sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
fd4ea6f7873b701b0857dc036a85966ceb0ae86252fd9aab895e6adfa81de271 | Python | 1,355 | 57 | # Copyright contributors to the TSFM project
#
from typing import TYPE_CHECKING
# rely on isort to merge the imports
from transformers.utils import (
OptionalDependencyNotAvailable,
_LazyModule,
is_torch_available,
)
_import_structure = {
"configuration_patchtst_fm": [
"PATCHTSTFM_PRETRAINED... |
10b3a7d67a7599b45898307f622af3ba128937a28420128e6f7689ed3192e7e2 | Python | 1,356 | 62 | import os
from tqdm import tqdm
import shutil
import argparse
parser = argparse.ArgumentParser(description="...")
parser.add_argument(
"--source",
help="...",
type=str,
required=True
)
parser.add_argument(
"--target",
help="...",
type=str,
required=True
)
args = parser.parse_args()
SOURCE_DIR = ... |
ec0719373dcb252181f22626987fb6ed58eaaeec69e1de8ca8803b262e08a82e | Python | 1,358 | 63 | import pandas as pd
import seaborn as sns
from matplotlib import pyplot as plt
import sys
import numpy as np
colors = sns.color_palette("Set1", 12)
c = 0.5
colors = [(c, c, c), (c, c, c)]
dfo = pd.read_csv(sys.argv[1], sep="\t", index_col=0)
df = dfo.melt(value_name="number_of_variants")
df.number_of_variants +=... |
df37487c978f635410a5b0c45c3d93ab200af67abe839a60efa9963372292624 | Python | 1,359 | 28 | """Convert raw graph samples of the FG-dataset to Pytorch Geometric format."""
import argparse
import sys
sys.path.insert(0, "../src")
from gnn_eads.functions import get_id
from gnn_eads.paths import create_paths
from gnn_eads.constants import FG_RAW_GROUPS
from gnn_eads.create_graph_datasets import create_graph_data... |
a24b5befdeb6ecc5f5a258de44ec32dbb6e2be2d9bab5a0e12c66fb9f4bd27c0 | Python | 1,360 | 30 | # Copyright 2019-2020 The ASReview 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 appl... |
834973db93158816403bf824a5c44d42e63f85716a9f249e62208c60ba15dd4c | Python | 1,361 | 41 | # Copyright 2026 DeepMind Technologies Limited
#
# 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 agr... |
0616e9bca80f4568eb042f05056760fdcc1213d01c4d3f79e609dc216bdf48df | Python | 1,362 | 44 | import unittest
import numpy as np
import sys
sys.path.append("..")
import pyfilterbank.sosfiltering as sf
class SosFilterTestCase(unittest.TestCase):
def setUp(self):
self.signal = np.random.randn(1000)
self.frames = len(self.signal)
b = [0.5, 0.0, 0.5]
a = [1.0, -0.8, 0.7]
... |
90fd34cb69189ddbb6106dc816f989a74997a0648e244258de35d8afd2798ddc | Python | 1,362 | 47 | """
ini_set('display_errors', true);
error_reporting(E_ALL);
// Put these befor the line to display complete errors!
"""
import requests
import json
import os
base_url = 'http://localhost:8080/api/1/'
prime_term_url = base_url + 'ilx/add'
add_term_url = base_url + 'term/add'
api_key = os.environ.get('LOCAL_SCICRUNCH_... |
149a436ddcbd861006309121e79243b58b4c07c2e076eeffe563491f57ac55d3 | Python | 1,364 | 30 | # Copyright 2026 DeepMind Technologies Limited
#
# 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 agr... |
23e67d05304d8c279e3443627f0499405408f878e8b9193b74e1369c5f4569df | Python | 1,364 | 43 | # Copyright 2019-2021 The AmpliGraph Authors. All Rights Reserved.
#
# This file is Licensed under the Apache License, Version 2.0.
# A copy of the Licence is available in LICENCE, or at:
#
# http://www.apache.org/licenses/LICENSE-2.0
#
import numpy as np
from ampligraph.evaluation.metrics import rank_score, mrr_sc... |
702e06b05ba5b20875e31f17738e7792214c08c4f886598684feff090564e82f | Python | 1,364 | 42 | # Copyright 2026 DeepMind Technologies Limited
#
# 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 agr... |
332cbbd3123fe8c098098a7067c2cb2587465669ceb8ef59464fcf7e571b0b41 | Python | 1,365 | 43 | """precipitation_dataset.py"""
"""
Author: Yimin Yang
Last revision date: Jan 18, 2022
Function: dataloader for precipatation maps dataset
Ref: https://github.com/HansBambel/SmaAt-UNet
"""
from torch.utils.data import Dataset
import h5py
import numpy as np
class precipitation_maps_oversampled_h5(Dataset):
def ... |
8700476077a4415885a5f52354e5de8557b2c3277552ded344c3a736c63250bc | Python | 1,366 | 45 | import logging
from collections.abc import Mapping
from typing import Any
from flair.trainers.plugins.base import TrainerPlugin
log = logging.getLogger("flair")
default_metrics_to_collect = {
("train", "loss"): "train_loss_history",
("dev", "score"): "dev_score_history",
("dev", "loss"): "dev_loss_histo... |
d92c95b28e3a9aee6ee6a3fafdde45eeb67167e17aba1c4ee8313d13b0ebbda4 | Python | 1,366 | 40 | """
Read and set paths
"""
from pathlib import Path
from typing import Union
import toml
def set_data_paths():
"""Set the full path for a figure, with a specific extension
This is a tool to keep the figure files organized and consistently named.
Parameters
----------
fignum : int
Figure ... |
37ed1349f652a15ad94819e579defca3aa830385f505355ad7e53b92e99430fa | Python | 1,367 | 47 | # Copyright (c) ONNX Project Contributors
#
# SPDX-License-Identifier: Apache-2.0
from __future__ import annotations
import numpy as np
import onnx
from onnx.backend.test.case.base import Base
from onnx.backend.test.case.node import expect
class Mean(Base):
@staticmethod
def export() -> None:
data_0... |
3da7fd7d7d8e1b52b1ef4e3fed30d4e924fd28afa91d6814a790299ca1ecca85 | Python | 1,367 | 29 | import pytest
from vp_suite.datasets import DATASET_CLASSES
from vp_suite.utils.dataset_wrapper import VPDatasetWrapper
from vp_suite.utils.utils import PytestExpectedException
from helpers.test_helpers import skip_on
@skip_on(PytestExpectedException)
@pytest.mark.parametrize('dataset_str', DATASET_CLASSES.keys(), i... |
8b51de0f4dfe0ea2dc85b9da05b5fbc123d58ba7cfd242f47f7f32ca45a682a2 | Python | 1,367 | 41 | # copyright: sktime developers, BSD-3-Clause License (see LICENSE file)
"""Common private utilities for checkers and converters."""
__author__ = ["fkiraly"]
def _metadata_requested(return_metadata):
"""Return whether some metadata has been requested."""
return not isinstance(return_metadata, bool) or return_... |
dd4a83cc6a9ef3ff3d6100f02f719b440e866affbe98a0c5162db450731b5c61 | Python | 1,367 | 37 | # Copyright 2026 DeepMind Technologies Limited
#
# 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 agr... |
305259dd4e2e584b8b54f17fabbac91443510d35b23765089b4e4136ae217dde | Python | 1,368 | 37 | # Copyright 2019 The TensorFlow 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 applica... |
b80e95d32cee4e1658cae2c526bd765fd2506abad3e97bb26b6359caea092333 | Python | 1,368 | 39 | # Copyright 2019-2026 The AmpliGraph Authors. All Rights Reserved.
#
# This file is Licensed under the Apache License, Version 2.0.
# A copy of the Licence is available in LICENCE, or at:
#
# http://www.apache.org/licenses/LICENSE-2.0
#
from ampligraph.datasets.sqlite_adapter import SQLiteAdapter
from ampligraph.da... |
6ab822f6737723432f5f912f218cf8bdcdfa64c0f9900825147ccd331ff937ae | Python | 1,370 | 46 | import argparse
from pathlib import Path
import torch
from mmcls.apis import init_model
def convert_repvggblock_param(config_path, checkpoint_path, save_path):
model = init_model(config_path, checkpoint=checkpoint_path)
print('Converting...')
model.backbone.switch_to_deploy()
torch.save(model.state... |
97d530cd745cb45504f1654886cca9884cc1f5458aede34746055030bbe9e0c7 | Python | 1,370 | 41 | # SPDX-License-Identifier: LGPL-3.0-or-later
from deepmd.dpmodel.descriptor.unimol import DescrptUniMol as DescrptUniMolDP
from deepmd.pt_expt.common import (
torch_module,
)
from deepmd.pt_expt.descriptor.base_descriptor import (
BaseDescriptor,
)
@BaseDescriptor.register("unimol")
@torch_module
class Descr... |
b897df86af6dd8e3f886ab82034de252524de1c72604dff0b29d266e723acb43 | Python | 1,371 | 62 | #!/usr/bin/env python3
# tifffile/tiffcomment.py
"""Print or replace ImageDescription in first page of TIFF file.
Usage: tiffcomment [--set comment] file
"""
import os
import sys
try:
from .tifffile import tiffcomment
except ImportError:
try:
from tifffile.tifffile import tiffcomment
except Imp... |
e8c95739a7705dc0ac71e384e259b2e1f2c9c8068108256f245e816653188d4f | Python | 1,371 | 67 | # Copyright 2018-2025
# Institute of Neuroscience and Medicine (INM-1), Forschungszentrum Jülich GmbH
# 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/LICE... |
1a39a766d398521ea1958a645551360688600eda2743d45ebb0df1207cb42cfa | Python | 1,372 | 58 | # Copyright (c) ONNX Project Contributors
#
# SPDX-License-Identifier: Apache-2.0
from __future__ import annotations
import numpy as np
import onnx
from onnx import helper
from onnx.backend.test.case.base import Base
from onnx.backend.test.case.node import expect
class Upsample(Base):
@staticmethod
def expo... |
3c0cca7d1e3b48cfb82273a787e9feaf41315ee598719dc523e7dc82a6af2c64 | Python | 1,372 | 39 | """
Showcase the features of the render engine.
"""
from sns_toolbox.neurons import SpikingNeuron
from sns_toolbox.connections import NonSpikingSynapse, NonSpikingPatternConnection
from sns_toolbox.networks import Network
from sns_toolbox.renderer import render
import numpy as np
neuron_type = SpikingNeuron()
synaps... |
a2e0598b14bdcd51eafcb1d75197f0141147f9b37b00ead3666ef0a5eb7af3af | Python | 1,373 | 32 | import serial
def connect_laser_device():
"""
RobotDyn UNOはブートのタイミングによってwebserial1420だったりwebserial1410だったりする
この他のIDでマウントされることは確認していないが、あり得る
そこで、IDの候補をあらかじめリストとして保持し、
リスト中のID全てでSerialのインスタンスを作るよう試行を行う
"""
id_candidate_list = ['/dev/tty.usbserial-1410',
'/dev/tty.usbs... |
922a8757eeec87f710796be92902656a4130468734484316baef0e5b89f9678b | Python | 1,374 | 50 | """
Overlapping densities ('ridge plot')
====================================
"""
import numpy as np
import pandas as pd
import seaborn as sns
import matplotlib.pyplot as plt
sns.set_theme(style="white", rc={"axes.facecolor": (0, 0, 0, 0)})
# Create the data
rs = np.random.RandomState(1979)
x = rs.randn(500)
g = np.... |
cd48c180329b503aad67e09860d006c3bfd36b896dd4477729c26fffce322b6c | Python | 1,379 | 65 | #!/usr/bin/env python
__doc__ = """
Inference functions
Nicholas Turner <nturner.cs@princeton.edu>, 2017-8
"""
import sys,time
import torch
import numpy as np
import utils
def forward(net, scanner, scan_spec, activation=None):
with torch.no_grad():
start = time.time()
inputs = scann... |
f8302fe802514532a3f830c84a1dcb615f6eaed0bdcd35932b4f740903c2511a | Python | 1,381 | 47 | """Set classifier function."""
__author__ = ["TonyBagnall"]
from sktime.clustering.k_means import TimeSeriesKMeans
from sktime.clustering.k_medoids import TimeSeriesKMedoids
def set_clusterer(cls, resample_id=None):
"""Construct a clusterer.
Basic way of creating the clusterer to build using the default s... |
8137cddf464894e49fbef584527a74df140f590b3a0e4b1497820eec0b804fcc | Python | 1,383 | 58 | """Base class for encoders and generic multi encoders."""
import torch.nn as nn
from onmt.utils.misc import aeq
class EncoderBase(nn.Module):
"""
Base encoder class. Specifies the interface used by different encoder types
and required by :class:`onmt.Models.NMTModel`.
.. mermaid::
graph BT
... |
c53193872cd57156cf4c7ba9cd4ee027e3c5856ddc9f978aafa986e4b99b47c3 | Python | 1,383 | 33 | # Copyright 2015 The TensorFlow 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 applica... |
c7b47fbb3b4766fa6b87e5a4f993bbbc1982aa89a8743d6cf25fe008cbf4347e | Python | 1,384 | 35 | #-------------------------------------------------------------------------------
# elftools tests
#
# Seva Alekseyev (sevaa@sprynet.com)
# This code is in the public domain
#-------------------------------------------------------------------------------
import os
import unittest
from elftools.elf.elffile import ELFFil... |
ccf191c573d904f5e74a222c887752112925a138588eecec0b5f208f526a4778 | Python | 1,384 | 49 | import os, tempfile
from multiprocessing import Pool
import cnmodel.an_model.cache as cache
import cnmodel.util.sound as sound
from cnmodel import an_model
def new_cache():
# Do all cache testing on a temporary cache directory
cdir = tempfile.mkdtemp()
cache._cache_path = cdir
def run_sim(*args):
cf ... |
48abba852da248531ed79a876deef01e4825ff684d7b3a80a062797bb18359c7 | Python | 1,385 | 65 | #!/usr/bin/env python
__doc__ = """
Inference functions
Nicholas Turner <nturner.cs@princeton.edu>, 2017-8
"""
import sys,time
import torch
import numpy as np
import utils
def forward(net, scanner, scan_spec, activation=None, verbose=True):
with torch.no_grad():
start = time.time()
... |
588c5e2874606042ee500d2ede18b6723db9092f2b02e28e2847e5f509ea2701 | Python | 1,385 | 29 | import face_recognition
# Load the jpg files into numpy arrays
biden_image = face_recognition.load_image_file("biden.jpg")
obama_image = face_recognition.load_image_file("obama.jpg")
unknown_image = face_recognition.load_image_file("obama2.jpg")
# Get the face encodings for each face in each image file
# Since there ... |
28c2342db27dfc690b1b9608098831140c1836ca67d264920ce22cb723ccbe8e | Python | 1,386 | 42 | import unittest
import biom
import pandas as pd
import numpy as np
from skbio.util import get_data_path
from q2_differential._model import DESeq2, SingleDESeq2
from birdman import ModelIterator
from xarray.ufuncs import log2 as xlog
import pandas.testing as pdt
class TestDEseq2(unittest.TestCase):
def setUp(self)... |
58df15668c87d1d83276f588b8b98354a6586ffc3db7f03fafbfabc6a842346a | Python | 1,387 | 43 | from __future__ import annotations
import numpy as np
import pytest
from jetnet import evaluation
from pytest import approx
test_zeros = np.zeros((50_000, 2))
test_ones = np.ones((50_000, 2))
test_twos = np.ones((50_000, 2)) * 2
def test_fpd():
val, err = evaluation.fpd(test_zeros, test_zeros)
assert val ==... |
0ae5d991e450f06df6a558a5b90706fc62d7da638c24816aa91d9a52bbee2db1 | Python | 1,388 | 40 | # coding=utf-8
# Copyright (C) 2022. Huawei Technologies Co., Ltd. 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
#
# ... |
714662007c183b3f8387179292eac44a6f5e6064f6a8754ebffdff3dbf84e6a0 | Python | 1,388 | 35 | import unittest
from ensembl import mygene_get_synonyms
class MyGeneApiTest(unittest.TestCase):
def test_list_response(self):
gene_synonyms = mygene_get_synonyms(["ensembl:ENSMUSG00000033774"])
synonyms = gene_synonyms["ENSMUSG00000033774"]
self.assertTrue("Gpr7" in synonyms)
sel... |
787bba0aba44694ad90199c8ef90557ee3bb3e573744cd72f3373e251ff9127b | Python | 1,388 | 42 | import numpy as np
from sklearn.model_selection import RandomizedSearchCV
from sklearn.svm import SVC
from sklearn.metrics import balanced_accuracy_score
class SVMClassifier:
def __init__(self, X_train, X_valid, y_train, y_valid):
y_train, y_valid = np.asarray(y_train), np.asarray(y_valid)
asse... |
3fc1813e2c764ae758da8c39d1b6ba613fc7858e2e6ddc175cbfa6ae29c58e85 | Python | 1,390 | 42 | # Copyright 2019 DeepMind Technologies Limited
#
# 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 agr... |
47e7edacf014760dca0b99207b650b5fa73f9559676276312532c841a8351bcb | Python | 1,390 | 44 | from __future__ import print_function
from neuron import h
import neuron as nrn
from ..util import nstomho
from .cell import Cell
__all__ = ['HH']
class HH(Cell):
"""
Standard Hodgkin-Huxley mechanisms from NEURON
"""
def __init__(self, debug=False, message=None):
super(HH, self).__init__()
... |
58e45ebc3853258e1f746b095af021b4d5c3bb9b6a0f41b80d0ce10cfb9d652e | Python | 1,391 | 47 | # Copyright (c) ONNX Project Contributors
#
# SPDX-License-Identifier: Apache-2.0
from __future__ import annotations
import itertools
import numpy as np
import onnx
from onnx.backend.test.case.base import Base
from onnx.backend.test.case.node import expect
class Transpose(Base):
@staticmethod
def export_de... |
4fc4d3db93b3baac367df017c9d9a1748230ef0d3c675f975efd54d8e53b21c3 | Python | 1,392 | 43 | """Tests for specific bugfixes to conversion logic."""
__author__ = ["fkiraly", "ericjb"]
import pytest
from sktime.datasets import load_airline
from sktime.datatypes._series._convert import convert_MvS_to_UvS_as_Series
from sktime.tests.test_switch import run_test_module_changed
@pytest.mark.skipif(
not run_t... |
3d5f6c9d026c58121978f095245dc389ec6259b1224e6a27941d8dd01758964b | Python | 1,393 | 61 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Wed Jun 1 16:54:07 2022
@author: sudhanshu
Runs Prediction on input directory from command line
Usage: python predict_directory.py [pdb_directory: default '../sample_dir' ][model_directory: default './models_DL/cb_model.pth.tar']
Returns: PDB_NAME: predic... |
4ab0868de62130dd2f765eb4b5335ae8535724c869353a737644a799d20b84ad | Python | 1,393 | 40 | # Copyright 2019 DeepMind Technologies Ltd. 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 appl... |
62350fb6d0c27c022837854007362dc2f4786d0f4b6271ee9b17a7b5c6c13ce6 | Python | 1,394 | 44 | import joblib
import wrangle_data as wd
import model_predict_functions as mpf
# inputs
features_list = ["FA","MD","ad","rd","uFA","C_c","MKi","MKad"]
data_filename = 'data.csv'
outputsFileName = 'paper_'
modelFileName = 'rf.sav'
# load RF model optimized with rf_tunning.py
rf = joblib.load(modelFileName)
# Load dat... |
97fa0ca2626c84d2ac0cf59a846d11bd75563bdf612ddb605b59fa83db337dc1 | Python | 1,395 | 47 | """Tests for bycycle.features.features."""
import pytest
import numpy as np
from bycycle.features import *
###################################################################################################
###################################################################################################
@pytest.... |
e478d332472f528f513acbc7dd16eaf77034ee35035b0fadb226714c2742991e | Python | 1,396 | 39 | import torch.nn as nn
r"""
The model is composed of the embeddingbag layer and the linear layer.
nn.EmbeddingBag computes the mean of 'bags' of embeddings. The text
entries here have different lengths. nn.EmbeddingBag requires no
padding because the lengths of sentences are saved in offsets.
Therefore, this method is... |
0efe8d59220bc88b24d2124cf524976c0a53db45892cf0875004cecd1fa1b807 | Python | 1,399 | 35 | # Copyright 2022 DeepMind Technologies Limited
#
# 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 agr... |
fd10d5ee769aeff6d438fd042f8fe263d56d333362f013627b0a2518ccd8e24f | Python | 1,400 | 49 | import io
from PIL import Image
def _plot_gif(fig, ax, gif_duration, savename=None, gif_loop=0):
"""
Create a GIF from plot
Requires the function 'plot' to contain the paramater 'frames' (two or more frames needed)
Takes return values from the function 'plot'
Parameters
--------------------... |
daa3b6057363c4844a22b8ea30fa314db45d2afbf4ed4f50204bd67c0df7dd1f | Python | 1,403 | 43 | # Copyright 2023 DeepMind Technologies Limited
#
# 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 agr... |
9b568ad45aef9d6a38e49a00dafd6531a39dc139cd50da5792015cac0e0cd4e5 | Python | 1,404 | 39 | # Copyright 2022 DeepMind Technologies Limited
#
# 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 agr... |
72b358be6c8fc63b3a1bd5228f5a0357c64d00b3a89289a380b40cfc757e2aab | Python | 1,406 | 33 | # Copyright 2019 DeepMind Technologies Limited
#
# 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 agr... |
b29dd27956996a89132498a4033258165f733bf0ac56ef9d6dcd5aa144130c16 | Python | 1,410 | 39 | # Copyright (c) ONNX Project Contributors
# SPDX-License-Identifier: Apache-2.0
from __future__ import annotations
import ml_dtypes
import numpy as np
from onnx import TensorProto
from onnx.reference.op_run import OpRun
_STASH_TYPE_TO_DTYPE: dict[int, np.dtype] = {
int(TensorProto.FLOAT): np.dtype(np.float32),
... |
7ddd864a10a6cb941dbb3d641cf90c2f234d48982302c44b570a75a629c1c476 | Python | 1,411 | 42 | # Copyright 2019 The TensorFlow 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 applica... |
d218c34c5142e04ea36657bb4488a8d40a3e48c5ff971391b5f802f773058dd9 | Python | 1,416 | 44 | """ItalyPowerDemand dataset."""
from sktime.datasets._single_problem_loaders import load_italy_power_demand
from sktime.datasets.classification._base import _ClassificationDatasetFromLoader
class ItalyPowerDemand(_ClassificationDatasetFromLoader):
"""ItalyPowerDemand time series classification problem.
Exam... |
42fad1434cee36ada4e68bde88d0459983287bf23a033888d4c78de771149c84 | Python | 1,417 | 47 | # -------------------------------------------------------------------------------
# elftools: ehabi/structs.py
#
# Encapsulation of Construct structs for parsing an EHABI, adjusted for
# correct endianness and word-size.
#
# LeadroyaL (leadroyal@qq.com)
# This code is in the public domain
# ----------------------------... |
656842f6dbf3a1ea3c7f1ec2696d2b71155a3d200c0fd682d40c4bb99be2ea79 | Python | 1,417 | 54 | # Copyright (c) ONNX Project Contributors
# SPDX-License-Identifier: Apache-2.0
from __future__ import annotations
import numpy as np
import onnx
from onnx.reference.op_run import OpRun
def cast_to(
x: np.ndarray, to: onnx.TensorProto.DataType, saturate: bool, round_mode: str = "up"
):
if to == onnx.Tensor... |
49fa676b22be956e926bc1371725426a39bacc44d0b380ece87375d0d42de20a | Python | 1,419 | 43 | # coding=utf-8
# Copyright (C) 2021. Huawei Technologies Co., Ltd. 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
#
# ... |
afb6898492836470429de9fa5d4a2062e172394e1369d45422fa4c87a50b7c59 | Python | 1,419 | 43 | # Unit tests; run with pytest -v tests.py
from domain_and_clustering_analysis import SpatialTest
def test_domain_count():
S = SpatialTest(
variants=[1, 3, 9, 11, 14, 17, 29, 30, 31, 33, 38, 40, 42, 45, 50, 55],
length=75,
domains={
"reg1": 10,
"reg2": 14,
... |
2659fcf126e3b2666ae5f231cc5f8f3f277308469996f5b4fde8aca74399f38e | Python | 1,420 | 44 | # Copyright 2026 DeepMind Technologies Limited
#
# 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 agr... |
4806e54d2974f550352756050735805301901a7da3343bee8139032d3aef3613 | Python | 1,421 | 68 | import random
from sys import argv
dna = set(["A", "C", "G", "T"])
def deletion(seq):
chars = list(seq)
idx = random.choice(range(len(chars)))
del chars[idx]
return "".join(chars)
def insertion(seq):
chars = list(seq)
idx = random.choice(range(len(chars)))
new_base = random.choice(list(dna))
chars.insert(idx,... |
62cae530b5f1baddd17442b149c9568669d8e92c26d28937973a0c59278539d1 | Python | 1,422 | 49 | import os
from pathlib import Path
from typing import Collection, Union, List
import pandas as pd
def str_to_column_id(column, df):
if isinstance(column, str):
if column not in df.columns:
try:
column = int(column)
except ValueError:
raise ValueErro... |
af4ea6b6832ca46afc3a73eb2bf26ed209ba4dd5f8ea078e2549f2016d173048 | Python | 1,422 | 57 | from nipype.algorithms.confounds import FramewiseDisplacement, TSNR
import PIL
sub = '1'
sess = '2'
rp_path = '\\NFTII\\sub-0'+sub+'\\Session'+sess+'\\CMRR\\rp_CMRR_sub0'+sub+'_sess0'+sess+'.txt'
plot_path = 'fd_plot_sub'+sub+'_sess' + sess +'.png'
calc_path = 'fd_calc_sub'+sub+'_sess' + sess +'.txt'
fd = FramewiseD... |
5188852f02bfbad63d90ae112f9ac2d6ecd92e3ff289f870fbef4ae643c941a4 | Python | 1,423 | 36 | from sns_toolbox.neurons import NonSpikingNeuron
from sns_toolbox.connections import NonSpikingSynapse
from sns_toolbox.networks import Network
import numpy as np
from sns_toolbox.backends import SNS_Numpy
delay = True
spiking = True
# Design
neuron_type = NonSpikingNeuron() # Define a neuron type
synapse = NonSpi... |
738d34433274e42e99e256f08664a347247b71f39addb38d0a4c84fad72c3a6f | Python | 1,423 | 40 | from .entity_linker_model import SpanClassifier
from .entity_mention_linking import EntityMentionLinker
from .language_model import LanguageModel
from .lemmatizer_model import Lemmatizer
from .multitask_model import MultitaskModel
from .pairwise_classification_model import TextPairClassifier
from .pairwise_regression_m... |
495b343b601748080a832fd1e09abc7d03ae12a0ba334e035fdab0f175906f7f | Python | 1,424 | 38 | # Copyright 2007 Zachary Pincus
# This file is part of CellTool.
#
# CellTool is free software; you can redistribute it and/or modify
# it under the terms of version 2 of the GNU General Public License as
# published by the Free Software Foundation.
"""Tools to read and write numpy arrays from and to image files.
"""
... |
e03991fe8c49bae519545eba42852eb50952915be3b3feec15cae12657470646 | Python | 1,424 | 43 | """Forecasting models."""
import sys
import warnings
from importlib import import_module
# alias dictionary to map old module names to new module names
# if an old module name is queried, imports work, but
# a deprecation warning is issued to update the import statement
# old_name -> new_name
_MODULE_ALIASES = {
... |
b62e29e95aad2cd09c60a54e51eb2cd905b7ac068567146dc0af0ced7e244a64 | Python | 1,426 | 45 | """OSULeaf dataset."""
from sktime.datasets._single_problem_loaders import load_osuleaf
from sktime.datasets.classification._base import _ClassificationDatasetFromLoader
class OSULeaf(_ClassificationDatasetFromLoader):
"""OSULeaf time series classification problem.
Example of a univariate problem with equal... |
b7cd2d54e7ef75c51867275b8f77d6c1f49cc1404f73d715addd54161034a63b | Python | 1,426 | 43 | # Copyright 2026 DeepMind Technologies Limited
#
# 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 agr... |
f96566916ffed7fe4693003a0397f5db0a88125dc05d3eceb4e9fa98b71f5ddd | Python | 1,426 | 45 | """
Example of the random undersampling for compositional data, applied on synthetic data generated with
the function smote_cd.dataset_generation.generate_dataset, having 2 features and 2 classes.
"""
import numpy as np
import matplotlib.pyplot as plt
import smote_cd
def create_imbalanced_dataset():
n_featu... |
c16eab5704162e16c752b3fbd50810cae58d9abd08386741daf99df61b1b8e4b | Python | 1,427 | 45 | # Copyright 2023 DeepMind Technologies Limited
#
# 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 agr... |
e712986488df43d96f0c3ba764df60b974309b1a76fdd4fbe00eba47c336c31f | Python | 1,427 | 47 | from fig import Config as C
from eval import run_mot_eval, run_mot_trace
def main():
print("App configuration:")
C.show()
config_as_dict = C.as_dict()
app_config = config_as_dict["app"]
app = list(app_config.keys())[0]
if len(app_config) > 1:
raise Exception(
f"Multiple a... |
e53f9190e88929c52664e1295de8655ee266b7d4084d5902719f481874e8b4ae | Python | 1,429 | 33 | from __future__ import print_function
import numpy as np
from scipy import signal
from parameterSetup import ParameterSetup
from featureExtractor import FeatureExtractor
from featureDownSampler import FeatureDownSampler
from algorithmFactory import AlgorithmFactory
class FeatureExtractorMerged(FeatureExtractor):
... |
472abcaf2148ab8efda83a95de92b5254b83cb0cf38afee521d05f909d6ac075 | Python | 1,430 | 57 | """A dummy classification catalogue."""
from sklearn.metrics import accuracy_score
from sklearn.model_selection import KFold
from sktime.catalogues.base import BaseCatalogue
class DummyClassificationCatalogue(BaseCatalogue):
"""Dummy catalogue of datasets, classifiers, metrics, and cv.
Examples
-------... |
95b5f4fcc9bea4c42a9e6fefaec83e212b6bca004a01c0c9d937b947acac3ecf | Python | 1,430 | 46 | """Tests for bcblib.imaging.convert."""
import numpy as np
import nibabel as nib
import pytest
from bcblib.imaging.convert import convert_format, create_image
def _make_nii(shape=(3, 3, 3)):
data = np.ones(shape, dtype=np.float32)
return nib.Nifti1Image(data, np.eye(4))
class TestConvertFormat:
def te... |
dc4ecb401d91d897430fc60fd8d8f384eda786bbb59d43a9e4b9fea2312ce178 | Python | 1,430 | 42 | import pytest
from itertools import repeat
from time import time
import os
import numpy as np
import siibra
from siibra.features.image.image import Image
from siibra.volumes.volume import Volume
TEST_ALL_PRECONF_BBOXES = eval(os.getenv("TEST_ALL_PRECONF_BBOXES", "False"))
RANDOM_SEED = os.getenv("RANDOM_SEED", None i... |
0e7d46678009e0e54c3dda4346e6b41aefcf2cccb0a193e86a6b7f647eb65669 | Python | 1,431 | 46 | # -*- coding: utf-8 -*-
#
# Copyright © 2013 Charles E. Vejnar
#
# This Source Code Form is subject to the terms of the Mozilla Public
# License, v. 2.0. If a copy of the MPL was not distributed with this
# file, You can obtain one at https://www.mozilla.org/MPL/2.0/.
#
import glob
import logging
import os
from ..ut... |
e0078c17a5b994e24c05f4c10a3ce5d15e4bbcf889090b8903dd0c29125fdc0f | Python | 1,431 | 44 | # Copyright 2022 DeepMind Technologies Limited
#
# 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 agr... |
ec2d332f26367fae4af23ea6be22bcf3a22ac2f8d7e746ee443322f0d1262cac | Python | 1,432 | 52 | import json
import numpy as np
from scipy.integrate import solve_ivp
from Historia.ep.model import Gattoni2016
from Historia.shared.constants import RESOURCES_PARAMETERS_DIR, posix_path
DEFAULT_PARAMS_PATH = posix_path(
RESOURCES_PARAMETERS_DIR, "ep/parameters.json"
)
class EPSolution:
"""
This class i... |
cdfad9b369875c1686cd63a43e394a6ea93342f6030dd47667166e3c92550b2d | Python | 1,436 | 40 | # Copyright 2019 DeepMind Technologies Limited
#
# 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 agr... |
ddee751841ad2eea0f02547167588f9d4cac4563759cb333ad8acc0c09a6e2fa | Python | 1,436 | 52 | # Copyright (c) ONNX Project Contributors
# SPDX-License-Identifier: Apache-2.0
from __future__ import annotations
import numpy as np
from onnx.reference.op_run import OpRun
from onnx.reference.ops.op_conv import _conv_implementation
class ConvInteger(OpRun):
def _run(
self,
X,
W,
... |
db5be90deea42eb4eb073b620a20ab34c399095351888273cc8d18dc0247eba3 | Python | 1,437 | 42 | from PyQt5 import QtWidgets, QtGui
from PyQt5.QtCore import Qt
class PredictionResultLabel(QtWidgets.QLabel):
def __init__(self, parent=None):
QtWidgets.QLabel.__init__(self,parent)
self.labelContent = '-'
self.stageColors = [Qt.black, Qt.red, Qt.darkCyan]
self.stageCode = 0
... |
f6c831f260e412db34847737426996b6340ad156c409758660f0451d4de035f9 | Python | 1,438 | 41 | # Copyright 2019 DeepMind Technologies Ltd. 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 appl... |
93e27a5512d09fa21aa09cd518ff1df9ebc7dd43dfdb7037e42b457dd6cb332b | Python | 1,439 | 45 | # SPDX-License-Identifier: LGPL-3.0-or-later
from deepmd.dpmodel.output_def import (
FittingOutputDef,
OutputVariableDef,
fitting_check_output,
)
from .invar_fitting import (
InvarFitting,
)
@fitting_check_output
class LatentChargeFitting(InvarFitting):
r"""Per-atom latent charges predicted from ... |
abbb7db28e4aced64c3a7f89f1e2b2be4878ffc655d1c8af0b6d1ec67139aa67 | Python | 1,439 | 34 | from PIL import Image, ImageDraw
import face_recognition
# Load the jpg file into a numpy array
image = face_recognition.load_image_file("biden.jpg")
# Find all facial features in all the faces in the image
face_landmarks_list = face_recognition.face_landmarks(image)
pil_image = Image.fromarray(image)
for face_landm... |
8306f923fdb24b7c7d5235d97918d86a9ff622cac7a8568213b1fb66fb44b52c | Python | 1,441 | 49 | from torch.utils.data import Dataset
import torch
import logging
class JetDataset(Dataset):
"""
PyTorch dataset.
"""
def __init__(self, data, num_pts=-1, shuffle=True):
self.data = data
self.shuffle = shuffle
if 'Nobj' not in data.keys():
try:
data... |
e26271514ad2a6a302bf73db8cd1ec75ac39d035f50791671c7e7535c8e68c47 | Python | 1,441 | 43 | import torch
import torch.nn as nn
import torch.nn.functional as F
def _assert_no_grad(variables):
for var in variables:
assert not var.requires_grad,\
"nn criterions don't compute the gradient w.r.t targets"
def FFT_trans(x, eps):
vF = torch.fft.fft2(x, norm='ortho')
vF = t... |
f81b324b5260ca02f473aae12e94b68b6d7e34c914f2af01dc7392870f192776 | Python | 1,441 | 39 | from networkunit.tests.power_spectrum_test import power_spectrum_test
from networkunit.capabilities.ProducesSpikeTrains import ProducesSpikeTrains
from networkunit.utils import use_cache, parallelize
from elephant.statistics import time_histogram
from elephant.spectral import welch_psd
from elephant.signal_processing i... |
ad2f5d1ade3e17ef536c84b6a2244f4c0f096e70cbd16740f14fc8bf36218393 | Python | 1,443 | 36 | import scipy as sp
def test_model(config, model, test_data):
spearman_result = {}
if config.transfer_learning:
# TODO
exit(2)
else:
print('Testing pre-train model')
if config.enzyme == 'multi_task':
enzymes = ['wt', 'esp', 'hf']
for enz... |
c6096a8b97375e7279d58a8a1f711fd987b3b501c4a92bdc05560e658786bc38 | Python | 1,444 | 54 | """Shampoo Sales dataset."""
from sktime.datasets._single_problem_loaders import load_shampoo_sales
from sktime.datasets.forecasting._base import _ForecastingDatasetFromLoader
__all__ = ["ShampooSales"]
class ShampooSales(_ForecastingDatasetFromLoader):
"""Load the Shampoo Sales dataset for univariate time seri... |
ccbc604d89c345c294ebb973aafb394e5a71028493a23df74a098705cf0f2052 | Python | 1,444 | 44 | # Copyright 2019-2020 The ASReview 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 appl... |
151ab945f04140e62bb8dff209cbd296cfc849396e3e270f546309ed745f7c95 | Python | 1,445 | 50 | # Copyright (c) OpenMMLab. All rights reserved.
import os
import os.path as osp
import tempfile
import mmcv.utils.logging
from mmcls.utils import get_root_logger, load_json_log
def test_get_root_logger():
# Reset the initialized log
mmcv.utils.logging.logger_initialized = {}
with tempfile.TemporaryDirec... |
4905b63fcf245b7dd18a982aac05475655cdd337d198a562deae03c41b9dd5c9 | Python | 1,445 | 53 | from pyontutils import scigraph_client
from pyontutils.config import auth
scigraph_client.BASEPATH = auth.get('scigraph-api')
# WARNING if you import this module anywhere in your program
# and you change the BASEPATH from what it is in auth-config
# you may LEAK YOUR API KEY !!!!!!! To avoid this import
# from scigra... |
99019f1f61277f2eaa409ea19fd54b711c93dd26c3063ff7ba175d97f34fa031 | Python | 1,445 | 48 | """Hierarchical sales toy data for hierarchical forecasting."""
from sktime.datasets._hierarchical_demo import load_hierarchical_sales_toydata
from sktime.datasets.forecasting._base import _ForecastingDatasetFromLoader
__all__ = ["HierarchicalSalesToydata"]
class HierarchicalSalesToydata(_ForecastingDatasetFromLoad... |
6fea986920b7a47b1211bb912f93f60b35a9e9f68a1ef6a073ae3784516757b0 | Python | 1,447 | 37 | """to execute Python 3 code in Python 2.
redefines builtin `range` and `input` functions and `abc` either via `collections`
or `collections.abc` if available.
"""
import sys
import collections as _collections
range = range # to allow (trivial) explicit import also in Python 3
input = input
if sys.version_info[0] ==... |
f3a2fd2658ce8848098691750f1d3315af4b7f0076928c1721efc555638e7451 | Python | 1,447 | 47 | # Copyright 2019-2021 The ASReview 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 appl... |
3fd916d59cd0231ef7e5c1434ebaeb9af20d99b3d950a4aa43bcb2d221e28125 | Python | 1,448 | 55 | """A dummy forecasting catalogue."""
from sktime.catalogues.base import BaseCatalogue
class DummyForecastingCatalogue(BaseCatalogue):
"""Dummy catalogue of datasets, forecasters, metrics, and cv.
Examples
--------
>>> from sktime.catalogues import DummyForecastingCatalogue
>>> catalogue = DummyF... |
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