import warnings
import numpy as np
from typing import Tuple, List
from deepmd.env import tf
from deepmd.common import add_data_requirement, get_activation_func, get_precision, cast_precision
from deepmd.utils.network import one_layer, one_layer_rand_seed_shift
from deepmd.utils.graph import get_fitting_net_variables_from_graph_def
from deepmd.descriptor import DescrptSeA
from deepmd.fit.fitting import Fitting
from deepmd.env import global_cvt_2_tf_float
from deepmd.env import GLOBAL_TF_FLOAT_PRECISION
[docs]class DipoleFittingSeA (Fitting) :
"""
Fit the atomic dipole with descriptor se_a
Parameters
----------
descrpt : tf.Tensor
The descrptor
neuron : List[int]
Number of neurons in each hidden layer of the fitting net
resnet_dt : bool
Time-step `dt` in the resnet construction:
y = x + dt * \phi (Wx + b)
sel_type : List[int]
The atom types selected to have an atomic dipole prediction. If is None, all atoms are selected.
seed : int
Random seed for initializing the network parameters.
activation_function : str
The activation function in the embedding net. Supported options are |ACTIVATION_FN|
precision : str
The precision of the embedding net parameters. Supported options are |PRECISION|
uniform_seed
Only for the purpose of backward compatibility, retrieves the old behavior of using the random seed
"""
def __init__ (self,
descrpt : tf.Tensor,
neuron : List[int] = [120,120,120],
resnet_dt : bool = True,
sel_type : List[int] = None,
seed : int = None,
activation_function : str = 'tanh',
precision : str = 'default',
uniform_seed: bool = False
) -> None:
"""
Constructor
"""
if not isinstance(descrpt, DescrptSeA) :
raise RuntimeError('DipoleFittingSeA only supports DescrptSeA')
self.ntypes = descrpt.get_ntypes()
self.dim_descrpt = descrpt.get_dim_out()
# args = ClassArg()\
# .add('neuron', list, default = [120,120,120], alias = 'n_neuron')\
# .add('resnet_dt', bool, default = True)\
# .add('sel_type', [list,int], default = [ii for ii in range(self.ntypes)], alias = 'dipole_type')\
# .add('seed', int)\
# .add("activation_function", str, default = "tanh")\
# .add('precision', str, default = "default")
# class_data = args.parse(jdata)
self.n_neuron = neuron
self.resnet_dt = resnet_dt
self.sel_type = sel_type
if self.sel_type is None:
self.sel_type = [ii for ii in range(self.ntypes)]
self.seed = seed
self.uniform_seed = uniform_seed
self.seed_shift = one_layer_rand_seed_shift()
self.fitting_activation_fn = get_activation_func(activation_function)
self.fitting_precision = get_precision(precision)
self.dim_rot_mat_1 = descrpt.get_dim_rot_mat_1()
self.dim_rot_mat = self.dim_rot_mat_1 * 3
self.useBN = False
self.fitting_net_variables = None
self.mixed_prec = None
[docs] def get_sel_type(self) -> int:
"""
Get selected type
"""
return self.sel_type
[docs] def get_out_size(self) -> int:
"""
Get the output size. Should be 3
"""
return 3
[docs] @cast_precision
def build (self,
input_d : tf.Tensor,
rot_mat : tf.Tensor,
natoms : tf.Tensor,
reuse : bool = None,
suffix : str = '') -> tf.Tensor:
"""
Build the computational graph for fitting net
Parameters
----------
input_d
The input descriptor
rot_mat
The rotation matrix from the descriptor.
natoms
The number of atoms. This tensor has the length of Ntypes + 2
natoms[0]: number of local atoms
natoms[1]: total number of atoms held by this processor
natoms[i]: 2 <= i < Ntypes+2, number of type i atoms
reuse
The weights in the networks should be reused when get the variable.
suffix
Name suffix to identify this descriptor
Returns
-------
dipole
The atomic dipole.
"""
start_index = 0
inputs = tf.reshape(input_d, [-1, natoms[0], self.dim_descrpt])
rot_mat = tf.reshape(rot_mat, [-1, natoms[0], self.dim_rot_mat])
count = 0
outs_list = []
for type_i in range(self.ntypes):
# cut-out inputs
inputs_i = tf.slice (inputs,
[ 0, start_index, 0],
[-1, natoms[2+type_i], -1] )
inputs_i = tf.reshape(inputs_i, [-1, self.dim_descrpt])
rot_mat_i = tf.slice (rot_mat,
[ 0, start_index, 0],
[-1, natoms[2+type_i], -1] )
rot_mat_i = tf.reshape(rot_mat_i, [-1, self.dim_rot_mat_1, 3])
start_index += natoms[2+type_i]
if not type_i in self.sel_type :
continue
layer = inputs_i
for ii in range(0,len(self.n_neuron)) :
if ii >= 1 and self.n_neuron[ii] == self.n_neuron[ii-1] :
layer+= one_layer(layer, self.n_neuron[ii], name='layer_'+str(ii)+'_type_'+str(type_i)+suffix, reuse=reuse, seed = self.seed, use_timestep = self.resnet_dt, activation_fn = self.fitting_activation_fn, precision = self.fitting_precision, uniform_seed = self.uniform_seed, initial_variables = self.fitting_net_variables, mixed_prec = self.mixed_prec)
else :
layer = one_layer(layer, self.n_neuron[ii], name='layer_'+str(ii)+'_type_'+str(type_i)+suffix, reuse=reuse, seed = self.seed, activation_fn = self.fitting_activation_fn, precision = self.fitting_precision, uniform_seed = self.uniform_seed, initial_variables = self.fitting_net_variables, mixed_prec = self.mixed_prec)
if (not self.uniform_seed) and (self.seed is not None): self.seed += self.seed_shift
# (nframes x natoms) x naxis
final_layer = one_layer(layer, self.dim_rot_mat_1, activation_fn = None, name='final_layer_type_'+str(type_i)+suffix, reuse=reuse, seed = self.seed, precision = self.fitting_precision, uniform_seed = self.uniform_seed, initial_variables = self.fitting_net_variables, mixed_prec = self.mixed_prec, final_layer = True)
if (not self.uniform_seed) and (self.seed is not None): self.seed += self.seed_shift
# (nframes x natoms) x 1 * naxis
final_layer = tf.reshape(final_layer, [tf.shape(inputs)[0] * natoms[2+type_i], 1, self.dim_rot_mat_1])
# (nframes x natoms) x 1 x 3(coord)
final_layer = tf.matmul(final_layer, rot_mat_i)
# nframes x natoms x 3
final_layer = tf.reshape(final_layer, [tf.shape(inputs)[0], natoms[2+type_i], 3])
# concat the results
outs_list.append(final_layer)
count += 1
outs = tf.concat(outs_list, axis = 1)
tf.summary.histogram('fitting_net_output', outs)
return tf.reshape(outs, [-1])
# return tf.reshape(outs, [tf.shape(inputs)[0] * natoms[0] * 3 // 3])
[docs] def init_variables(self,
graph: tf.Graph,
graph_def: tf.GraphDef,
suffix : str = "",
) -> None:
"""
Init the fitting net variables with the given dict
Parameters
----------
graph : tf.Graph
The input frozen model graph
graph_def : tf.GraphDef
The input frozen model graph_def
suffix : str
suffix to name scope
"""
self.fitting_net_variables = get_fitting_net_variables_from_graph_def(graph_def)
[docs] def enable_mixed_precision(self, mixed_prec : dict = None) -> None:
"""
Reveive the mixed precision setting.
Parameters
----------
mixed_prec
The mixed precision setting used in the embedding net
"""
self.mixed_prec = mixed_prec
self.fitting_precision = get_precision(mixed_prec['output_prec'])