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docs(pt): update docstrings in dipole_charge.py
- Updated class docstring to follow NumPy style with comprehensive description - Enhanced __init__ method docstring with detailed parameter descriptions - Improved serialize/deserialize method docstrings - Added detailed docstring for eval_np method - Ensured all docstrings follow the project's NumPy style guidelines
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Lines changed: 114 additions & 43 deletions

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deepmd/pt/modifier/dipole_charge.py

Lines changed: 87 additions & 14 deletions
Original file line numberDiff line numberDiff line change
@@ -29,18 +29,29 @@
2929

3030
@BaseModifier.register("dipole_charge")
3131
class DipoleChargeModifier(DPModifier):
32-
"""Parameters
32+
"""Modifier for dipole-charge systems using Wannier Function Charge Centers (WFCC).
33+
34+
This modifier extends a system with Wannier Function Charge Centers (WFCC) by
35+
adding dipole vectors to atomic coordinates for selected atom types. It then
36+
calculates the electrostatic interactions using Ewald reciprocal summation
37+
to obtain energy, force, and virial corrections.
38+
39+
Parameters
3340
----------
34-
model_name
35-
The model file for the DeepDipole model
36-
model_charge_map
37-
Gives the amount of charge for the wfcc
38-
sys_charge_map
39-
Gives the amount of charge for the real atoms
40-
ewald_h
41-
Grid spacing of the reciprocal part of Ewald sum. Unit: A
42-
ewald_beta
43-
Splitting parameter of the Ewald sum. Unit: A^{-1}
41+
dp_model : DipoleModel | None
42+
The DeepDipole model to use for dipole prediction
43+
model_charge_map : List[float]
44+
The amount of charge for the WFCC for each selected atom type
45+
sys_charge_map : List[float]
46+
The amount of charge for the real atoms for each atom type
47+
ewald_h : float, optional
48+
Grid spacing of the reciprocal part of Ewald sum. Unit: Å, default is 1.0
49+
ewald_beta : float, optional
50+
Splitting parameter of the Ewald sum. Unit: Å^{-1}, default is 1.0
51+
dp_model_file_name : str | None, optional
52+
Path to the model file, by default None
53+
use_cache : bool, optional
54+
Whether to use cache for computations, by default True
4455
"""
4556

4657
def __init__(
@@ -53,7 +64,30 @@ def __init__(
5364
dp_model_file_name: str | None = None,
5465
use_cache: bool = True,
5566
) -> None:
56-
"""Constructor."""
67+
"""Initialize the DipoleChargeModifier.
68+
69+
Parameters
70+
----------
71+
dp_model : DipoleModel | None
72+
The DeepDipole model to use for dipole prediction
73+
model_charge_map : List[float]
74+
The amount of charge for the WFCC for each selected atom type
75+
sys_charge_map : List[float]
76+
The amount of charge for the real atoms for each atom type
77+
ewald_h : float, optional
78+
Grid spacing of the reciprocal part of Ewald sum. Unit: Å, default is 1.0
79+
ewald_beta : float, optional
80+
Splitting parameter of the Ewald sum. Unit: Å^{-1}, default is 1.0
81+
dp_model_file_name : str | None, optional
82+
Path to the model file, by default None
83+
use_cache : bool, optional
84+
Whether to use cache for computations, by default True
85+
86+
Raises
87+
------
88+
ValueError
89+
If model_charge_map and sel_type have mismatching lengths
90+
"""
5791
self.modifier_type = "dipole_charge"
5892
super().__init__(
5993
dp_model=dp_model,
@@ -97,12 +131,12 @@ def __init__(
97131
)
98132

99133
def serialize(self) -> dict:
100-
"""Serialize the modifier.
134+
"""Serialize the modifier to a dictionary.
101135
102136
Returns
103137
-------
104138
dict
105-
The serialized data
139+
The serialized data containing model parameters and configuration
106140
"""
107141
dd = super().serialize()
108142
dd.update(
@@ -117,6 +151,18 @@ def serialize(self) -> dict:
117151

118152
@classmethod
119153
def deserialize(cls, data: dict) -> "DipoleChargeModifier":
154+
"""Deserialize the modifier from a dictionary.
155+
156+
Parameters
157+
----------
158+
data : dict
159+
The serialized data containing model parameters and configuration
160+
161+
Returns
162+
-------
163+
DipoleChargeModifier
164+
The deserialized modifier instance
165+
"""
120166
data = data.copy()
121167
data.pop("@class", None)
122168
data.pop("type", None)
@@ -342,6 +388,7 @@ def extend_system_coord(
342388
all_coord = torch.cat((coord_reshaped, wfcc_coord), dim=1)
343389
return all_coord, dipole_reshaped
344390

391+
@torch.jit.unused
345392
def eval_np(
346393
self,
347394
coord: np.ndarray,
@@ -350,6 +397,32 @@ def eval_np(
350397
fparam: np.ndarray | None = None,
351398
aparam: np.ndarray | None = None,
352399
) -> tuple[np.ndarray, np.ndarray, np.ndarray]:
400+
"""Evaluate the modifier with NumPy input and output.
401+
402+
This method converts NumPy inputs to PyTorch tensors, evaluates the modifier,
403+
and converts the results back to NumPy arrays.
404+
405+
Parameters
406+
----------
407+
coord : np.ndarray
408+
The coordinates of atoms with shape (nframes, natoms, 3)
409+
box : np.ndarray
410+
The simulation box with shape (nframes, 3, 3)
411+
atype : np.ndarray
412+
The atom types with shape (nframes, natoms)
413+
fparam : np.ndarray | None, optional
414+
Frame parameters with shape (nframes, nfp), by default None
415+
aparam : np.ndarray | None, optional
416+
Atom parameters with shape (nframes, natoms, nap), by default None
417+
418+
Returns
419+
-------
420+
Tuple[np.ndarray, np.ndarray, np.ndarray]
421+
A tuple containing three NumPy arrays:
422+
- energy: Energy correction with shape (nframes, 1)
423+
- force: Force correction with shape (nframes, natoms, 3)
424+
- virial: Virial correction with shape (nframes, 3, 3)
425+
"""
353426
nf = coord.shape[0]
354427
na = coord.reshape(nf, -1, 3).shape[1]
355428

deepmd/pt/modifier/dp_modifier.py

Lines changed: 5 additions & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -37,7 +37,11 @@ def __init__(
3737
self._model = dp_model.to(env.DEVICE)
3838
if dp_model_file_name is not None:
3939
data = serialize_from_file(dp_model_file_name)
40-
assert data["model"]["type"] == "standard"
40+
model_type = data["model"]["type"]
41+
if model_type != "standard":
42+
raise ValueError(
43+
f"DPModifier only support standard model. Unsupported model type: {model_type}"
44+
)
4145
self._model = (
4246
BaseModel.get_class_by_type(data["model"]["fitting"]["type"])
4347
.deserialize(data["model"])

source/tests/pt/modifier/test_dipole_charge.py

Lines changed: 22 additions & 28 deletions
Original file line numberDiff line numberDiff line change
@@ -141,9 +141,9 @@ def test_dipole_consistency(self):
141141
input_coord = to_torch_tensor(coord).reshape(nframes, -1)
142142
input_atype = to_torch_tensor(atype).to(torch.long)
143143
_extended_coord, _extended_charge, atomic_dipole = self.dm_pt.extend_system(
144-
input_coord,
144+
input_coord.to(env.GLOBAL_PT_FLOAT_PRECISION),
145145
input_atype,
146-
input_box,
146+
input_box.to(env.GLOBAL_PT_FLOAT_PRECISION),
147147
None,
148148
None,
149149
)
@@ -157,34 +157,28 @@ def test_dipole_consistency(self):
157157
env.GLOBAL_PT_FLOAT_PRECISION != torch.float64, "run only for double precision"
158158
)
159159
def test_consistency(self):
160-
dtype = torch.get_default_dtype()
161-
torch.set_default_dtype(torch.float64)
162-
163-
try:
164-
coord, box, atype = ref_data()
160+
coord, box, atype = ref_data()
165161

166-
pt_data = self.dm_pt.eval_np(
167-
coord=coord,
168-
atype=atype,
169-
box=box,
170-
)
171-
tf_data = self.dm_tf.eval(
172-
coord=coord,
173-
box=box,
174-
atype=atype.reshape(-1),
162+
pt_data = self.dm_pt.eval_np(
163+
coord=coord,
164+
atype=atype,
165+
box=box,
166+
)
167+
tf_data = self.dm_tf.eval(
168+
coord=coord,
169+
box=box,
170+
atype=atype.reshape(-1),
171+
)
172+
tol = 1e-6
173+
output_names = ["energy", "force", "virial"]
174+
for ii, name in enumerate(output_names):
175+
np.testing.assert_allclose(
176+
pt_data[ii].reshape(-1),
177+
tf_data[ii].reshape(-1),
178+
atol=tol,
179+
rtol=tol,
180+
err_msg=f"Mismatch in {name}",
175181
)
176-
tol = 1e-6
177-
output_names = ["energy", "force", "virial"]
178-
for ii, name in enumerate(output_names):
179-
np.testing.assert_allclose(
180-
pt_data[ii].reshape(-1),
181-
tf_data[ii].reshape(-1),
182-
atol=tol,
183-
rtol=tol,
184-
err_msg=f"Mismatch in {name}",
185-
)
186-
finally:
187-
torch.set_default_dtype(dtype)
188182

189183
def test_serialize(self):
190184
"""Test the serialize method of DipoleChargeModifier."""

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