"""
Amide
=====
"""
from __future__ import annotations
import typing
from stk._internal.atom import Atom
from stk._internal.elements import C, H, N, O
from .generic_functional_group import GenericFunctionalGroup
[docs]
class Amide(GenericFunctionalGroup):
"""
Represents an amide functional group.
The structure of the functional group is given by the pseudo-SMILES
``[atom][carbon](=[oxygen])[nitrogen]([hydrogen1])[hydrogen2]``.
"""
def __init__(
self,
carbon: C,
oxygen: O, # noqa: Not an ambiguous name.
nitrogen: N,
hydrogen1: H,
hydrogen2: H,
atom: Atom,
bonders: tuple[Atom, ...],
deleters: tuple[Atom, ...],
placers: typing.Optional[tuple[Atom, ...]] = None,
) -> None:
"""
Initialize a :class:`.Amide` instance.
Parameters:
carbon:
The ``[carbon]`` atom.
oxygen:
The ``[oxygen]`` atom.
nitrogen:
The ``[nitrogen]`` atom.
hydrogen1:
The ``[hydrogen1]`` atom.
hydrogen2:
The ``[hydrogen2]`` atom.
atom:
The ``[atom]`` atom.
bonders:
The bonder atoms.
deleters:
The deleter atoms.
placers:
The placer atoms. If ``None`` the `bonders` will be
used.
"""
self._carbon = carbon
self._oxygen = oxygen
self._nitrogen = nitrogen
self._hydrogen1 = hydrogen1
self._hydrogen2 = hydrogen2
self._atom = atom
atoms = (carbon, oxygen, nitrogen, hydrogen1, hydrogen2, atom)
super().__init__(
atoms=atoms,
bonders=bonders,
deleters=deleters,
placers=bonders if placers is None else placers,
)
[docs]
def get_carbon(self) -> C:
"""
Get the ``[carbon]`` atom.
Returns:
The ``[carbon]`` atom.
"""
return self._carbon
[docs]
def get_oxygen(self) -> O: # noqa: Not an ambiguous name.
"""
Get the ``[oxygen]`` atom.
Returns:
The ``[oxygen]`` atom.
"""
return self._oxygen
[docs]
def get_nitrogen(self) -> N:
"""
Get the ``[nitrogen]`` atom.
Returns:
The ``[nitrogen]`` atom.
"""
return self._nitrogen
[docs]
def get_hydrogen1(self) -> H:
"""
Get the ``[hydrogen1]`` atom.
Returns:
The ``[hydrogen1]`` atom.
"""
return self._hydrogen1
[docs]
def get_hydrogen2(self) -> H:
"""
Get the ``[hydrogen2]`` atom.
Returns:
The ``[hydrogen2]`` atom.
"""
return self._hydrogen2
[docs]
def get_atom(self) -> Atom:
"""
Get the ``[atom]`` atom.
Returns:
The ``[atom]`` atom.
"""
return self._atom
[docs]
def clone(self) -> Amide:
clone = super()._clone()
clone._carbon = self._carbon
clone._oxygen = self._oxygen
clone._nitrogen = self._nitrogen
clone._hydrogen1 = self._hydrogen1
clone._hydrogen2 = self._hydrogen2
clone._atom = self._atom
return clone
def _with_ids(
self,
id_map: dict[int, int],
) -> Amide:
super()._with_ids(id_map)
if (carbon_id := self._carbon.get_id()) in id_map:
self._carbon = self._carbon.with_id(id_map[carbon_id])
if (oxygen_id := self._oxygen.get_id()) in id_map:
self._oxygen = self._oxygen.with_id(id_map[oxygen_id])
if (nitrogen_id := self._nitrogen.get_id()) in id_map:
self._nitrogen = self._nitrogen.with_id(
id=id_map[nitrogen_id],
)
if (hydrogen1_id := self._hydrogen1.get_id()) in id_map:
self._hydrogen1 = self._hydrogen1.with_id(
id=id_map[hydrogen1_id],
)
if (hydrogen2_id := self._hydrogen2.get_id()) in id_map:
self._hydrogen2 = self._hydrogen2.with_id(
id=id_map[hydrogen2_id],
)
if (atom_id := self._atom.get_id()) in id_map:
self._atom = self._atom.with_id(id_map[atom_id])
return self
[docs]
def with_ids(
self,
id_map: dict[int, int],
) -> Amide:
return self.clone()._with_ids(id_map)
def __repr__(self) -> str:
return (
f"{self.__class__.__name__}("
f"{self._carbon}, {self._oxygen}, {self._nitrogen}, "
f"{self._hydrogen1}, {self._hydrogen2}, {self._atom}, "
f"bonders={self._bonders}, deleters={self._deleters})"
)