites by some angle around vector at anchor.

        Args:
            indices (list): List of site indices on which to perform the
                translation.
            theta (float): Angle in radians
            axis (3x1 array): Rotation axis vector.
            anchor (3x1 array): Point of rotation.
            to_unit_cell (bool): Whether new sites are transformed to unit
                cell

def rotate_sites(self, indices=None, theta=0, axis=None, anchor=None,
                     to_unit_cell=True):
        """
        Rotate specific sites by some angle around vector at anchor.

        Args:
            indices (list): List of site indices on which to perform the
                translation.
            theta (float): Angle in radians
            axis (3x1 array): Rotation axis vector.
            anchor (3x1 array): Point of rotation.
            to_unit_cell (bool): Whether new sites are transformed to unit
                cell
        """

        from numpy.linalg import norm
        from numpy import cross, eye
        from scipy.linalg import expm

        if indices is None:
            indices = range(len(self))

        if axis is None:
            axis = [0, 0, 1]

        if anchor is None:
            anchor = [0, 0, 0]

        anchor = np.array(anchor)
        axis = np.array(axis)

        theta %= 2 * np.pi

        rm = expm(cross(eye(3), axis / norm(axis)) * theta)
        for i in indices:
            site = self._sites[i]
            coords = ((np.dot(rm, np.array(site.coords - anchor).T)).T + anchor).ravel()
            new_site = PeriodicSite(
                site.species, coords, self._lattice,
                to_unit_cell=to_unit_cell, coords_are_cartesian=True,
                properties=site.properties)
            self._sites[i] = new_site