add code to compute statistics

This commit is contained in:
chenfeiyu 2021-06-16 16:18:13 +00:00
parent 27d3585606
commit 58a988c789
4 changed files with 130 additions and 1 deletions

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@ -0,0 +1,114 @@
# Copyright (c) 2021 PaddlePaddle Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Calculate statistics of feature files."""
import argparse
import logging
import os
import numpy as np
import yaml
import json
from sklearn.preprocessing import StandardScaler
from tqdm import tqdm
from parakeet.datasets.data_table import DataTable
from parakeet.utils.h5_utils import read_hdf5
from parakeet.utils.h5_utils import write_hdf5
from config import get_cfg_default
def main():
"""Run preprocessing process."""
parser = argparse.ArgumentParser(
description="Compute mean and variance of dumped raw features.")
parser.add_argument(
"--metadata",
default=None,
type=str,
help="json file with id and file paths ")
parser.add_argument(
"--field-name",
default=None,
type=str,
help="json file with id and file paths ")
parser.add_argument(
"--config", type=str, help="yaml format configuration file.")
parser.add_argument(
"--dumpdir",
default=None,
type=str,
help="directory to save statistics. if not provided, "
"stats will be saved in the above root directory. (default=None)")
parser.add_argument(
"--verbose",
type=int,
default=1,
help="logging level. higher is more logging. (default=1)")
args = parser.parse_args()
# set logger
if args.verbose > 1:
logging.basicConfig(
level=logging.DEBUG,
format="%(asctime)s (%(module)s:%(lineno)d) %(levelname)s: %(message)s"
)
elif args.verbose > 0:
logging.basicConfig(
level=logging.INFO,
format="%(asctime)s (%(module)s:%(lineno)d) %(levelname)s: %(message)s"
)
else:
logging.basicConfig(
level=logging.WARN,
format="%(asctime)s (%(module)s:%(lineno)d) %(levelname)s: %(message)s"
)
logging.warning('Skip DEBUG/INFO messages')
config = get_cfg_default()
# load config
if args.config:
config.merge_from_file(args.config)
# check directory existence
if args.dumpdir is None:
args.dumpdir = os.path.dirname(args.metadata)
if not os.path.exists(args.dumpdir):
os.makedirs(args.dumpdir)
with open(args.metadata, 'rt') as f:
metadata = json.load(f)
dataset = DataTable(
metadata,
fields=[args.field_name],
converters={args.field_name: np.load}, )
logging.info(f"The number of files = {len(dataset)}.")
# calculate statistics
scaler = StandardScaler()
for datum in tqdm(dataset):
# StandardScalar supports (*, num_features) by default
scaler.partial_fit(datum[args.field_name].T)
stats = np.stack([scaler.mean_, scaler.scale_], axis=0)
np.save(
os.path.join(args.dumpdir, "stats.npy"),
stats.astype(np.float32),
allow_pickle=False)
if __name__ == "__main__":
main()

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@ -0,0 +1,13 @@
# Copyright (c) 2021 PaddlePaddle Authors. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.

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@ -57,7 +57,7 @@ def read_hdf5(filename: Union[Path, str], dataset_name: str) -> Any:
def write_hdf5(filename: Union[Path, str], def write_hdf5(filename: Union[Path, str],
dataset_name: str, dataset_name: str,
write_data: np.ndarrays, write_data: np.ndarray,
is_overwrite: bool=True) -> None: is_overwrite: bool=True) -> None:
"""Write dataset to HDF5 file. """Write dataset to HDF5 file.

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@ -72,6 +72,8 @@ setup_info = dict(
'webrtcvad', 'webrtcvad',
'g2pM', 'g2pM',
'praatio', 'praatio',
"h5py",
"timer",
], ],
extras_require={'doc': ["sphinx", "sphinx-rtd-theme", "numpydoc"], }, extras_require={'doc': ["sphinx", "sphinx-rtd-theme", "numpydoc"], },