meeko/receptor_pdbqt.py
def closest_atoms(self, atom_idx, radius, atom_properties=None):
        """Retrieve indices of the closest atoms around a positions/coordinates 
        at a certain radius.

        Args:
            atom_idx (int, list): index of one or multiple atoms (0-based)
            raidus (float): radius
            atom_properties (str or list): property of the atoms to retrieve 
                (properties: ligand, flexible_residue, vdw, hb_don, hb_acc, metal, water, reactive, glue)

        Returns:
            ndarray: 2d ndarray (atom_id, atom_name, resname, resid, chainid, xyz, q, t)

        """
        return self.closest_atoms_from_positions(self._atoms[atom_idx]['xyz'], radius, atom_properties, atom_idx)
Retrieve indices of the closest atoms around a positions/coordinates 
        at a certain radius.

        Args:
            atom_idx (int, list): index of one or multiple atoms (0-based)
            raidus (float): radius
            atom_properties (str or list): property of the atoms to retrieve 
                (properties: ligand, flexible_residue, vdw, hb_don, hb_acc, metal, water, reactive, glue)

        Returns:
            ndarray: 2d ndarray (atom_id, atom_name, resname, resid, chainid, xyz, q, t)

        
Retrieve indices of the closest atoms around a positions/coordinates
at a certain radius.
Retrieve indices of the closest atoms around a positions / coordinates at a certain radius .
def closest_atoms(self, atom_idx, radius, atom_properties=None):
        return self.closest_atoms_from_positions(self._atoms[atom_idx]['xyz'], radius, atom_properties, atom_idx)
def closest_atoms ( self , atom_idx , radius , atom_properties = None ) : return self . closest_atoms_from_positions ( self . _atoms [ atom_idx ] [ 'xyz' ] , radius , atom_properties , atom_idx )
Retrieve indices of the closest atoms around a positions/coordinates
at a certain radius.
Retrieve indices of the closest atoms around a positions / coordinates at a certain radius .
"""Retrieve indices of the closest atoms around a positions/coordinates 
        at a certain radius.

        Args:
            atom_idx (int, list): index of one or multiple atoms (0-based)
            raidus (float): radius
            atom_properties (str or list): property of the atoms to retrieve 
                (properties: ligand, flexible_residue, vdw, hb_don, hb_acc, metal, water, reactive, glue)

        Returns:
            ndarray: 2d ndarray (atom_id, atom_name, resname, resid, chainid, xyz, q, t)

        """
2d ndarray (atom_id, atom_name, resname, resid, chainid, xyz, q, t)
2d ndarray ( atom_id atom_name resname resid chainid xyz q t )
ndarray
self
atom_idx
index of one or multiple atoms (0-based)
index of one or multiple atoms ( 0 - based )
radius
atom_properties
property of the atoms to retrieve
(properties: ligand, flexible_residue, vdw, hb_don, hb_acc, metal, water, reactive, glue)
property of the atoms to retrieve ( properties : ligand flexible_residue vdw hb_don hb_acc metal water reactive glue )
raidus
None