meeko/setup.py
def add_pseudo(self, coord, charge, anchor_list, atom_type, bond_type, rotatable, pdbinfo=None, directional_vectors=None, ignore=False):
        """ add data about pseudoatom
            multiple bonds can be specified in "anchor_list" to support the centroids of aromatic rings

            if rotatable, makes the anchor atom rotatable to allow the pseudoatom movement
        """
        idx = self.atom_true_count + len(self.atom_pseudo) + 1
        self.atom_pseudo.append(idx)
        self.coord[idx] = coord
        self.charge[idx] = charge
        self.pdbinfo[idx] = pdbinfo
        self.atom_type[idx] = atom_type
        self.graph[idx] = []
        self.element[idx] = 0
        for anchor in anchor_list:
            self.add_bond(idx, anchor, 0, rotatable, bond_type=bond_type)
        if not directional_vectors is None:
            self.add_interaction_vector(idx, directional_vectors)
        self.set_ignore(idx, ignore)
        return idx
 add data about pseudoatom
            multiple bonds can be specified in "anchor_list" to support the centroids of aromatic rings

            if rotatable, makes the anchor atom rotatable to allow the pseudoatom movement
        
add data about pseudoatom
multiple bonds can be specified in "anchor_list" to support the centroids of aromatic rings

if rotatable, makes the anchor atom rotatable to allow the pseudoatom movement
add data about pseudoatom multiple bonds can be specified in " anchor_list " to support the centroids of aromatic rings if rotatable makes the anchor atom rotatable to allow the pseudoatom movement
def add_pseudo(self, coord, charge, anchor_list, atom_type, bond_type, rotatable, pdbinfo=None, directional_vectors=None, ignore=False):
        idx = self.atom_true_count + len(self.atom_pseudo) + 1
        self.atom_pseudo.append(idx)
        self.coord[idx] = coord
        self.charge[idx] = charge
        self.pdbinfo[idx] = pdbinfo
        self.atom_type[idx] = atom_type
        self.graph[idx] = []
        self.element[idx] = 0
        for anchor in anchor_list:
            self.add_bond(idx, anchor, 0, rotatable, bond_type=bond_type)
        if not directional_vectors is None:
            self.add_interaction_vector(idx, directional_vectors)
        self.set_ignore(idx, ignore)
        return idx
def add_pseudo ( self , coord , charge , anchor_list , atom_type , bond_type , rotatable , pdbinfo = None , directional_vectors = None , ignore = False ) : idx = self . atom_true_count + len ( self . atom_pseudo ) + 1 self . atom_pseudo . append ( idx ) self . coord [ idx ] = coord self . charge [ idx ] = charge self . pdbinfo [ idx ] = pdbinfo self . atom_type [ idx ] = atom_type self . graph [ idx ] = [ ] self . element [ idx ] = 0 for anchor in anchor_list : self . add_bond ( idx , anchor , 0 , rotatable , bond_type = bond_type ) if not directional_vectors is None : self . add_interaction_vector ( idx , directional_vectors ) self . set_ignore ( idx , ignore ) return idx
add data about pseudoatom
multiple bonds can be specified in "anchor_list" to support the centroids of aromatic rings
add data about pseudoatom multiple bonds can be specified in " anchor_list " to support the centroids of aromatic rings
""" add data about pseudoatom
            multiple bonds can be specified in "anchor_list" to support the centroids of aromatic rings

            if rotatable, makes the anchor atom rotatable to allow the pseudoatom movement
        """
self
coord
charge
anchor_list
atom_type
bond_type
rotatable
pdbinfo
directional_vectors
ignore