sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
4aa5fd2d062787a7a787cf19c98c2cc5e3c70343a6b8e9c3b9e8b86bcc319c7c | Python | 4,581 | 135 | import torch
import pytest
from ..fourier_continuation import FCLegendre, FCGram
@pytest.mark.parametrize("FC_class", [FCLegendre, FCGram])
@pytest.mark.parametrize("dim", [1, 2, 3])
@pytest.mark.parametrize("d", [3, 4])
def test_fourier_continuation(FC_class, dim: int, d: int):
if dim == 1:
batch_size = ... |
34d16163a40ac0a2d351e37b24ccb0c7706e51867baa0e60b33181ab15be7a17 | Python | 4,584 | 126 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
4dcf027d8a6a000ed0b56b00fb51038ff1704cbf18051bf4ed5dd2a8385f5c9a | Python | 4,584 | 168 | # SCSCSCSCSCSCSCSCSCSC
# CSB Lab | Indian Institute of Science, Bengaluru
# Chinmay K Haritas
# Toggle Triad ODE
# %%
print("\nSpatial GRNs - Toggle Triad in 2D \n")
print("ODE Solver")
# Import Block
import helpers
from tt_vars import *
from helpers import hill, p_i
np, pd, plt, tqdm, time, njit, prange, animator,... |
f4cf3b84613d92cdf86ad8338bb9304eb4a3fc970e1972d62b166782c6dd1791 | Python | 4,586 | 143 | from src.landmarks.transforms import *
from pathlib import Path
import itk
import sys
from monai.transforms import Compose
from src.landmarks.inference import inference_on_one
from subprocess import run
itk.MultiThreaderBase.SetGlobalDefaultNumberOfThreads(1)
def sub_ses_from_filename(filename):
fname = str(Path... |
ede7c12f7653f1094366911bae70f7b502286270e2f9cbedba3906eb39b4008e | Python | 4,588 | 150 | import pickle
import sys
from typing import List
import os
from cached_property import cached_property
import numpy as np
from skimage import io, measure
from lib import colocalisation
class File:
"""Base file class to handle images"""
def __init__(
self,
image: np.ndarray,
name: st... |
fb07c07d656806e26c994ebe5450b0f516f86f2921384b469a16695fd7a98e84 | Python | 4,588 | 113 | ####################################################################################################
# Copyright (c) 2019 - 2023, EPFL / Blue Brain Project
# Author(s): Marwan Abdellah <marwan.abdellah@epfl.ch>
#
# This file is part of VessMorphoVis <https://github.com/BlueBrain/VessMorphoVis>
#
# This program is free ... |
6f56d8f1a160efba3834df282800a0e4bc81bbe7bc1d3856e72019545902d4de | Python | 4,592 | 128 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
3711bc74cbfe0acb8625fe5f71b8a95255551364d7032965ce52a011c0e18f21 | Python | 4,593 | 128 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
52a45a43f57cb5a3c6285418c4c133c56cab34e0e67d0b483b8b1ae5cebea84c | Python | 4,595 | 128 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
dcd6c050d7099081a87b7ed74408e2d8f21cb49f7217a447de49820920a97425 | Python | 4,595 | 123 | import os
from os.path import join
import numpy as np
import pandas as pd
from sklearn.model_selection import train_test_split
from sklearn.ensemble import RandomForestRegressor
from sklearn.model_selection import ShuffleSplit, GridSearchCV
from sklearn.metrics import (mean_absolute_error, mean_squared_error,
... |
e6d898ea52c48c5874dd46d7fc9b288c2d1e922779909eb5434acf01b9b45ced | Python | 4,595 | 128 | # Copyright 2022 Huawei Technologies Co., Ltd
#
# 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... |
4bc075bf63957a5ddfea11e9d60ed8ff5ff9be16544afa710998971908135de0 | Python | 4,596 | 129 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
5a99a1bd0103eda7522ea4894dbd7762c935686fe1119b9aac15773f91f3612a | Python | 4,597 | 98 | #from utils import accuracy
from utils import Config
import numpy as np
from pygcn.utils import accuracy, encode_onehot, normalize, sparse_mx_to_torch_sparse_tensor
from pyagnn.agnn.model import AGNN
from pygcn.models import GCN
import torch.nn.functional as F
import torch.optim as optim
import scipy.sparse as sp
impor... |
d55f73948bb15d01bac915dfff022c03e89648bd70f726642910a62088948793 | Python | 4,599 | 142 | import torch
import pytest
from tensorly import tenalg
tenalg.set_backend("einsum")
# Parameterize use of torch_scatter if it is built
try:
from torch_scatter import segment_csr
use_torch_scatter = [True, False]
except:
use_torch_scatter = [False]
from ..gino import GINO
# Fixed variables
in_channels =... |
8096b83b7a1027937dd20df9d2fcfdc6b86f4c1dca1556b49ad71068d5ed2e33 | Python | 4,600 | 102 | # Utility scripts used by sleep, spectrum & spindle
import pandas as pd
import numpy as np
import copy
import datetime
from scipy.interpolate import interp1d
from scripting.spectrum.metrics import freq_index
from scripting.spectrum.dataset import extract
def spindle_to_pinnacle(spath, pinpath, between=None, fmt='%m/%... |
6bd3d15571a09f58dab7dab0afb7758d988c787a644ee425eb94e5120c53b4b2 | Python | 4,603 | 123 | #!/usr/bin/python
import os
import sys
import copy
cmdl_parse = copy.copy(sys.argv)
import matplotlib
matplotlib.use('Agg')
from argparse import ArgumentParser
from os import path, environ
import importlib
try:
from modules.parameters import ParameterSpace
from modules import io
except ImportError as e:
... |
157a08bffdf662606b5e1a40adfa8809517e1f668bcf7507693e50895019bd77 | Python | 4,605 | 138 | __author__ = "Jianfeng Sun"
__version__ = "v1.0"
__copyright__ = "Copyright 2023"
__license__ = "GPL v3.0"
__email__ = "jianfeng.sunmt@gmail.com"
__maintainer__ = "Jianfeng Sun"
from typing import Dict, List, Union
import time
import numpy as np
from tmkit.seqnetrr.net.Reader import Reader as prrcreader
from tmkit.... |
830d003bf504b630e38b21b556a9828454ed55668517ba29756a032764cb3ca4 | Python | 4,607 | 119 | from torch import nn
from torch.nn import functional as F
import torch.nn.utils.spectral_norm as spectral_norm
import numpy as np
import random
import torch
class GANLoss(nn.Module):
def __init__(self, gan_mode='hinge', target_real_label=1.0, target_fake_label=0.0,
tensor=torch.FloatTensor):
... |
0fb5e1a9458b893524385c38d94cb5bd9ee7a5d616880483ad61d5563ebed323 | Python | 4,609 | 108 | import os
import sys
import warnings
from types import ModuleType
from typing import Optional, Tuple
import numpy as np
from ..base import DatabaseBase, ALL, load_fids
########################################################################
class Database(DatabaseBase):
""""""
fids = load_fids(os.path.join(... |
1aebc3b39cb1eabf2405e1155e68b2d614c27210804b55b1979d85f9ec375e9a | Python | 4,609 | 201 | # Using Skorch
import torch
import skorch
import numpy as np
import pandas as pd
import matplotlib.pyplot as plt
from torch import optim
from torch.utils.data import DataLoader
# Basic Functions we use in Skorch
from skorch import NeuralNet
from skorch.callbacks import EpochTimer
from skorch.callbacks import PrintLog... |
1ebce255d9237b46178cb928efe108fbe69825cbfbb06996c5805ee84d451359 | Python | 4,610 | 103 | __author__ = 'tsungyi'
import cocoapi.PythonAPI.pycocotools._mask as _mask
# Interface for manipulating masks stored in RLE format.
#
# RLE is a simple yet efficient format for storing binary masks. RLE
# first divides a vector (or vectorized image) into a series of piecewise
# constant regions and then for each piec... |
fc77ed338774628a474face3ee2e6e58d17ce2813252b8f89de642eb6ac2afbf | Python | 4,614 | 123 | import os
import pyBigWig
from src.dataset import EncodeDataset
TEST_DATA_PATH = "data/test_data/"
class TestEncodeDataset:
def setup_method(self, test_method):
# read test intervals
sampling_intervals_path = os.path.join(TEST_DATA_PATH, "target_intervals.bed")
intervals = []
wi... |
c198a12eeb61c9c11ab4004d60e0242baeeff8491a6df013847480ff465ee7e7 | Python | 4,615 | 179 | # %% [markdown]
# ##
import os
import time
import matplotlib as mpl
import matplotlib.pyplot as plt
import numpy as np
import pandas as pd
import seaborn as sns
from matplotlib.patches import Circle
from mpl_toolkits.axes_grid1 import make_axes_locatable
from mpl_toolkits.mplot3d.art3d import Poly3DCollection
from sci... |
13c0bf7bb760ec149eb966cfaf74e5b267b752d2df76b0823c0d65729cdb98c4 | Python | 4,617 | 120 | """Blender-backed replacement for CARLA's FBX2OBJ (see references/maps.md).
Reproduces Util/DockerUtils/fbx/src/FBX2OBJ.cpp without the Autodesk SDK:
* SetMaterials() assigns ONE material per mesh node by substring on the node
name, first match wins; unmatched nodes fall back to "block". The names are
the c... |
d62b52715bb35438b7383fff3c6394e22b6c599184842f281c59fb103aa78644 | Python | 4,617 | 129 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
dfcfcb70dc323c518985e0890beb423a132b7305b9ee39416c2f4dc017ff9bf7 | Python | 4,617 | 129 | # Copyright 2020 Huawei Technologies Co., Ltd
#
# 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... |
a924440e60e091e84a30ed8be3b9b8a11368052dc87d85105847b72049118f82 | Python | 4,619 | 131 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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 ... |
c5b18ee1c5513fe953959f167c2f0b752f62250483caea2984452caf96f75888 | Python | 4,624 | 130 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
5337d6a6e4fa0bb5e149aebfa7093c1e74107cc2de15c6179bc30b6aeeec5537 | Python | 4,625 | 135 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
import unetsl.cli_interface
import unetsl.model
import unetsl.data
import sys
import pathlib
import re
import numpy
import keras
import random
def debugLog(message):
with open("debug-log.txt", 'a') as f:
f.write(message)
def createFlattenedM... |
3d5266a74c3a1dcbd9928aec35ba2cca5425ff6d5346652a0346373838c8a425 | Python | 4,626 | 120 | import math
import numpy as np
import torch
import torch.nn as nn
import torch.nn.functional as F
from scipy.special import gamma
class StaticFilter(nn.Module):
def __init__(self, channels, kernel_size, out_dim):
super().__init__()
assert kernel_size % 2 == 1, \
'kernel size of StaticF... |
d84051df2aeb1ccf544e0dcb377ce984429863234a15b43ca591a925df53bd2e | Python | 4,626 | 131 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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 ... |
3e853822940dd271ea70a76c653ccbb72b45e911e83bc4d6d56f76af75d8370d | Python | 4,627 | 100 | """
Read LRSTC files and plot for each patient a within correlation scatter plot
Make Linear regression on these and aggregate to one patient wide plot
"""
import glob
import pandas as pd
from matplotlib.ticker import FormatStrFormatter
import matplotlib.pyplot as plt
from matplotlib.patches import Rectangle
import sea... |
6db99280ed7098402403c8ccf779f49923a4486ab99806c878ab63d3615cc55a | Python | 4,627 | 152 | ###############################################################################
# Author: Bernard Hernandez
# Filename:
# Date:
# Description:
#
###############################################################################
# Generic
import uuid
import json
# Specific
from pathlib import Path
from datetime import ... |
13a705d06a2fac909d279f93ceb073b70986152075848785b60fad6f7b814f11 | Python | 4,629 | 130 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
031cc3b4a5b7f6967dec916b907d2ed4098c77b7877d8f04f16e37377d085fe1 | Python | 4,630 | 117 | #!/usr/bin/env python3
"""Verify an imported map on a RUNNING CARLA server (uncooked -game -nullrhi is
enough — a map needs no rendering to load and drive).
Boot the server directly on the imported base level, e.g.:
bash ../run-carla-server/scripts/run_server.sh /Game/<pkg>/Maps/<Name>/<Name> 2000 &
then:
pyth... |
0e8937e5e6bf393a282546ef413c2d91e4720143c7d05f53f7f66350d438a9ff | Python | 4,630 | 102 | import os
import numpy as np
import mindspore as ms
import mindspore.nn as nn
from src.callback import EvalCallBack
from src.resnet import conv_variance_scaling_initializer
def filter_checkpoint_parameter_by_list(origin_dict, param_filter, cfg):
"""remove useless parameters according to filter_list"""
for key... |
a8d620f52f1b3173d1456376e297aece6defa0217340db90b7f04b88cb7f8b2d | Python | 4,630 | 155 | #!/usr/bin/env python
# coding: utf-8
'''
@author: Mahbub Ul Alam (mahbub@dsv.su.se)
@version: 1.0+
@copyright: Copyright (c) Mahbub Ul Alam (mahbub@dsv.su.se)
@license : MIT License
'''
import logging
import socket
import sys
from datetime import datetime
import torch
import time
import wandb
from lstm import RNN_LS... |
6dcab7f82379eb02587ffe10118e6a24dcce4ca62e3cd5b0b7105a41cb0e9ca2 | Python | 4,632 | 73 | from pathlib import Path
from matplotlib import pyplot as plt
from metrics import calculate_lateral_errors, read_frames_driving
def draw_error_plot(ax, model_frames, expert_frames, title=None):
lat_errors = calculate_lateral_errors(model_frames, expert_frames, only_autonomous=True)
autonomous_df = model_fr... |
4d45d0557231ffb8d1c9952bb62e1c0f0621f6cbd7e0b43e2659ea2298a57abf | Python | 4,633 | 124 | import torch
from torch import nn
from ..utils import constant_init, kaiming_init
from .registry import PLUGIN_LAYERS
def last_zero_init(m):
if isinstance(m, nn.Sequential):
constant_init(m[-1], val=0)
else:
constant_init(m, val=0)
@PLUGIN_LAYERS.register_module()
class ContextBlock(nn.Modu... |
8a038410c795aff1f667135257444af4cfa96c7f0b8df1f9cd9a612ca125b97e | Python | 4,634 | 130 | import torch
from .builder import IOU_CALCULATORS
@IOU_CALCULATORS.register_module()
class BboxOverlaps2D(object):
"""2D IoU Calculator."""
def __call__(self, bboxes1, bboxes2, mode='iou', is_aligned=False):
"""Calculate IoU between 2D bboxes.
Args:
bboxes1 (Tensor): bboxes have... |
0be2d2268f48623c7e7c6b78529293b7b133b1851948c5ebd576575b76a39272 | Python | 4,635 | 136 | # Copyright 2020 Google Research. 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... |
6dfbae1e9548323d95d17fc393bcb1c00555df9998c2e7de67f53054142fd226 | Python | 4,635 | 125 | from .skeleton_data import *
def TrajData(
raw_positions, time, graph_info={}, traj_info={}, original_positions=None
) -> SkeletonTrajData:
assert raw_positions is not None, "raw_positions is None"
if graph_info["data_type"] == "invariant":
return InvariantTrajData(
raw_positions,
... |
8f00b5f7dcfab135affb2df0a0344b63aa7ff39804fc31273e09d366d9c02d2c | Python | 4,637 | 126 | # basic imports
import os
import pickle
import numpy as np
import matplotlib.pyplot as plt
from matplotlib.patches import Polygon
from matplotlib.collections import PatchCollection
def generate_polygons(DR):
P = []
for e, exp in enumerate(DR):
a = int(e/25)
s = e % 25
x = int(s/5)
... |
b07698ae3e26d3a3b53c030c0b2ccc70fe3a20391106c0fea54ff179a2d9cefc | Python | 4,637 | 162 | #%% [markdown]
## gzipping a connectome
# > A (perhaps silly) experiment running gzip on some connectome edgelists
#
# - toc: false
# - badges: false
# - categories: [pedigo, graspologic]
# - hide: false
# - search_exclude: false
#%%
import gzip
import os
import matplotlib.pyplot as plt
import networkx as nx
import nu... |
3d3a2d3395659a28451203a34fc17bf8ea2bf1cfcd4a00f3ebd3154c396c82ba | Python | 4,638 | 118 | # basic imports
import os
import pickle
import numpy as np
# framework imports
from cobel.agents.sfma import SFMAAgent
from cobel.interfaces.gridworld import InterfaceGridworld
def single_run(world: dict, trials: int = 20, batch_size: int = 20, number_of_replays: float = 20) -> (list, np.ndarray):
'''
This me... |
f023191b0295e46a49f40902bf6badea1caf292895798adefce5f13c5d829d9b | Python | 4,639 | 141 | import torch
from torch.nn import Parameter
import torch.nn.functional as F
import torch.nn as nn
from torch_scatter import scatter_mean
from torch_scatter import scatter_sum
from torch_geometric.utils import remove_self_loops, add_self_loops, softmax
# torch_geometric import
from torch_geometric.nn.inits import uni... |
8a71808252bd8ebdee0c28fcdcaa3e56e5b80365b34a4fa8c6d65ddb0d92ef83 | Python | 4,640 | 137 | """Base model class."""
import numpy as np
from sklearn.metrics import roc_auc_score, average_precision_score
import torch
import torch.nn as nn
import torch.nn.functional as F
from layers.layers import FermiDiracDecoder
import layers.hyp_layers as hyp_layers
import manifolds
import models.encoders as encoders
from m... |
e4133d687a308c1e048ddf36370955cf2fb84680be0858dbf7ed95c309850507 | Python | 4,641 | 128 | # Copyright 2022 Huawei Technologies Co., Ltd
#
# 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 a... |
48aff4918ed6e972a7ec1bf0fd305cc2bfe761699ceb64f4e03a2cc9f0470a58 | Python | 4,642 | 138 | # This script is part of navis (http://www.github.com/schlegelp/navis).
# Copyright (C) 2018 Philipp Schlegel
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of... |
7ccb1a77dcd9fb8655aaecc9a882e3386fb8d47393e1b6488c226ec7bf80e2fc | Python | 4,643 | 137 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
01cb798c246a811ca2573fd4668badc071ececabbf1b6c8368cc93c3dff36b00 | Python | 4,644 | 147 | #!/usr/bin/env python3
"""
Example usage of scHumanNet Python package.
This script demonstrates how to use the scHumanNet Python package for
cell-type-specific network analysis.
"""
import pandas as pd
import numpy as np
from schumannet import (
sort_add_lls,
get_centrality,
combine_perc_rank,
find_al... |
661d2d05b378d65787a8e251bd2f128203173ec9b0e8f1cd21bfeda7f210f68a | Python | 4,644 | 148 | import os
import time
import logging
## Plots
import matplotlib
# matplotlib.use('Agg')
import matplotlib.pyplot as plt
from matplotlib.patches import Ellipse
import seaborn as sns
import pandas as pd
import numpy as np
from sklearn.mixture import GaussianMixture
# from scipy.misc import logsumexp
... |
195e146dadc192351211b34ae75b3690a07b4c6fe0ba848babf2862ab0285e61 | Python | 4,645 | 118 | # Copyright (c) Facebook, Inc. and its affiliates. All Rights Reserved.
from collections import OrderedDict
import os
from tempfile import TemporaryDirectory
import unittest
import torch
from torch import nn
from maskrcnn_benchmark.utils.model_serialization import load_state_dict
from maskrcnn_benchmark.utils.checkpo... |
2ee0bf2dc460052ac390e745284715f7ce4258b2774c1da81e25b2257b7c078e | Python | 4,646 | 130 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
82ad95335c22559c7d208e63966b49365cb8fb294248075890ac494938207d54 | Python | 4,646 | 115 | import os
import sys
import json
import shutil
import datetime
from xml.dom.minidom import ReadOnlySequentialNamedNodeMap
def cleanup(day):
infofile = "setup_information.json"
f = open(infofile)
info = json.load(f)
f.close()
save_dicoms = False
if info['save_dicom_data_switch'] == "True":
... |
d963a6de13335b189a97d37cc022ad9ca6cf0306058abd70d0040cf3401d3736 | Python | 4,646 | 120 | ####################################################################################################
# Copyright (c) 2019 - 2023, EPFL / Blue Brain Project
# Author(s): Marwan Abdellah <marwan.abdellah@epfl.ch>
#
# This file is part of VessMorphoVis <https://github.com/BlueBrain/VessMorphoVis>
#
# This program is free ... |
7f6c54d69e4743184a2f43cdd1366faaec0a10535666ee6bcaffc883453d3b8a | Python | 4,647 | 126 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
81cb48cd612dc133a3b1b3f5676936f06b76f55b4f3b89c247e5304a75571e43 | Python | 4,648 | 136 | """
python centerline_cli.py --dataset constantx5b5
for DATASET in constantx5b5 switch45x5b5 noisy3x5b5; do
python centerline_cli.py --dataset $DATASET &
done
"""
import warnings
warnings.simplefilter(action='ignore', category=FutureWarning)
import sim_utils
import argparse
import pandas as pd
import config
impo... |
bbd026b7571fae14b2bdaaa3772fa43626039f8ac3b6bb807e4445c6af3a1baf | Python | 4,650 | 116 | '''
@author: Mahbub Ul Alam (mahbub@dsv.su.se)
@version: 1.0+
@copyright: Copyright (c) Mahbub Ul Alam (mahbub@dsv.su.se)
@license : MIT License
'''
'''@file early_sepsis_detector.py
run this file to go through the complete neural net training, testing and evaluating procedures,
look at the 'early_sepsis_detector_con... |
59f471d5592a1071965e7d324739512d891b764fbd29b5a3d391af88284bf422 | Python | 4,652 | 185 | import os
from collections.abc import Generator
from pathlib import Path
def readlines_reverse(filename: Path) -> Generator[str, None, None]:
"""Read file, line by line, backwards"""
with open(filename) as qfile:
qfile.seek(0, os.SEEK_END)
position = qfile.tell()
line = ""
whil... |
db370b2f1fa36cf38899cc246e7ee43857cc676137e176cbe5f878d8cbd4f887 | Python | 4,653 | 137 | #coding = utf-8
# Copyright 2021 Huawei Technologies Co., Ltd
#
# Licensed under the BSD 3-Clause License (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# https://opensource.org/licenses/BSD-3-Clause
#
# Unless required by applicable law ... |
40fb3f67da203fec4f6efa21dabf3ea8ef663642b1c7f4cdf2993b46c576b688 | Python | 4,654 | 137 | #coding = utf-8
# Copyright 2021 Huawei Technologies Co., Ltd
#
# Licensed under the BSD 3-Clause License (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# https://opensource.org/licenses/BSD-3-Clause
#
# Unless required by applicable law ... |
365ae50dac1b494bdee3320a6fc749e32d6936efc74da7952fbab52aa603d3a1 | Python | 4,655 | 97 | """Shared plumbing for the ``api_*.py`` demos (Python API, no CLI subprocess).
Every demo connects the same way the CLI does — ``--endpoint``/``--token``,
else ``COSMOS_URL`` / ``COSMOS_TOKEN`` — fails fast with an actionable message
when the node is unreachable or the backend is not loaded, and stores whatever
comes ... |
7817042aaceb33a629c4e76cafe280ab5153cf638bffab5161409b850f32cf7d | Python | 4,657 | 108 | import os, sys
currentdir = os.path.dirname(os.path.realpath(__file__))
parentdir = os.path.dirname(currentdir)
sys.path.append(parentdir) # PYTHON > 3.3 does not allow relative referencing
import argparse
from configparser import ConfigParser
from shutil import copy2
import os
from datetime import datetime
import dd... |
b907b50fd281563476a23b357eb7c601c6bf27829da88f403241175e9a9725b7 | Python | 4,657 | 128 | from time import time
import tensorflow as tf
import numpy as np
from globals import TARGET_ERROR, MARGIN
"""
Ported from Icarte's formulation from https://bitbucket.org/RToroIcarte/bnn/
Modified to allow for any integer precision, i.e. 1 (binary) or 3,7,15 etc
"""
class GD_NN:
def __init__(self, data, N, architectur... |
f44be993bbfa357ce3be073447986be08122955f16d84fe668b88691bec86b04 | Python | 4,657 | 138 | # Copyright 2020-2022 Huawei Technologies Co., Ltd
#
# 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 agre... |
3266ad6814095cf50fa15d917cea8916c2b64009edbab9d913336a41f54a7777 | Python | 4,659 | 129 | from __future__ import annotations
from visualization_utils import ImageType, generate_aim_spec, align_aims, read_image_to_numpy
from bonelab.util.aim_calibration_header import get_aim_density_equation
from bonelab.util.vtk_util import vtkImageData_to_numpy
from vtkbone import vtkboneAIMReader
from enum import Enum
i... |
f9485e22d8c22207bdce356a078ae4f66252efe82b8e4815e762bfefa2a8f255 | Python | 4,659 | 169 | # model settings
type = 'Retinanet'
model = dict(
type='NASRetinaNet',
pretrained=dict(
use_load=True,
load_path='./seed_mbv2.pt',
seed_num_layers=[1, 1, 2, 3, 4, 3, 3, 1, 1] # mbv2
),
backbone=dict(
type='RetinaNetBackbone',
search_params=dict(
... |
3f554b4345fa472234c4923ad0ded0e89dabbe8944da199584648699d20c96e1 | Python | 4,660 | 117 | from typing import List, Tuple, Dict, Iterable
from oaklib.datamodels.vocabulary import IS_A, PART_OF
from oaklib.interfaces import OntologyInterface, BasicOntologyInterface
from oaklib.interfaces.obograph_interface import OboGraphInterface
from oaklib.types import SUBSET_CURIE, PRED_CURIE, CURIE
from oaklib.utilities... |
7f3b81d9055237126de59c232acf0da3080c1fd36b2b14099ef794a2668ddd89 | Python | 4,660 | 126 | import numpy as np
import matplotlib.pyplot as plt
from scipy.interpolate import interp1d
from pathlib import Path
class MaterialHandler(object):
'''Class providing material properties.
:param energy_bins: Number of energy bins (step of 1 kV) used for polychromatic simulation
:type config: :class:`int... |
b1a17bf32b407db5d4a8a893725834e01f2e3f7a5ff40a4041f96b3e67a57bf8 | Python | 4,660 | 116 | import numpy as np
import pandas as pd
import matplotlib.pyplot as plt
import sys as sys
from mpl_toolkits.mplot3d import axes3d
from scipy.spatial import distance
import matplotlib.cm as cm
import seaborn as sns
from sklearn.preprocessing import OrdinalEncoder
# check distances between points to detect overlaps
def ... |
3156636b5ec254fbae6edde04c80fe1d9f2834537b5086ad0712afa2f5ec5584 | Python | 4,661 | 130 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
4b6fbcbfd973a4f816782f82e106bdccb30529101047403d6d5c5c7ebff61475 | Python | 4,662 | 113 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
75ebfd89d0905c2c6ef38a06860db22ee12b923b35af5d39922b5c35f3ff595a | Python | 4,663 | 123 | # Copyright 2022 Huawei Technologies Co., Ltd
#
# 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... |
e1179e507c5eedf03e9a36ec485c4ebe0dd252a566c3e9c888354b47f0fec058 | Python | 4,664 | 179 | #!/usr/bin/env python3
"""Tests for io."""
import os
import sys
import nibabel as nib
import numpy as np
import peakdet as pk
import pymatreader
import pytest
from scipy.io import savemat
from phys2cvr import io
# ## Unit tests
def test_load_nifti_get_mask(nifti_data, nifti_mask):
# Test loading a nifti file ... |
51708a448d6769a86ec64e9ab5e37107b08ea9656b65ac3c8885732fce056062 | Python | 4,665 | 190 | import os
import numpy as np
from zipfile import ZipFile
from PyQt5 import QtCore, QtGui
COLORMAPS_PATH = 'Content/colormaps.zip'
def interp_values(values, stops, n_colors=256):
"""
Linear interpolation of a given vector of values, taken at given stop points in [0, 1]
"""
ip_vals = np.zeros(n_color... |
59fcbaad5bf04f7e440fd2a4f724d9d4cc2849c83571420428cebf267f6a5d20 | Python | 4,665 | 130 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
4bb8ea2ad09a24e1df8f5c744e84b9c4853309d18d996becbaab429a430a097e | Python | 4,667 | 143 | """ This program is for tracking zebra fish around in a tank."""
"""IMPORTS"""
import numpy as np
import cv2
from skimage import feature
import time
import matplotlib.animation as am
from matplotlib import pyplot
import csv
import configparser
"""GLOBALS
unfortunatly the trajectory must be global due to the way t... |
8bbbb55b5e5d01e896ee29b045548c880385ac475a9d61cc3ef63aa7b15d70cd | Python | 4,667 | 131 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
7a9a361eec37844db0afdacfb8f3c45ceca5a38b58f9dd41a7031c3248fa6f80 | Python | 4,669 | 136 | # Copyright 2021 Huawei Technologies Co., Ltd
#
# 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... |
beb4e72e1496bbb27f7f7490b08f10e607896bd9a4cd4391e26371be3601d565 | Python | 4,669 | 122 | #!/usr/bin/env python3
#
# Copyright (c) 2018 Institute for Basic Science
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to u... |
131120aeffb2dd56122993fc5273114c39e7823f7d359cf79434e5fd2984882b | Python | 4,671 | 136 | import os
import numpy as np
import argparse
import glob
import math
import ntpath
import shutil
import urllib
# import urllib2
from datetime import datetime
import warnings
warnings.filterwarnings("ignore")
import pandas as pd
from mne.io import concatenate_raws, read_raw_edf
import dhedfreader
... |
e28e429027e3b4dedbf67c32f8a08fff8c664e829909603e3e94793a59a61dfe | Python | 4,673 | 124 | import numpy as np
import torch
from base import BaseTrainer
from utils import inf_loop, MetricTracker
import torch.nn as nn
selected_d = {"outs": [], "trg": []}
class Trainer(BaseTrainer):
"""
Trainer class
"""
def __init__(self, model, criterion, metric_ftns, optimizer, config, data_loader, fold_id,
... |
e46fa2fb35ace3b55e82afd2890d75d4f01c975c8d4efc18046f41d91e5f30f3 | Python | 4,673 | 133 | """
This code is modified from networkx.
"""
import torch
import random
import numpy as np
import networkx as nx
device = "cuda" if torch.cuda.is_available() else "cpu"
def swap(G, subset: list = None, nswap: int = 1,
max_tries: int = 100, seed: int = None):
"""Swap two edges in the subgraph while keepin... |
11ea8e05889c404c52b11216ad9b0eee769e77430abebf94bb9ccd7ec493d714 | Python | 4,674 | 136 | import numpy as np
import torch
import torch.nn as nn
def _compute_fans(shape):
"""Computes the number of input and output units for a weight shape.
Args:
shape: Integer shape tuple .
Returns:
A tuple of scalars `(fan_in, fan_out)`.
"""
if len(shape) < 1: # Just to avoid errors fo... |
e69aec65dff3e1c70bba3b3d9f10dd7e62769ae0f487204781e639786b431244 | Python | 4,677 | 151 | #! /usr/bin/env python
# Copyright 2016 Vimal Manohar
# Apache 2.0.
"""Prepare NA News Text Corpus (LDC95T21)
or NA New Text Supplement Corpus (LDC98T30)."""
from __future__ import print_function
import argparse
import gzip
import logging
import re
import subprocess
import sys
from bs4 import BeautifulSoup
sys.... |
50bf63b6bbf1a0064441d1c07de266706d16c3d752ee5149440fd1fabef7a354 | Python | 4,679 | 122 | #!/usr/bin/env python3
# -*- coding:utf-8 -*-
#############################################################
# File: fs_model_fix_idnorm_donggp_saveoptim copy.py
# Created Date: Wednesday January 12th 2022
# Author: Chen Xuanhong
# Email: chenxuanhongzju@outlook.com
# Last Modified: Saturday, 13th May 2023 9:56:35 am
#... |
e8a5a609f1b77158796f97c368656a2914e8d6898c1982461d78c794f3f2ec9b | Python | 4,679 | 118 | """On-disk clip layout.
::
<clip_dir>/
manifest.json ClipManifest (contracts.py)
rgb_<camera>.mp4 H.264 crf 14
depth_<camera>.mp4 seg_<camera>.mp4 H.264 4:4:4 lossless-mode controls
edge_<camera>.mp4 optional
sema... |
1a84c94e7e196ed5786d476eab5446f3c768dd22a4701221fbf803857b2e97ef | Python | 4,683 | 99 | # Copyright 2022 Huawei Technologies Co., Ltd
#
# 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... |
47727c2af9bee6c65c5f3d225e93b5e929139152de9284ca61cf124d960c7adc | Python | 4,683 | 135 | '''
@author: Mahbub Ul Alam (mahbub@dsv.su.se)
@version: 1.0+
@copyright: Copyright (c) Mahbub Ul Alam (mahbub@dsv.su.se)
@license : MIT License
'''
import torch
from transformers import AutoTokenizer, AutoModel, AutoConfig
import pandas as pd
import pickle
import sys
device = torch.device("cuda:0" if torch.cuda.is_av... |
c71cb849eb00645ba0d8f9d5b5663c99882d7bdd32b8a31f10d2e89d9a48643b | Python | 4,683 | 133 | from typing import List, Union
from torch import nn
from torch.nn import functional as F
from neuralop.utils import validate_scaling_factor
class DomainPadding(nn.Module):
"""Applies domain padding scaled automatically to the input's resolution.
Parameters
----------
domain_padding : float or list
... |
d330cd6899796524b04aff4b82805a9fa7dd49a3e96ff6a8ccf6ba357eca16d7 | Python | 4,684 | 147 | import pandas as pd
import numpy as np
from tqdm.auto import tqdm
from typing import Optional, Union, Callable
def renormalize_df(
df: pd.DataFrame,
normalize_keys: list[str],
norm_range: tuple[float, float] = (-10, +10),
recenter_range: Optional[tuple[float, float]] = None,
) -> pd.DataFrame:
_id... |
f52ae991ac7b6987ea38228be11e37da942d22d807ac31532695788d738c8060 | Python | 4,687 | 116 | import os, sys
currentdir = os.path.dirname(os.path.realpath(__file__))
parentdir = os.path.dirname(currentdir)
sys.path.append(parentdir) # PYTHON > 3.3 does not allow relative referencing
import nibabel as nib
import re
import medpy.metric as medpy_metrics
import pandas as pd
import numpy as np
from tqdm import ... |
ab8a6dcc0dee72d306aedbaaf0bee317a9e43c50389c5a6fb0c5169699a9bda8 | Python | 4,688 | 121 | # Copyright 2022 Huawei Technologies Co., Ltd
#
# 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... |
75f1ec09cd45049a1b6865205e63a6311b7ed028e58cf9504dd2764aa4b77ba1 | Python | 4,689 | 134 | """
Static: Power Analysis
======================
In this tutorial we will perform static power analysis on source space MEG data. This tutorial covers:
1. Getting the data
2. Calculating power from spectra
"""
#%%
# Getting the data
# ^^^^^^^^^^^^^^^^
# We will use resting-state MEG data that has already been sourc... |
c9e5edc7c933eb8474d770794ca2e0d23b2301e75136a8599d15dbe3d7cbf663 | Python | 4,691 | 153 | from os.path import basename
from pathlib import Path
import numpy as np
import pandas as pd
from sacred import Experiment
from sacred.observers import FileStorageObserver, SlackObserver
from graspy.models import SBMEstimator, DCSBMEstimator
from src.data import load_left, load_right
from graspy.utils import binarize,... |
649e0531a2a54f2c26995e39a461d036d478ba46695437ab86d8ca1541947d75 | Python | 4,692 | 128 | # Author: Christian Brodbeck <christianbrodbeck@nyu.edu>
import numpy as np
from numpy.testing import assert_array_equal
import pytest
from eelbrain.testing import assert_dataobj_equal
from eelbrain import Categorial, Factor, NDVar, Scalar, UTS, Var, datasets, table, combine
def test_cast_to_ndvar():
"Test table... |
6f45e762c38d73167f3d539eb88503b07d4186b67a468b9c47cd26a9a3241b80 | Python | 4,692 | 133 | ###################################################################
####
#### Version: 1.1.7
#### Date: 6/24/2023
#### Description: This files contains functions for logging, error handling, pickling, and other global functions.
#### Author: Evan Cobb
####
###############################################################... |
fd768bec40220e9d3b6564d482bde7d8d1c5035c94f120df635e0e9a8d80b835 | Python | 4,692 | 117 | #!/usr/bin/env python3
"""Check inward lean on a dedicated CARLA server (replaces its current map).
Example: python test_two_wheeler_lean.py --port 4654 --output lean.json
Works with a -nullrhi server. Tests all seven legacy two-wheelers on a flat,
wide OpenDRIVE road, so road banking and collisions cannot mimic body ... |
63e3526739d6796e23a87499216d7e0c4832cf28a9428cbdda659ccf99d5925f | Python | 4,693 | 63 | import sys
sys.path.insert(0, '.')
from svgkit import Svg, C, render_png
W, H = 1260, 900
s = Svg(W, H)
s.text(W / 2, 44, "Recorder .log file layout", size=26, weight="bold", anchor="middle")
s.text(W / 2, 72, "Every frame repeats the same packet sequence; a packet with no records still has its header",
size=14.... |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.