sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
f3fdd6b890e250124557cba35360a1297cac5bdbc4925325403b44bf290956e9 | Python | 2,034 | 60 | # Copyright (c) 2021, NVIDIA CORPORATION. All rights reserved.
#
# NVIDIA CORPORATION and its licensors retain all intellectual property
# and proprietary rights in and to this software, related documentation
# and any modifications thereto. Any use, reproduction, disclosure or
# distribution of this software and rel... |
14a67b2f0e9779408bff77fe97e93083e8538e18875a4ad2fda18e7e3accfa78 | Python | 2,036 | 63 | #!/usr/bin/env python
# SPDX-FileCopyrightText: © 2025 NVIDIA CORPORATION & AFFILIATES. All rights reserved.
#
# SPDX-License-Identifier: MIT
"""
Blueprint Size Extraction Tool
Connects to a CARLA server, measures every vehicle and walker blueprint via
BlueprintLibrary's live spawn-probe, and writes the results to th... |
04d23f6231497c7d34aec8eebffdeb8c854fc6b8e08cb75ac7bb1e50dbbf0f32 | Python | 2,038 | 56 | # 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... |
082664def6acd1dab87e5a099e423d735b372dc9daa4e331222508801eca776e | Python | 2,038 | 60 | import warnings
from collections import OrderedDict
import torch.distributed as dist
from mmcv.runner import OptimizerHook
from torch._utils import (_flatten_dense_tensors, _take_tensors,
_unflatten_dense_tensors)
def _allreduce_coalesced(tensors, world_size, bucket_size_mb=-1):
if buck... |
568e06d32b5816411296babc0620128e198ad0ee4e53e493c4f808c59acafbdc | Python | 2,038 | 68 | import os
import numpy
from subprocess import Popen, PIPE
import pymesh
from default_config.global_vars import apbs_bin, pdb2pqr_bin, multivalue_bin
import random
"""
computeAPBS.py: Wrapper function to compute the Poisson Boltzmann electrostatics for a surface using APBS.
Pablo Gainza - LPDI STI EPFL 2019
This file ... |
7f8e526c314e0e6b1bbd11909afe048d5d93ee6646d044380c3195298467b6a0 | Python | 2,038 | 54 | # 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... |
8fb70672b00b2a34d1d506ce2d87e41a8fe16312ad61b873bf1f0634bb7ad285 | Python | 2,038 | 75 | """Post-hoc calculation of state-spectra using a multitaper.
"""
from sys import argv
if len(argv) != 3:
print("Please pass the number of states and run id, e.g. python 4_calc_multitaper.py 8 1")
exit()
n_states = int(argv[1])
run = int(argv[2])
#%% Import packages
import os
import pickle
import numpy as n... |
6685fe15d9f14094789ec6d128f9245b630e4c2225051d04ba24cf2609cd69fa | Python | 2,041 | 59 | '''
Ohmic IK model with HH-like equations, for fitting depolarized responses in deciliated cells.
'''
from file_management import *
from brian2 import *
from brian2modelfitting import MSEMetric
from fitting import *
from plotting import plot_fits
from brian2.units.constants import faraday_constant as F
from brian2.unit... |
c226cf5e741af7b87116ae0c470ad79906fa9fa9747acba8346a5a675b5c47d1 | Python | 2,041 | 30 | """3D boxes of traffic lights + signs on the gallery RGB (static level geometry, same pose)."""
import json, os, sys
import numpy as np, carla
from PIL import Image, ImageDraw
D, OUT = sys.argv[1], sys.argv[2]
meta = json.load(open(os.path.join(D, "meta.json"))); W, H, FOV = meta["w"], meta["h"], meta["fov"]; p = meta[... |
fb7b5a91f770f8f67fc09f2d8f66240c07de0d25e85ca8afbcdd34b2e014a9c7 | Python | 2,041 | 66 | # 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... |
6776812235de243fcba31fe5ed80e972ecb56c1938bd88a88411223c3591e7a5 | Python | 2,043 | 69 | # Copyright (c) Facebook, Inc. and its affiliates. All Rights Reserved.
#!/usr/bin/env python
import glob
import os
import torch
from setuptools import find_packages
from setuptools import setup
from torch.utils.cpp_extension import CUDA_HOME
from torch.utils.cpp_extension import CppExtension
from torch.utils.cpp_ext... |
bf75b0adcadddde3fa600abe8e8a1c901675241a6b50331feb8813c4c31033d5 | Python | 2,043 | 65 | import random
import torch
import numpy as np
import matplotlib.pyplot as plt
from sklearn.metrics import f1_score
from graphxai.gnn_models.node_classification import BA_Houses, GCN, train, test
from graphxai.datasets.feature import make_network_stats_feature
from graphxai.explainers import GradExplainer
from graphxai... |
7b82a337b728f06594c83861386b7e2a2c6e06babb56cff8809f8bd4748b1181 | Python | 2,044 | 62 | import probflow as pf
import torch
from torch import nn
import torch.optim as optim
from sklearn.model_selection import train_test_split
class MultivariateRegression(pf.Model):
def __init__(self, dims, head_dims):
self.net = pf.DenseNetwork(dims)
self.mean = pf.DenseNetwork(head_dims)
self... |
afc2da286f18206d2f14d3f24258abab43db987677a7efb9eeeac43abae8b6a3 | Python | 2,045 | 41 | # 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... |
0e9e5adf2255459d43274bff7a7151102b63c962208e7e5c61e0f4e56948193c | Python | 2,046 | 65 | """
The processing module contains functions to process fNIRS signals.
"""
import numpy as np
def cbsi(delta_c, ch_names, ch_types):
"""
Apply correlation based signal improvement (from Cui at al., 2010) to
hemoglobin concentration changes.
Correlation based signal improvement (CBSI):
x_... |
110c4932eed69e1d189efe35a81fabe47623a48fdcfd4f81ac1ebd9293c4c61f | Python | 2,046 | 34 | # Class to create a codon table for humans
# data from http://www.kazusa.or.jp/codon/cgi-bin/showcodon.cgi?species=9606&aa=1&style=N retrieved on 11/20/2014
# accessor methods to return avg codon frequency for a sequence or to find the stretch of N codons with minimum frequency, and what that frequency is
class Hum... |
815c83bb0a9dc87d214909b6da766485ace6d61072e8b437a097617d2059c2fb | Python | 2,047 | 77 | #%%
import os
try:
os.chdir('/Volumes/GoogleDrive/My Drive/python_code/connectome_tools/')
print(os.getcwd())
except:
pass
#%%
import pandas as pd
import numpy as np
import seaborn as sns
import matplotlib.pyplot as plt
import connectome_tools.process_matrix as promat
import pymaid
from pymaid_creds import... |
869b51863f73f3e3d6ec5a607bda1b0bad41219018b182184205ae522c9b1ec2 | Python | 2,048 | 55 | # 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... |
c5c3026445ac2dc26517f2e6b036f6fedcf64fdfa1d62fd75a4a4a23d6f48bf6 | Python | 2,048 | 53 | """Restore the tire-force application point used by the legacy two-wheelers.
Run with UnrealEditor-Cmd <project> -run=pythonscript -script=<this file>
-nullrhi -unattended -nosound. Set FIX_TWO_WHEELER_DRY_RUN=1 to inspect only.
These assets balance on four virtual outrigger wheels with a lowered center
of mass. Phys... |
bbd9be0a6f053e5975fd66daacaa08eaa1af0478d6f8793c0541a675f567c569 | Python | 2,049 | 59 | '''
Ohmic IK model with bell-type time constant, for fitting depolarized responses in deciliated cells.
'''
from file_management import *
from brian2 import *
from brian2modelfitting import MSEMetric
from fitting import *
from plotting import plot_fits
from brian2.units.constants import faraday_constant as F
from brian... |
d1e94f2d3df811d8bcb4740de80500b621f648a62b88c0edda43256bdb5c42e6 | Python | 2,049 | 56 | import unittest
import numpy as np
from alpamayo_rig import (
CAMERA_INDICES,
CAMERA_NAMES,
DASHBOARD_CAMERA_INDICES,
DISPLAY_CAMERA_INDICES,
TRAJECTORY_CAMERA_INDICES,
)
from alpamayo_schema import validate_request
def valid_request():
metadata = {"camera_names": list(CAMERA_NAMES)}
arr... |
1518cd75bd54c2e9238a44903fee020d3fcacd5639cea2c17bb10919a0c3de02 | Python | 2,050 | 52 | from numpy.distutils.core import setup, Extension
from numpy.distutils.misc_util import get_numpy_include_dirs
import os, sys
mods = ['gradunwarp.core.coeffs', 'gradunwarp.core.globals',
'gradunwarp.core.__init__', 'gradunwarp.__init__',
'gradunwarp.core.utils',
'gradunwarp.core.unwarp_resamp... |
08b745a432c6f0f9f768f4ecb2bce47e7fdb1a9863479fe08eb11cd60042d043 | Python | 2,052 | 53 | # 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... |
adf1c18490422d33a559f5cdf09aadfb857ac459c7f4b0f875af3d776bb12bb8 | Python | 2,052 | 50 | """Apply neurotransmitter-based excitation/inhibition signs to the connectome.
Winding's Supplementary Data S1 does NOT include neurotransmitter labels — those live
in the Science paper's Supplementary Table S2. Until that table is wired in here, we
fall back to canonical-class conventions that are correct for >95% of... |
b042772936382e974f400c30c1585d58603e3a60f8284465ef694e4561ed38a5 | Python | 2,053 | 54 | import logging
import subprocess
from pathlib import Path
from typing import List
def pipe_subprocess(cmd1: List[str], cmd2: List[str]):
# https://stackoverflow.com/questions/13332268/how-to-use-subprocess-command-with-pipes
# https://stackoverflow.com/questions/13332268/how-to-use-subprocess-command-with-pipe... |
257b0a06b7dbb9d31f42e9c1b1a383c9d4d3bbcec13f88e131c349a1ecffe8f6 | Python | 2,054 | 84 | #!/usr/bin/env python
"""
GTF.py
Kamil Slowikowski
December 24, 2013
Read GFF/GTF files. Works with gzip compressed files and pandas.
http://useast.ensembl.org/info/website/upload/gff.html
Downloaded by SNF on 12/30/14 from https://gist.github.com/slowkow/8101481
- pandas support removed to minimize package re... |
9017e79d8b68d641c348d5217ac95f2788f9c1216543aef3b80100c87db65f76 | Python | 2,055 | 50 | # %%
from pymaid_creds import url, name, password, token
import pymaid
rm = pymaid.CatmaidInstance(url, token, name, password)
import matplotlib.pyplot as plt
import seaborn as sns
import numpy as np
import pandas as pd
import connectome_tools.process_matrix as pm
import connectome_tools.celltype as ct
import navis
... |
ce1000d7f46cb49cb0a5400845ed4979e695b40040743178fb29d0b9dcebd718 | Python | 2,055 | 49 | # 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 the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# bu... |
2f8044ee9c6f610f35ddcdb4b5668cb038617f5640a93440ea3b360dc785e205 | Python | 2,056 | 79 | import numpy as np
import matplotlib.pyplot as plt
import matplotlib as mpl
from scipy import optimize
def pred_CV_squared(n, pr):
"""square of CV should be given by following formula"""
###CV^2 = (1 - pr[ca])/ (n * pr[ca])
#vector size of pr
return (1 - pr)/(n * pr)
def fit_CVs (N, CVs):
... |
a40b6182d5376ddcc99edb8f77ef02d685fab10083c54a3d8d140ed7143fbf3e | Python | 2,056 | 56 | # 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... |
b9553c2603da9292a6919984a31b42dfd2a6bd6767418442155af5bde8e6b733 | Python | 2,056 | 57 | # 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... |
f23f7d1862c7c2eaade120ef880a91341fe515ab2b1f59ee02145a76fc49f7be | Python | 2,056 | 56 | # Configuration file for the Sphinx documentation builder.
#
# This file only contains a selection of the most common options. For a full
# list see the documentation:
# https://www.sphinx-doc.org/en/master/usage/configuration.html
# -- Path setup --------------------------------------------------------------
# If ex... |
11995e0bfeeb7abcd563132ec2140cfc03f21e0c7d159e88b4552987a78f18c4 | Python | 2,057 | 63 | ##
import os
import h5py
import scipy.sparse as sp_sparse
import time
import scanpy
import anndata
## =============================================================================
## Run Code
## =============================================================================
... |
4e80a60f70b059366863983e3c2d95bcded4a0c6a84b67e294606043aa8d0158 | Python | 2,057 | 72 | import sys
import numpy as np
import circularFiltering as flt
from time import time
kappa_z_array = np.array([0.01,0.03,0.1,0.2,0.3,0.4,0.5,0.6,0.7,0.8,0.9,1,2,3,4,5,6,7,8,9,10,30,100])
len_kz = len(kappa_z_array)
# translate input varibles
kappa_star = float(sys.argv[1])
beta = float(sys.argv[2])
# number of iterat... |
9b6031bc715fe0aacee5b222051f82f6485c7b77c6a389a6392a390535d7e024 | Python | 2,057 | 55 | # Configuration file for the Sphinx documentation builder.
#
# This file only contains a selection of the most common options. For a full
# list see the documentation:
# https://www.sphinx-doc.org/en/master/usage/configuration.html
# -- Path setup --------------------------------------------------------------
# If ex... |
9d5914317abfa8dfbd7d7c326ad17540a3539342e5d56de26b3114fe8068c930 | Python | 2,057 | 50 | # Copyright (c) Open-MMLab. All rights reserved.
from itertools import chain
from torch.nn.parallel import DataParallel
from .scatter_gather import scatter_kwargs
class MMDataParallel(DataParallel):
def scatter(self, inputs, kwargs, device_ids):
return scatter_kwargs(inputs, kwargs, device_ids, dim=sel... |
e4b2443328522f6f10c3e38236e0babbe56c8e502826ae7ce26ee66c48cc0ff8 | Python | 2,057 | 51 | import torch
from .roi_keypoint_feature_extractors import make_roi_keypoint_feature_extractor
from .roi_keypoint_predictors import make_roi_keypoint_predictor
from .inference import make_roi_keypoint_post_processor
from .loss import make_roi_keypoint_loss_evaluator
class ROIKeypointHead(torch.nn.Module):
def __i... |
33a4aa0ce45168ebfd82060cdd7b9893f7dac7f7bea99f74bf7ad5a1457906c4 | Python | 2,059 | 51 | from builtins import super
import numpy as np
from .expectation_maximization_registration import expectation_maximization_registration
class affine_registration(expectation_maximization_registration):
def __init__(self, B=None, t=None, only_t=False, *args, **kwargs):
super().__init__(*args, **kwargs)
... |
d020d57df44d59c481bad8e698b01c6cdac5216c73598783d520c3cce6b55fc4 | Python | 2,060 | 57 | # 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... |
6d88c4e937f5b589d04e6a75c7ef03e84d0b6beb2a84d72f58ccc45bf7568bc6 | Python | 2,061 | 64 | #//=============================================================
#//Copyright(c) 2011 G. Gogoshin
#//Distributed under MIT-style license.
#//(see LICENSE.txt or visit http://opensource.org/licenses/MIT)
#//=============================================================
# Do not modify next 6 lines
import bnomics
impor... |
785753747fae204ec3fd169e8e481f169d6b0d7ae75f4f80068c02baaa478087 | Python | 2,061 | 68 | import sys
sys.path.insert(0, '.')
import numpy as np
import torch
import time
def computeTime(model, device='cuda'):
inputs = torch.randn(30, 3, 512, 512)
if device == 'cuda':
model = model.cuda()
inputs = inputs.cuda()
model.eval()
time_spent = []
for idx in range(100):
... |
92a1a04b20621d76b5cb3ac454fcc8b54350580d34b2e1ee6505e907bb53bbb8 | Python | 2,061 | 65 | import random
import torch
import numpy as np
import matplotlib.pyplot as plt
from sklearn.metrics import f1_score
from graphxai.gnn_models.node_classification import BA_Houses, GCN, train, test
from graphxai.datasets.feature import make_network_stats_feature
from graphxai.explainers import IntegratedGradExplainer
fro... |
f54ad32096a0e2f69f712c893bff4ee966a1576b1a1c6eac754578d575ec2141 | Python | 2,062 | 49 | # 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... |
14a5522be5d6b2559d51f62e24a1a0ddbd48e89e4aaa2c2c0672c5d8022e68d9 | Python | 2,063 | 63 | #!/usr/bin/env python
"""Example segmentation script
To generate normalized cuts ROIs in all SIMA datasets:
>> python segmentation.py /path/to/sima/datasets
For help and additional arguments:
>> python segmentation.py --help
"""
import os
import argparse
from sima import ImagingDataset
def locate_datasets(search... |
27920e84965ecaf8e21d167c3e9aeb03b7ed80bfa497d5b4c7496dde25f8bf74 | Python | 2,064 | 68 | from random import randint
from subprocess import Popen, PIPE
from hcbr import HCBRClassifier
import numpy as np
from sklearn.metrics import accuracy_score, matthews_corrcoef
from sklearn.model_selection import train_test_split, RepeatedStratifiedKFold, RepeatedKFold
HCBR_BIN = '../../../build/hcbr'
DATASET = 'brea... |
0b32e77eb416c1b2de8c9018a1ee8b5e59bd0e1b455b43db556426a1154bc922 | Python | 2,065 | 76 | #%%
from pathlib import Path
from operator import itemgetter
import numpy as np
import pandas as pd
import matplotlib.pyplot as plt
import seaborn as sns
from graspy.datasets import load_drosophila_left, load_drosophila_right
from graspy.plot import heatmap
from graspy.utils import get_lcc
data_path = Path("./maggo... |
08f419a6277d4f4b8d17d5a389ad09d8e2403c62c84429d5e59ed7eddd8d031a | Python | 2,066 | 62 | # Copyright (c) Facebook, Inc. and its affiliates. All Rights Reserved.
from torch import nn
class FastRCNNPredictor(nn.Module):
def __init__(self, config, pretrained=None):
super(FastRCNNPredictor, self).__init__()
stage_index = 4
stage2_relative_factor = 2 ** (stage_index - 1)
r... |
c9e1836c5eec9f70ed4c408b6cfef1182360e311e28f76d6594bc3b8b52f0191 | Python | 2,066 | 56 | import torch.nn as nn
import math
from .derive_blocks import derive_blocks
from .operations import Conv1_1
class ImageNetModel(nn.Module):
def __init__(self, net_config):
super(ImageNetModel, self).__init__()
self.blocks, parsed_net_config = derive_blocks(net_config)
self.blocks.append(Con... |
ee4f1c1f674a4aa97c1b00ada03654efc3a01f3313b62d38fcf25d86d5af7435 | Python | 2,067 | 54 | ####################################################################################################
# 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 ... |
16f440f390c58f80b4dcdfaede811dd8b6b7de29ea166167d631b45bedd5d547 | Python | 2,068 | 38 | from .bbox import bbox_overlaps
from .carafe import CARAFE, CARAFENaive, CARAFEPack, carafe, carafe_naive
from .cc_attention import CrissCrossAttention
from .corner_pool import CornerPool
from .deform_conv import DeformConv2d, DeformConv2dPack, deform_conv2d
from .deform_roi_pool import (DeformRoIPool, DeformRoIPoolPac... |
0caae856c3fe334778d5b82a4ab625ee2d23b617c59e664e9972617a4be068f6 | Python | 2,069 | 88 | import numpy as np
import pandas as pd
from sklearn.manifold import TSNE
from sklearn.preprocessing import StandardScaler, LabelEncoder, normalize
import matplotlib.pyplot as plt
import seaborn as sns
import pickle
ds = pd.read_csv('results/Y_Test_SF.csv')
y = list(ds["SF"])
print(y)
filename = 'results/SF_Test_P... |
2013f24a7561629073143eebb51f9ec69d6d21fff3f834952490c251dda9494b | Python | 2,071 | 59 | # Configuration file for the Sphinx documentation builder.
#
# This file only contains a selection of the most common options. For a full
# list see the documentation:
# https://www.sphinx-doc.org/en/master/usage/configuration.html
# -- Path setup --------------------------------------------------------------
# If ex... |
d83e3c169d87eca08aa79568b535c16e7bd8582f6cb88e0495b61e2538ba70c8 | Python | 2,071 | 68 | import matplotlib as mpl; mpl.use('Agg')
from matplotlib import pyplot as plt
from matplotlib import lines as mlines
import numpy as np
from scipy import stats
import pprint
import pandas as pd
experiments = ['learn','devalue','reversal','punish','reversal_prat','punish_prat']
# define the axis now because we are go... |
0c03471b800ed52c5319553a8396b21b548506fad7ba3cfb37b34aca1d78e0e3 | Python | 2,072 | 64 | from __future__ import print_function, division
import numpy as np
import multiprocessing
from ase.db import connect
from piml.feature.voronoi import Voronoi
from piml.regression.regression import Regression
lr = 0.01
atom_fea_len = 64
n_conv = 3
h_fea_len = 128
n_h = 1
descriptor = Voronoi(max_num_nbr=12,
... |
ce724874c61922e87df7f093b47c23af8233852cf0eca3b48e5aae50e9be947b | Python | 2,072 | 64 | from __future__ import print_function, division
import numpy as np
import multiprocessing
from ase.db import connect
from piml.feature.voronoi import Voronoi
from piml.regression.regression import Regression
lr = 0.01
atom_fea_len = 64
n_conv = 3
h_fea_len = 128
n_h = 1
descriptor = Voronoi(max_num_nbr=12,
... |
e99758b40cb80e97d254c2dc178e50bd19133f56430c330a3bd727809c0af28b | Python | 2,072 | 79 | # -*- coding: utf-8 -*-
import sys, cv2, zlib, pickle, struct, socket, traceback
from time import sleep
from kafka import KafkaProducer
from getopt import getopt, GetoptError
from sys import argv
def help_(salida=0):
print("Ayuda sobre el injestor de Kafka")
print("---------------------")
print("\t-h:\tIm... |
5719f74865b25d30e2fa2d6805f8d0309d25617fb77b5f5616716fc446f28778 | Python | 2,073 | 60 | # 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... |
326741934bece7a8fd951dbc64a16e8af388283be60e231427b3d81456148aae | Python | 2,074 | 52 | # 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... |
2cf937564da2845cadbbe2d141b33e8b6c346dc835cac7808e481b8fe78229db | Python | 2,075 | 47 | import time
from carla_cosmos_server.gc import collect
from conftest import submission, upload
def test_ttl_collect(server, clip16):
cam = clip16.manifest.camera_names[0]
rgb = upload(server, clip16.video("rgb", cam))
depth = upload(server, clip16.video("depth", cam))
body = submission(clip16, "cosm... |
8166826a5df591e3c1b63dd22cee3f9ea9813ad197c22004afe5d23304b67af1 | Python | 2,077 | 46 | # 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... |
c773fbebb0ee9a575d88e44bd3da13d82bbea92df28c859daeda9f7b8a1ed9df | Python | 2,077 | 46 | # 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... |
5aedab80ea3bdca2e3d2b334e9caf1a614aab707ff6bb1c5b5f3886e6c41c325 | Python | 2,078 | 65 | # 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... |
d7cd2912cf6dff23a50267a56a55fb14079f91c1c9d9a2ad11ce31c0d42d4f5c | Python | 2,078 | 54 | import os
from pathlib import Path
import pandas as pd
import numpy as np
import matplotlib.pyplot as plt
import networkx as nx
from brainNetwork.util.path import get_local_datadir, get_fig_dir
from brainNetwork.util import connectome, util
import itertools
from scipy.stats import ttest_ind
# Paths
csv_dir = Path(get... |
4f142db4a58bd230cb1b854c3bbde7cdd2f53c524d29cc39ad06c89b3ac95452 | Python | 2,079 | 51 | # 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... |
7f82a9eb554df128e4ab1387235576d63e9888fe3e6189882b5cde2f468f61d3 | Python | 2,079 | 73 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon May 10 15:57:11 2021
@author: Antonio G. Zippo, PhD, Institute of Neuroscience, Consiglio Nazionale delle Ricerche
"""
import numpy as np
from importlib import reload
import matplotlib.pylab as plt
import spikeinterface.toolkit as st
import spikeinterfa... |
e182ec4d5bf953f5bcf6404bf3353a0c004d36b8a53389e0b1fbe804ebf0e3c4 | Python | 2,081 | 52 | import unittest
from linkml_runtime.dumpers import yaml_dumper, json_dumper
from linkml_runtime.utils.introspection import package_schemaview
from oaklib.datamodels.search import create_search_configuration, DEFAULT_SEARCH_PROPERTIES
from oaklib.datamodels import search_datamodel
from oaklib.datamodels.search_datamode... |
71b19cf1b9128e1df693296227b9dcffa014b66fee3f8f60ed5fb79a1e0f5537 | Python | 2,082 | 59 | #!/usr/bin/env python3
"""
File: merge_groups.py
Created: 2020/03/13
Last Changed: 2020/03/19
Author: M.Vochteloo
Copyright (C) 2020 M.Vochteloo
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 Softwa... |
69eb190f4b449385c0b61ca24e67f96fb074c2ade1e3a62c2ce143bd2b5a05a9 | Python | 2,083 | 53 | from pathlib import Path
import cv2
import pandas as pd
from cenfind.core.data import Dataset
from cenfind.core.visualisation import draw_foci
from cenfind.constants import datasets
from cenfind.publication.detectors_other import log_skimage, simpleblob_cv2
from cenfind.core.detectors import extract_foci
PREFIX_REMOT... |
248ade188a57680230fe4d42f2d22cbca81f62d41034e6678758962865625611 | Python | 2,084 | 69 | # Copyright (c) Facebook, Inc. and its affiliates. All Rights Reserved.
#!/usr/bin/env python
import glob
import os
import torch
from setuptools import find_packages
from setuptools import setup
from torch.utils.cpp_extension import CUDA_HOME
from torch.utils.cpp_extension import CppExtension
from torch.utils.cpp_ext... |
0d2b3f311271fcc1c66d2c856224f2d0783f2a7916913f6380e81a0ddc77896f | Python | 2,085 | 75 | # 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... |
369f562cc091c0dcb8c8331f9ec34621c6960df2e712e963d5b4af793c5a7399 | Python | 2,085 | 48 | rule train_demux_nn:
input: 'traindata/signals-{run}-s{size}-t{trim}.hdf5'
output:
testpreds='models/{run}-s{size}-t{trim}-l{preset}/test-predictions.txt',
model='models/{run}-s{size}-t{trim}-l{preset}/final-model.hdf5'
threads: 99
run:
import json
import subprocess as sp... |
7636e1346fb010a809fdb3f07be69c392f2bba576142724aa419551d736f9bff | Python | 2,085 | 61 | #!/usr/bin/env python3
# Copyright 2018 Hossein Hadian
""" This script computes the image lengths (with padding) in an image data dir.
The output is written to 'image2num_frames' in the given data dir. This
file is later used by image/get_allowed_lengths.py to find a set of allowed lengths
for the ... |
87070503db0c69c221504b329d378405fba4220f621ff325143021b7f853a92e | Python | 2,085 | 56 | """
Utilities for working with ontology subsets (slims)
----
"""
import logging
from typing import List, Dict
from oaklib.interfaces import RelationGraphInterface
from oaklib.interfaces.obograph_interface import OboGraphInterface
from oaklib.types import CURIE, PRED_CURIE
def filter_redundant(oi: RelationGraphInterf... |
ca7e5a85f825a584d545593a90747d8004aed0d0b68fd70092f7da36bfb88da2 | Python | 2,087 | 75 | import pandas as pd
import numpy as np
from sklearn import linear_model
from typing import Optional, Protocol
from rl_analysis.util import ScikitModel, ScikitSplit
def model_fit(
model_features_z: pd.DataFrame,
splits: ScikitSplit,
return_models: bool = False,
x: list[str] = ["signal_reref_dff_z_max"]... |
10ff9a30b4bc5f66cecd9346981c4596b663575e98b2f398f38e336bc0ed33ed | Python | 2,089 | 76 | '''
Figure 5
Activation curve of IKir
'''
from os.path import expanduser
import os
import pandas as pd
from pylab import *
import matplotlib.pyplot as plt
from file_management import *
from os.path import join
width, height = 2, 2
table = pd.read_csv(join(config['root'], 'Ciliated 4 mM KCl', 'tables', 'selection_hype... |
9643cf14637a6746aeb0d4b91984fb8c5af084d84c02dbb6171b7e979aaf1a9f | Python | 2,090 | 60 | from copy import deepcopy
import torch
import torch.nn as nn
from .base_model import BaseModel
class UQNO(BaseModel, name="UQNO"):
"""Uncertainty Quantification Neural Operator
General N-dim (alpha, delta) Risk-Controlling Neural Operator, as described in [1]_.
The UQNO is trained to map input fu... |
1c303f93a354bc2467312397008bc14bb003cf4470bbe72ca06f62234366c34e | Python | 2,091 | 60 | # Copyright (c) 2026 Computer Vision Center (CVC) at the Universitat Autonoma
# de Barcelona (UAB).
#
# This work is licensed under the terms of the MIT license.
# For a copy, see <https://opensource.org/licenses/MIT>.
"""Forward-looking regression guards for NumPy 2 compatibility.
NumPy 2 removed `np.bool` (in 1.20)... |
38a04ff0feffbe61067447b74a1546553f84f21fe2e7a183a2d61fa540a34801 | Python | 2,091 | 63 | #!/usr/bin/env python
# plotVm ver 0.5 - a command line utility to plot a wildcarded argument
# list of files containing membrane potential data, and plots them in
# different colors on the same axes
import sys, os
import matplotlib.pyplot as plt
import numpy as np
def plot_file(file,format):
print 'P... |
78351839306a2fdb3a2e167ee69b431936a325fc3bc9d21de070580b455c3c39 | Python | 2,091 | 64 | from model.united_model import ModelPVRNNSoftmax
class ConfigSoftmax():
model_class = ModelPVRNNSoftmax
data_dir_common = 'data/wcst/limited_sm/'
data_size = 18
epoch_size = 10000 # 200000
run_name = 'sample/short-epoch'
params = {
# Model name.
'model_class_name': model_clas... |
996ba182d64a4e70767c10881423b51be3a639d56b56df4f1dd5684d67fc25ea | Python | 2,092 | 64 | #!/usr/bin/env python
# Copyright 2014 Gaurav Kumar. Apache 2.0
# Processes lattice oracles
import os
import sys
oracleDir = "exp/tri5a/decode_callhome_train/oracle"
wordsFile = open('exp/sgmm2x_6a/graph/words.txt')
conversationList = open('/export/a04/gkumar/corpora/fishcall/jack-splits/split-callhome/train')
or... |
d6aca764eeb2d987c61278a55c47c7047bf3170b473c4bdcadca321075d2bedc | Python | 2,093 | 54 | # Copyright (c) Facebook, Inc. and its affiliates. All Rights Reserved.
import torch
from .box_head.box_head import build_roi_box_head
from .mask_head.mask_head import build_roi_mask_head
class CombinedROIHeads(torch.nn.ModuleDict):
"""
Combines a set of individual heads (for box prediction or masks) into a ... |
2b6b921f8dc722f56f6deb878dbfb6fc7a9ce5ed40e18abade28750e6275a738 | Python | 2,095 | 63 | from typing import Optional, List
import numpy as np
from rdkit.Chem import MolToSmiles
from RAscore import RAscore_NN, RAscore_XGB
from drugex.training.interfaces import Scorer
NN_MODEL_PATH = None
XGB_MODEL_PATH = None
def calculate_score(mol: str, use_xgb_model: bool = False) -> Optional[float]:
"""
Give... |
3584f23dc8e951c9ab4666f69bd22f3ca927a23744a2ebeb62bb698937b3f558 | Python | 2,095 | 46 | ####################################################################################################
# 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 ... |
4cb1dbafea5f8822712cd4e3b2210e0a19af6a70adda9eb9392bec2769ff0447 | Python | 2,095 | 74 | import sys
import numpy as np
import circularFiltering as flt
from time import time
kappa_z_array = np.array([0.01,0.03,0.1,0.2,0.3,0.4,0.5,0.6,0.7,0.8,0.9,1,2,3,4,5,6,7,8,9,10,30,100])
len_kz = len(kappa_z_array)
# translate input varibles
N = int(sys.argv[1])
# number of iterations to average
nIter = 10000
# mode... |
27a4e7fc59d099145ae092a429202341ad938a461bc0fdb282926573417de7e7 | Python | 2,096 | 61 | import os
import sys
import json
import time
import pandas as pd
import datetime
from dicom_scu_class import Retriever_SCU
def find_daily_treatments(day):
infofile = "setup_information.json"
f = open(infofile)
info = json.load(f)
scu = Retriever_SCU(info['ARIA']['AETITLE'],
in... |
4c57ef88bb62055a6a3b812cbd1fa1d75687f9c948b1833fc7942aabb18266fc | Python | 2,099 | 60 | # 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... |
3ca456faee16f167a33cd568efe69eb2b06116a38098b2b44f190df94455e55d | Python | 2,100 | 65 | '''
A linear model with one electrode and neuron, no drift.
We fit it to small stimulations.
This is used to get electrode parameters.
'''
from file_management import *
from brian2 import *
from brian2modelfitting import MSEMetric
from fitting import *
from plotting import plot_fits
path, display = fit_arguments(defau... |
07066318a3c751b61b55c9e01834ce77b2adaa12b8f97674475bc380e03bad11 | Python | 2,101 | 66 | """Parser for GAF association formats"""
import csv
from dataclasses import dataclass
from typing import Iterator, Optional, TextIO, Union
from oaklib.datamodels.association import (
Association,
NegatedAssociation,
ParserConfiguration,
)
from oaklib.parsers.xaf_association_parser import XafAssociationPar... |
e7241602b9e412d7b3129e34c966d863e2e4cf9d6cfb13defe7916d37e59f750 | Python | 2,101 | 57 | # 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... |
25f7f9bf5916693eb2d7820546df911ba6556257be2f3f6ce7fa6f3985c4cc12 | Python | 2,102 | 63 | from typing import Optional, Union, List
import numpy as np
from rdkit.Chem import MolToSmiles
from RAscore import RAscore_NN, RAscore_XGB
from drugex.training.interfaces import Scorer
NN_MODEL_PATH = None
XGB_MODEL_PATH = None
def calculate_score(mol: str, use_xgb_model: bool = False) -> Optional[float]:
"""
... |
90177d14b79077fb14fd04ce0e7a812e442e6021499e4135aea9c3ec2020d766 | Python | 2,102 | 46 | #!/usr/bin/env python3
# encoding: utf-8
# @Time : 2017/12/16 下午8:41
# @Author : yuchangqian
# @Contact : changqian_yu@163.com
# @File : mclane.py
from datasets.BaseDataset import BaseDataset
class PascalContext(BaseDataset):
@classmethod
def get_class_colors(*args):
return [[0, 0, 0], [0, 0, ... |
a52f52d508e0f6a0ad633f2a43a45b2336d896ac5f54fdf961335bd99de0726f | Python | 2,102 | 59 | #!/usr/bin/env python3
"""
File: optimize_covariates.py
Created: 2020/10/13
Last Changed:
Author: M.Vochteloo
Copyright (C) 2020 M.Vochteloo
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 F... |
aeb6aa956f7b3edb8c3c7efd1369dbf2a953dce443f5b6692fb7098f9dd9ca11 | Python | 2,102 | 58 | # 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... |
a17299728d1a2f19951270636efebb56268c28dd2dabfd8913a2b14a237c29ce | Python | 2,103 | 58 | import os
import os.path as osp
import torch
import torch.distributed as dist
import mmcv
from mmcv.parallel import collate, scatter
from mmdet.core.evaluation.eval_hooks import CocoDistEvalmAPHook
class CocoDistEvalmAPHook_(CocoDistEvalmAPHook):
def after_train_epoch(self, runner):
if not self.eve... |
7855ae2c511f168739fd630a2a6adb8e1ab03f79f1af84dac745b8f656d4402e | Python | 2,105 | 74 | """Nottingham MEGUK: Preprocessing."""
from glob import glob
from pathlib import Path
import matplotlib
matplotlib.use("Agg")
import mne
from osl_dynamics.meeg import parallel, preproc
# ----------------------------------------------------------------------------
rawdir = Path("data/raw/Nottingham")
outdir = Path("... |
4d1a3e6b46994bb05478215bef642263e6b47500828150b4a911094873142041 | Python | 2,106 | 59 | '''
Tools for PIV analysis.
'''
import numpy as np
from scipy.stats import circmean
__all__ = ['interpolate_piv', 'corrected_cell_angle', 'reversal_duration']
def reversal_duration(angle, start=None):
'''
Returns the duration of reversal from the angle sequence, in time steps.
The angle is assumed to be r... |
920336ccc8bbaf3ae68c7be0bc48a1c1dbd4de014256365bd82d685fc1811ba6 | Python | 2,106 | 42 | import logging
import unittest
from oaklib.implementations.bioportal.bioportal_implementation import BioportalImplementation
from oaklib.implementations.ols.ols_implementation import OlsImplementation
from oaklib.implementations.ontobee.ontobee_implementation import OntobeeImplementation
from oaklib.implementations.pr... |
c86475492e916dec267b862437c299ebdc7b17dcf56a9a471f7e7a8793830c93 | Python | 2,107 | 58 | # 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... |
f42efeb9f19efad3a94a89068d5a29fa45fbf015475708f79608fc6ad1b93337 | Python | 2,108 | 64 | # -*- coding: utf-8 -*-
import numpy as np
from sklearn.linear_model import LinearRegression
from . import utils
from ._base import _ConventionCausality
class GrangerCausality(_ConventionCausality):
def fit(self, data, ddof=1, **kwargs):
self._preprocess(data)
self._fit_data(ddof=1, **kwargs)
... |
c5648cadbfd962692998f706d11735f7d5e0a4f76dbda41ceb539b67a2e93c72 | Python | 2,110 | 68 | # Copyright (c) Facebook, Inc. and its affiliates. All Rights Reserved.
import torch
from torch import nn
from torch.autograd import Function
from torch.autograd.function import once_differentiable
from torch.nn.modules.utils import _pair
from maskrcnn_benchmark import _C
class _ROIAlign(Function):
@staticmethod... |
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