sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
462e77cb9589d8e61895e9f4e5e9307f9e583eac536b2b26710fb384642a3a26 | Python | 14,168 | 292 | import torch
from torch import nn
from models.UNet import setup_unet
from models.perception_loss import vgg16_feat, perceptual_loss
from util.util import grayimg
from .base_model import BaseModel
from . import networks
from parse_config import ConfigParser
import parse_config
class FslModel(BaseModel):
""" This ... |
9963f03f099ebf13b23f36d5f8aa673e13d2fd7edf44dc601eefbb713cb5971d | Python | 14,198 | 366 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Fri Mar 26 11:31:09 2021
@author: baris
"""
import seaborn as sns, numpy as np
import matplotlib.pyplot as plt
from grid_short_traj import grid_maker, grid_population, draw_traj
from rate_n_phase_code_gra import rate2dist, _direction, interp, inhom_poiss
f... |
eff8c8b242e831b3241e8b49b7e3f572485049cdf6b5eca9191dcc9b412d4e0f | Python | 14,215 | 318 | """CPU-only autograd and observable-state contracts of geometry continuation."""
from types import MethodType
import pytest
import torch
from aimnet.modules import aev_inference
def _reference(left, right):
return torch.bmm(left, right), right
def _jets(loss, inputs, directions):
first = torch.autograd.g... |
c16ef04bd471dc4d6ea1cae57982891670949bd9117ad209750bc88622539454 | Python | 14,240 | 305 | '''
* Copyright (c) 2022, salesforce.com, inc.
* All rights reserved.
* SPDX-License-Identifier: BSD-3-Clause
* For full license text, see LICENSE.txt file in the repo root or https://opensource.org/licenses/BSD-3-Clause
* By Junnan Li
* Based on timm code base
* https://github.com/rwightman/pytorch-image-models... |
4ed36de9e5a727131f476cc7d77d890d9106d1664996d7f681bbd0ea68a0c759 | Python | 14,277 | 356 | #!usr/bin/env python
#coding:utf-8
"""
@author: Haidong Zhang
@contact: haidong_zhang14@yahoo.com
@time: 2020/12/10 15:59
@project: MalariaDetection
@description:
"""
from __future__ import absolute_import
from __future__ import division
from __future__ import print_function
import argparse
import os
i... |
bb4a02933a433eb89f6176209f11aa47b7e17b527dcb91970583244a36f7fe78 | Python | 14,278 | 391 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Script to run monocular and binocular targeted photoreceptor experiments.
@author: jtm
"""
import os
import os.path as op
import shutil
import glob
from time import sleep
import pickle
import pandas as pd
import parallel
from pyplr.pupil import PupilCore
from pyplr.... |
63c7ebacd0b178a90fd8f156ed5f7f16cdc302bef09b49022a3489632b3bcdaa | Python | 14,291 | 462 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Tue Jun 8 13:09:42 2021
@author: baris
"""
import seaborn as sns, numpy as np
import matplotlib.pyplot as plt
import glob
import pandas as pd
from scipy.stats import pearsonr, spearmanr
import os
from elephant import spike_train_generation as stg
from neo... |
62403f9a8af53ba586eb1765d194b2301173b1c9a77651281c7b9f7b4e8ed7c8 | Python | 14,298 | 332 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Fri Apr 29 16:13:50 2022
@author: baris
"""
import pickle
import numpy as np
import seaborn as sns
import pandas as pd
from phase_to_rate.figure_functions import (_make_cmap, _precession_spikes,
_adjust_box_widths, f5_load_dat... |
16acf4c4d3c8fcf9a92b0e7f8f8c7131fb4992c5c58d2579c8eb20bb1d6653a4 | Python | 14,334 | 381 | # Copyright (c) OpenMMLab. All rights reserved.
import warnings
import mmcv
import torch
import torch.nn.functional as F
from mmcv.image import imwrite
from mmcv.utils.misc import deprecated_api_warning
from mmcv.visualization.image import imshow
from mmpose.core.evaluation import get_group_preds
from mmpose.core.vis... |
6462c4e13a496d3d2d7b3aefc6e027a6ef1af76df75b7b53f15de9873fd404ca | Python | 14,336 | 335 | # Copyright (c) OpenMMLab. All rights reserved.
# Modified from https://github.com/facebookresearch/detectron2/blob/master/detectron2/data/datasets/cityscapes.py # noqa
# and https://github.com/mcordts/cityscapesScripts/blob/master/cityscapesscripts/evaluation/evalInstanceLevelSemanticLabeling.py # noqa
import glob
im... |
58cb179f59993718a275ef74f3cefa9e5227f3221d4936246ef2c92927211177 | Python | 14,354 | 310 | import argparse
import glob
import json
import os
import shutil
from pathlib import Path
import numpy as np
import torch
import yaml
from tqdm import tqdm
from models.experimental import attempt_load
from utils.datasets import create_dataloader
from utils.general import (
coco80_to_coco91_class, check_dataset, ch... |
2be9629b1afefca47fc56f76fda7c436ea2339c6fb9c14d936e08bbea0e5415f | Python | 14,367 | 393 | import csv
import re
import numpy as np
import torch
import torch.nn as nn
import os, sys
import json
import glob
import pandas as pd
from scipy.stats import zscore, sem
import random
from torch.utils.data import Dataset, DataLoader
import torch.optim as optim
from sklearn.metrics import confusion_matrix, classificatio... |
196c60abe5f78c2ea1cb4611a84a0b547dc6fe20d8a652355f5d116fb64c6de1 | Python | 14,392 | 455 | """Warp-based neighbor list ops with PyTorch custom op integration.
Provides brute-force and cell-list neighbor pair computation using NVIDIA Warp kernels,
with torch.library.custom_op registration, fake/meta implementations for torch.compile,
and autograd support via the shared PyTorch backward in neighbor_utils.
"""... |
abfe5b4c9b97da50bf7d30dce7fa2aa2d0bfa9df7ac1d511cd1b6262d5562e89 | Python | 14,425 | 343 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Feb 12 17:36:38 2021
@author: baris
"""
import seaborn as sns, numpy as np
import matplotlib.pyplot as plt
from grid_short_traj import grid_maker, grid_population, draw_traj
from scipy import interpolate
from skimage.measure import profile_line
from el... |
bca37a7aa8cf990ea435d161fe7e2ddc899cd2e4f48c6ff120ebe7d9f8097c8b | Python | 14,428 | 343 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Feb 12 17:36:38 2021
@author: baris
"""
import seaborn as sns, numpy as np
import matplotlib.pyplot as plt
from grid_short_traj import grid_maker, grid_population, draw_traj
from scipy import interpolate
from skimage.measure import profile_line
from el... |
37c42b0906691d92dc457fb99c6b752de4e7d8ad93da7c4dddafddd5cc430ece | Python | 14,463 | 441 | import torch
import torch.nn as nn
from torch.utils.model_zoo import load_url as load_state_dict_from_url
def get_model_urls():
model_urls = {
"resnet18": "https://download.pytorch.org/models/resnet18-5c106cde.pth",
"resnet34": "https://download.pytorch.org/models/resnet34-333f7ec4.pth",
"... |
26fc39f8362a6426b67344b19cf9886f38e384aa2097844e5365763ab5449d19 | Python | 14,510 | 380 | import numpy as np
import pandas as pd
import math
import os
from glob import glob
import json
import matplotlib.pyplot as plt
from scipy.integrate import simps
def load_zz_results(trial_path):
try:
filepath = glob(trial_path + '/results*')[0]
except (FileNotFoundError, NotADirectoryError, IndexError)... |
a1845556f40bfb1ff95d3cd4ba639ab9c653dffeb4578bbdb0514816f46cca25 | Python | 14,525 | 409 |
from .classification import available_classifiers
import matplotlib.pyplot as plt
import sklearn.decomposition
from sklearn.pipeline import make_pipeline
from sklearn.preprocessing import StandardScaler
from mlxtend.feature_selection import SequentialFeatureSelector as SFS
from mlxtend.plotting import plot_se... |
6008703b43e67a1f1f06b76cefc276890966b02817a7d9c9eac1566b1d9b63a6 | Python | 14,561 | 388 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
from random import randint
import numpy as np
import pandas as pd
from sklearn.svm import SVR
from sklearn.feature_selection import RFE
from sklearn.metrics import mean_squared_error
from statsmodels.formula.api import ols
# Compute excitation/inhibition ratio
# ExcInh_I... |
710b3ad4a372e776e24f5873346b0c6641b73bbb34811488ba5e04c742bc2d6c | Python | 14,580 | 336 | import sys
if "../" not in sys.path: sys.path.append("../")
import numpy as np
import pandas as pd
from os import path
from scipy import stats
from tqdm import tqdm
import pickle
import glob
import random
from eye_tracking.eye_tracking import get_direction_moved, get_stim_at_frame
from helpers.parallel_process import... |
adcebd9da7a896e77e9552f028b6abe677213a1fb9dc2682d0be53e55026f5f4 | Python | 14,586 | 391 | import os
import pandas as pd
from torch.utils.data import Dataset
from sklearn.preprocessing import StandardScaler
from utils.timefeatures import time_features
import warnings
warnings.filterwarnings('ignore')
class Dataset_ETT_hour(Dataset):
def __init__(self, root_path, flag='train', size=None,
... |
17a861f2598f77726ecd3371b1d410bd48981bb7d9d329b406f000fddaa7a8f1 | Python | 14,593 | 329 | import argparse
import glob
import json
import os
import shutil
from pathlib import Path
import numpy as np
import torch
import yaml
from tqdm import tqdm
from models.experimental import attempt_load
from utils.datasets import create_dataloader
from utils.general import (
coco80_to_coco91_class, check_dataset, ch... |
fac543e102821d147bd2359f19e1c0585fd13cd691f1d308df204d5bfe97f6b2 | Python | 14,596 | 375 | from collections import Counter
from itertools import combinations
from multiprocessing import cpu_count, Pool
import numpy as np
from h5py import File
from scipy.spatial.distance import pdist
from consts import *
from tfspline import spline_linear_model
from util import path_check
# TODO: Gammas class?
class Gene... |
58427bdd5ea46f92f89452282b57c4d549aa50025acd1188b09faa604d45bd50 | Python | 14,607 | 388 | import numpy as np
import matplotlib.pyplot as plt
import matplotlib
from .constants import SPEED_OF_SOUND, FS, MIN_AREA, MIN_WIDTH, MIN_TOLERANCE, LOC_MODEL_THRESHOLD, MAX_NUM, SPOT_POWER_THRESHOLD1, MAX_BIG_PATCH, USE_RELATIVE_SPOT_POWER, MIN_WIDTH_REQUIRED
from .utils import write_audio_file
from sep.Traditional_SP.... |
0f593ea73f333d8985febeb389a32aa250e2f244c2bdd40d69710f268596f95e | Python | 14,611 | 430 | #! /usr/bin/env libtbx.python
# -*- coding: utf-8 -*-
# =============================================================================
# Created at:
# EMBL Hamburg
# Author:
# Grzegorz Chojnowski - gchojnowski@gmail.com
# =============================================================================
## @file restraint... |
f6a8b0a1914a7c77cad78508f391fb6422c1e3602c2b73c2ba9f81bf13c68d5d | Python | 14,652 | 463 | # -*- coding: utf-8 -*-
"""
Created on Tue Aug 18 15:14:22 2020
@author: 78257
"""
import os
import numpy as np
import cv2
from PIL import Image
import scipy.io as scio
import scipy.signal as signal
import math
display_height = 1080
display_weight = 1080 #2160
#
def ResizeWithAspectRatio(image, width=None, heigh... |
c621c8e648c91255d11f46a2953364db4b94d7623ce9141837424c42e07b59a3 | Python | 14,659 | 355 | import numpy as np
import random
import joblib
import multiprocessing as mp
from typing import List, Tuple
from collections import defaultdict
from copy import deepcopy
from .particle import Particle
from .. import base as pea2_base
def removeParticleFeatures(
particles: list,
mask: np.... |
f7b9f15619b99f5678c5bcd9f24affd26099b6e64e1536d06672a7eb82937b01 | Python | 14,674 | 387 | # -*- coding: utf-8 -*-
"""Unet-baed HiFi-GAN Modules.
This code is based on https://github.com/jik876/hifi-gan.
"""
import logging
import numpy as np
import torch
from parallel_wavegan.layers import CausalConv1d, CausalConvTranspose1d
from parallel_wavegan.layers import HiFiGANResidualBlock as ResidualBlock
from... |
123cdaf50b3a7da86d9f138256ed187b1148170a29ea740b51402d103eb7482f | Python | 14,687 | 319 | def FiPhoEpocAveraging_between_events(inputs):
"""
Fiber Photometry Epoch Averaging Example
This example goes through fiber photometry analysis using techniques such as data smoothing, bleach detrending, and z-score analysis. <br>
The epoch averaging was done using `epoc_filter`.
... |
aa22acb301d9ed903eee27121ccb7031b2dd9e55843b0ed2f071c965e4368a3b | Python | 14,699 | 499 | from typing import Callable, TypeVar, Any, Union, Optional, Sequence, List, Tuple, Dict
from typing_extensions import final, overload
from abc import ABC, abstractmethod
from collections.abc import Iterable
import eagerpy as ep
from ..models import Model
from ..criteria import Criterion
from ..criteria import Misclas... |
c0d7a6d26359a98532859cbf60b183a88c85ffaa605e484a1b6e683446ce4e8f | Python | 14,708 | 371 | import collections
import tempfile
import pathlib
import unittest
import zipfile
from .._checksum_validator import (
diff_checksums, md5sum_directory, md5sum, from_checksum_format,
validate_checksums, ChecksumDiff, ValidationCode,
)
from .test_parse import TEST_DATA
from .testing_utilities import (
generat... |
0ecbedf34e419acae9f9c6de3de75176bb8fc11d8eec2988a3189e879746f403 | Python | 14,714 | 366 | import random
import numpy as np
from deap import algorithms
from deap import tools
from deap.benchmarks.tools import hypervolume
from . import base as pea2_base
from . import validation as pea2_valid
from . import report as pea2_report
def run(alg: pea2_base.BaseWrapper, type: str = 'eaSimple', verbose: ... |
58f34250e7b57a7d7f8bf99ed4a7203be23b59cb1819003ddccc4c807d6d9ff2 | Python | 14,721 | 411 | # Copyright (c) OpenMMLab. All rights reserved.
import os.path as osp
import tempfile
import warnings
from collections import OrderedDict, defaultdict
import json_tricks as json
import numpy as np
from mmcv import Config, deprecated_api_warning
from xtcocotools.cocoeval import COCOeval
from ....core.post_processing i... |
a254d97f92d7cb6dc53045837ae035c5c7dc92ef3077f320d76cf0d9d8873f7b | Python | 14,737 | 379 | # Copyright (c) OpenMMLab. All rights reserved.
import bisect
import collections
import copy
import math
from collections import defaultdict
import numpy as np
from mmcv.utils import build_from_cfg, print_log
from torch.utils.data.dataset import ConcatDataset as _ConcatDataset
from .builder import DATASETS, PIPELINES... |
cfba577f9382601079fe5dcec93e245965678c0afc04d2f7a612d097e9b1313a | Python | 14,741 | 361 | from random import choice, sample, random
from numpy.random import beta, negative_binomial, binomial
import numpy as np
import sys
import argparse
def write_options(f, options):
f.write("# prefix = %s\n" % options.prefix)
f.write("# num_tests = %d\n" % options.num_tests)
f.write("# num_inds = %d\n" % opt... |
74b7da5cdf548973e5ed12045c3570a70f5a722ac408144bb0fa28b7cdc35575 | Python | 14,772 | 360 | # Copyright (c) OpenMMLab. All rights reserved.
from abc import ABCMeta, abstractmethod
from collections import OrderedDict
import mmcv
import numpy as np
import torch
import torch.distributed as dist
from mmcv.runner import BaseModule, auto_fp16
from mmdet.core.visualization import imshow_det_bboxes
class BaseDete... |
27081b4b451071b14d6fb011ea2859579518ae32ae54a194bf1266334da85b0e | Python | 14,780 | 286 | from typing import Optional, Type
import jax
import jax.numpy as jnp
import numpy as np
from functools import partial, cache
import utils
from flax import linen as nn
import transformer_flax as transformer
from transformer_flax import translate_config
from einshape import jax_einshape as einshape
import jax.tree_util a... |
acce58add3f8a6cef578af83a59344ef7c93e927dc0917fc1956aac674639f40 | Python | 14,791 | 357 | # Copyright (c) OpenMMLab. All rights reserved.
import warnings
import torch
import torch.nn as nn
import torch.nn.functional as F
from mmcv.cnn import ConvModule, DepthwiseSeparableConvModule
from mmcv.runner import force_fp32
from mmdet.core import (build_assigner, build_bbox_coder,
build_pr... |
f766b3721d1eaf78bed8ec3521f99ea83149931b0a59770ca04360580c9ec012 | Python | 14,796 | 403 | # Copyright (c) OpenMMLab. All rights reserved.
import warnings
import mmcv
import numpy as np
from mmcv.utils.misc import deprecated_api_warning
from mmpose.core import imshow_bboxes, imshow_keypoints, imshow_keypoints_3d
from .. import builder
from ..builder import POSENETS
from .base import BasePose
try:
from... |
46ab15c057e7d9cd1172d88adb472b4b0916d817af77f7f76f2bf5c777d1675b | Python | 14,805 | 392 | import torch
class SymEigB(torch.autograd.Function):
"""Solves standard eigenvalue problems for real symmetric matrices,
and applies conditional or Lorentzian broadening to the eigenvalues
during backpropagation to increase gradient stability.
Notes
-----
Results from backward passes through e... |
7fa48d69c9534b438270844dc65185630203c41a24013626b58cb6da8b5864f1 | Python | 14,811 | 305 | from GUI_and_data_processing.Data_processing import analyse_Ethovision_data
import pandas as pd
import numpy as np
from tdt import StructType
from copy import deepcopy
import os
def find_event_names_between_events(inputs):
# Define a list of all possible event names.
if inputs['Type'] == 'Other'... |
2876e93d69fdae5030a0b4981f83a448d7ca500c1ce5fa886e82215d52477510 | Python | 14,818 | 439 | import textwrap
from argparse import (
ArgumentParser,
SUPPRESS,
RawDescriptionHelpFormatter,
)
from .helpers import SeqType
from .files import FileFormat
from .modes import AmbiguityHandling, StopCodonMode, TrimmingMode
from .version import __version__
_MAIN_DESCRIPTION_TEMPLATE = r"""\
_____ _ _ ... |
c934191009c91ca7922479cb167640151ff4905f60444419b8661026437ba759 | Python | 14,835 | 427 | # This file is part of sbi, a toolkit for simulation-based inference. sbi is licensed
# under the Apache License Version 2.0, see <https://www.apache.org/licenses/>
import pyro
import pyro.distributions as dist
import pytest
import torch
from pyro.infer import MCMC, NUTS
from pyro.infer.predictive import Predictive
fr... |
325915aab77ada270427c27d9bfe2035bd6eb7d7ed8f264da38c623da0299220 | Python | 14,878 | 335 |
#[Super SloMo]
##High Quality Estimation of Multiple Intermediate Frames for Video Interpolation
import argparse
import torch
import torchvision
import torchvision.transforms as transforms
import torch.optim as optim
import torch.nn as nn
import torch.nn.functional as F
import model
import dataloader
from math import... |
a02e106e430947a47b13c1ea939024335b3f3652db48527569e1e8d18eff19c3 | Python | 14,879 | 399 | import threading
from collections import OrderedDict
from random import Random
from typing import Dict, Iterator, List, Optional, Union, Tuple
import numpy as np
from torch.utils.data import DataLoader, Dataset, Sampler
from rdkit import Chem
from .features import BatchMolGraph, MolGraph
from .chemprop_rdkit import m... |
bc371fefc0d109420ab5107680d7cb2d0522be2093abcf0054e879a7e419e126 | Python | 14,882 | 377 | import logging
import torch.utils.data as data
import torch
import numpy as np
import h5py
import os
from .data_utility import init_transform, count_samples, build_pairs
from fedml_api.Dist_FID.fid_score import get_activations
logging.basicConfig()
logger = logging.getLogger()
logger.setLevel(logging.INFO)
def ge... |
10cfd683953f089f5fb7c9f0eb53f34965df4ce452d191568a136922ae8933dd | Python | 14,916 | 374 | # -*- coding: UTF-8 -*
import numpy as np
import tensorflow as tf
import scipy.sparse as sp
from sklearn.decomposition import PCA
from utils import graph_to_adj
#import tensorflow.compat.v1 as tf
#tf.disable_v2_behavior()
###############################################
# This section of code adapted from jiongqianlian... |
5d7d257cbba4a63410f08283818f22804797692f5c6898fb0fedb1c22c0ac4f6 | Python | 14,947 | 371 | import tensorflow as tf
from . import agc
# need to dynamically handle which Optimizer class to use dependent on tf version
opt = tf.keras.optimizers.Optimizer
if int(tf.version.VERSION.split(".")[1]) > 10:
opt = tf.keras.optimizers.legacy.Optimizer
# https://stackoverflow.com/a/66524901
# https://keras.io/guid... |
d57d89089363771c213607d708a9fbba9d42bc3c04dbf13bfcad07f08217c314 | Python | 14,960 | 336 | import numpy as np
import nengo
from nengo.dists import Uniform
from nengo.spa.action_objects import Symbol, Source, Convolution
from nengo.spa.module import Module
from nengo.utils.compat import iteritems
class Thalamus(Module):
"""A thalamus, implementing the effects for an associated basal ganglia.
See ... |
fe3e9be38f30a4f2771ebf64198310d153cdd2781166330f713872780776e9a9 | Python | 14,966 | 442 | # This file is part of sbi, a toolkit for simulation-based inference. sbi is licensed
# under the Apache License Version 2.0, see <https://www.apache.org/licenses/>
"""Tests for how the factory functions construct per-model configs.
The factories span a whole family, so their named arguments cover settings a
given mo... |
02d21b18536dfcded893877aeaa440bebb308e8f6826e741d0c326649da98216 | Python | 14,973 | 351 | from optparse import OptionParser
import random
import numpy as np
import pandas as pd
random.seed(8)
import os
import sys
from Bio import SeqIO
from tensorflow.keras import backend as K
import time
from tqdm import tqdm
import subprocess
def IOU(box1,box2,size1,size2):
pi1,len1,n1 = box1
pi... |
8b7f20e1b71e29d1063167356b24fa6b63e503b6c0b1245907bf3c721f074605 | Python | 14,975 | 376 | import os
import pandas as pd
import numpy as np
import pickle
import seaborn as sns
import matplotlib.pyplot as plt
import traceback
from utils.import_data import load_suite2p_outputs
from utils.calcium_traces import get_pos_x, get_pos_y, plot_cells_side, plot_cells_group
from utils.ref_pos import addRefPos
output_p... |
c02a81afdebd942a0a2d239337e9bbea3a19fbaf0f021f52122d20c64fe88e5c | Python | 14,979 | 316 | import os
import torch
import torchvision
from torch import nn
from models.UNet import setup_unet
from models.perception_loss import vgg16_feat, perceptual_loss
from util.util import grayimg
from .base_model import BaseModel
from . import networks
from parse_config import ConfigParser
import parse_config
class Fsl3d... |
7547cc0004109efd23fbd2e6850f60656374c66fbb0be680d76fe0e63a3f497e | Python | 15,046 | 377 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Thu Dec 10 15:15:14 2020
@author: baris
"""
import seaborn as sns, numpy as np
import matplotlib.pyplot as plt
import os
from rate_n_phase_code_gra import phase_code, overall_spike_ct
import time
import copy
from neuron import h, gui # gui necessary for s... |
214d72a9203a703e1929055d110ebf5c06d9df955d76137c8a3675d36575f75c | Python | 15,059 | 408 | # coding: utf-8
"""Helper script for generating config file and parameters list.
This script generates LightGBM/src/io/config_auto.cpp file
with list of all parameters, aliases table and other routines
along with parameters description in LightGBM/docs/Parameters.rst file
from the information in LightGBM/include/Light... |
89ba3c38f9f90a3cfc6c169552f55e03631428334c3f4e0a1cce6cc9782dbf2c | Python | 15,070 | 367 | # Copyright (c) OpenMMLab. All rights reserved.
import math
from collections import defaultdict
import torch
import torch.nn as nn
import torch.nn.functional as F
from ..builder import HEADS, build_loss
def _sigmoid(x):
y = torch.clamp(x.sigmoid_(), min=1e-4, max=1 - 1e-4)
return y
@HEADS.register_module(... |
608d88f2e6d346396896a3cc66d2b5172cad213562538bf92b3a87d27ae463b3 | Python | 15,072 | 376 | import re
import numpy as np
import itk
from datetime import datetime
from usqc.phantom import Phantom
import usqc.phantom as ph
from usqc.util import extract_slice, bounded_extract_image, box_to_region, overlay
from pathlib import Path
from usqc.data import get_files
from glob import glob
import matplotlib.pyplot as p... |
c3f7b8e4407e734b60a8d2e7e72d5f365f65d3b5f48c1ddcf8b95f6b83aade1c | Python | 15,073 | 444 | #!/usr/bin/env python3
"""ImHex language tool.
Manages translations and validates lang keys against C/C++ source code.
Run with --help to see available subcommands.
Terminology:
- langdir: a folder containing language JSON files (e.g. plugins/builtin/romfs/lang/)
- lang: a language (en_US, fr_FR..)
- sublang: a langua... |
da9ac44625e4fd4cdf24575d3746b1a25591ef7bd381f1ca647fbedfb3c10229 | Python | 15,077 | 414 | # Copyright (c) OpenMMLab. All rights reserved.
import mmcv
import numpy as np
import torch
from mmpose.core import bbox_xywh2xyxy, bbox_xyxy2xywh
from mmpose.datasets.builder import PIPELINES
@PIPELINES.register_module()
class CropValidClip:
"""Generate the clip from complete video with valid frames.
Requi... |
cde55feb0350a3cf2a48fb88841e5a88839b4fbffbc4f6cb4990cedc79b7c034 | Python | 15,096 | 434 | # This file is part of sbi, a toolkit for simulation-based inference. sbi is licensed
# under the Apache License Version 2.0, see <https://www.apache.org/licenses/>
from functools import partial
import pytest
import torch
from pytest_harvest import ResultsBag
from sbi.inference import FMPE, MNLE, NLE, NPE, NPE_PFN, ... |
5bf020ad49444a311828d1d30619a3210f57a3d1b6c2ad755de609679348ee41 | Python | 15,112 | 428 | from typing import Union
import numpy as np
import matplotlib.pyplot as plt
import matplotlib
import pandas as pd
import plotly.graph_objects as go
def subgraph_sankey(
df: pd.DataFrame,
final_node: str = 0,
val_col="value",
cmap_name="coolwarm",
root_id: int = 0,
):
"""
Create a Sankey di... |
14ceffb307b4e052e2ce674138e2a0081d6e40f32755bb3ba300b929297dc583 | Python | 15,147 | 473 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Wed Aug 12 17:40:05 2020
@author: bariskuru
"""
import seaborn as sns, numpy as np
import matplotlib.pyplot as plt
from grid_short_traj import grid_maker, grid_population, draw_traj
from scipy import interpolate
from skimage.measure import profile_line
from... |
0870135c9aa73f8613518a5af0667c998528193262e5f9c8ee305e3227d310ab | Python | 15,152 | 371 | # Copyright (c) OpenMMLab. All rights reserved.
from os.path import dirname, exists, join
from unittest.mock import Mock
import pytest
from mmdet.core import BitmapMasks, PolygonMasks
from mmdet.datasets.builder import DATASETS
from mmdet.datasets.utils import NumClassCheckHook
def _get_config_directory():
"""F... |
1766d37460a095ed5d2831bec9a5d7b6486275694b8c17f36776f9b3c33c22d7 | Python | 15,155 | 332 | # -*- coding: utf-8 -*-
"""
Created on Mon Jun 7 18:49:29 2021
@author: fhu14
"""
#%% Imports, definitions
import numpy as np
Array = np.ndarray
import torch
Tensor = torch.Tensor
import math
from typing import List, Dict
#%% Code behind
'''
This adaptation for the penalties comes from solver.py
which is a part of ... |
d92b176f63785ea5d98423e51c43b4c3603574e0b477b4b55dcf7d6905319381 | Python | 15,162 | 377 | #! /usr/bin/env python
import ok
import hashlib
import logging
import struct
import threading
custom_waveform_index_range = range(1, 4)
custom_waveform_div_range = range(1, 32)
custom_waveform_max_len = 0x7fff
class Waveform:
pass
class SquareWaveform(Waveform):
def __init__(self, mode=0, amp=0., pw=0., ... |
686eed723ff3803234eff9e0d7d9af0a0be220e4b247b93a278069dfdf81f68c | Python | 15,190 | 317 | # -*- coding: utf-8 -*-
"""
Created on Wed Jun 9 13:08:28 2021
@author: fhu14
"""
#%% Imports, definitions
from typing import List, Dict, Tuple
from DFTBLayer import DFTBList, graph_generation, model_loss_initialization,\
model_range_correction, feed_generation
from DFTBrepulsive import compute_gammas
from Input... |
a1f1df55436ff1219395c7f1ae2f83619121304c8d7318489e7226eb120b97cd | Python | 15,204 | 368 | # -*- coding: utf-8 -*-
"""
Created on Wed Oct 12 13:38:23 2022
@author: Daniel
"""
from phase_to_rate.neural_coding import load_spikes, rate_n_phase, load_spikes_DMK
import numpy as np
import matplotlib.pyplot as plt
import pandas as pd
import seaborn as sns
import os
import sys
import matplotlib as mpl
import pdb
i... |
d18dfc0c26a2a15a3a6d03ec02f35482300f6cbbcbd2c4d8e927b4d15519a71a | Python | 15,222 | 387 | # Copyright (c) OpenMMLab. All rights reserved.
import argparse
import copy
import os
import os.path as osp
import mmcv
import torch
from mmcv import DictAction
from mmcv.parallel import MMDataParallel, MMDistributedDataParallel
from mmcv.runner import (get_dist_info, init_dist, load_checkpoint,
... |
b39f2b4e902a18e24fa8c715b248fb2a3e75bf394c09193f3dfddf8baa8ca9d8 | Python | 15,286 | 361 | import argparse
import glob
import json
import os
import shutil
from pathlib import Path
import numpy as np
import torch
import yaml
from tqdm import tqdm
from models.experimental import attempt_load
from utils.datasets import create_dataloader
from utils.general_draw import (
coco80_to_coco91_class, check_datase... |
1aedc08076f1482ed3350be9fc0ec22c1ce55eff9a96b2839035390541a11668 | Python | 15,296 | 352 | """Stress training through the built-in SizeGroupedDataset loader (#138)."""
import copy
import numpy as np
import pytest
pytestmark = pytest.mark.train
torch = pytest.importorskip("torch")
pytest.importorskip("ignite")
OmegaConf = pytest.importorskip("omegaconf").OmegaConf
def _model_config(outputs_extra: dict |... |
fba27896005c4f958fcd16e2d6c7abbd4e1787bdb67e8566472f725a144bc9a9 | Python | 15,341 | 420 | from typing import Optional
import torch
from torch import nn
import torch.nn.functional as F
from torch_geometric.nn import MessagePassing
from torch_cluster import radius_graph
import warnings
import math
from typing import Optional, List, Tuple
from torch_geometric.utils import to_dense_adj
from torch.distributions.... |
10f1aa9b567361200d3df6f42e0a4eb241bf7cc3df2f65f3bd6e33a891428f03 | Python | 15,357 | 366 | #!/usr/bin/env python2
#encoding: UTF-8
import json
import sys;sys.path.append('./')
import zipfile
import re
import sys
import os
import codecs
import importlib
from StringIO import StringIO
def print_help():
sys.stdout.write('Usage: python %s.py -g=<gtFile> -s=<submFile> [-o=<outputFolder> -p=<jsonParams>]' %sys... |
3098242e8243c6e32768e2cb1c830b2c060ea1f93c25978a09f8c45360745db1 | Python | 15,358 | 444 | import os
import shutil
import glob
import math
from tqdm import tqdm
import collections
import random
from collections import OrderedDict
import numpy as np
import torch
import torch.nn as nn
import torch.nn.functional as F
from torch.utils.data import DataLoader
from torch.nn.modules.batchnorm import _BatchNorm
f... |
443fae8cee619ba2700de616bbefb4851645af0fe74468c8abe06ffbe0af9449 | Python | 15,386 | 532 | """
-----------------------------------------------------------
Created: Nadine Eichhorn (28.08.2022)
Institute of Biomedical Engineering
Karlsruhe Institute of Technology
-------------------------------------------------------------
The code combines separately synthesized P and Qrst waves into an... |
86ccb1548ea29a2e1768a17f0c112cb5e63b66833f504cd2b2b9904781af0b35 | Python | 15,400 | 275 | import numpy as np
import tensorflow as tf
from absl import flags
try:
FLAGS = flags.FLAGS
tf_rng_seq = tf.random.Generator.from_seed(FLAGS.seed + 1234)
print("tf_rng_seq from FLAGS, seed = {}".format(FLAGS.seed + 1234), flush = True)
except:
tf_rng_seq = tf.random.Generator.from_seed(1234)
print("tf_rng_seq... |
02d05079d0689902ec9ffe6fc49fba75652a83727ecae5435d3db030fb735eb3 | Python | 15,446 | 417 | # Copyright (c) OpenMMLab. All rights reserved.
import os.path as osp
import tempfile
import warnings
from collections import OrderedDict, defaultdict
import mmcv
import numpy as np
from mmcv import Config, deprecated_api_warning
from mmpose.core.evaluation import (keypoint_3d_auc, keypoint_3d_pck,
... |
37f6462e3a4afc0ad1057069d6f73a920a6f58d8b5f4fa2f163f394868695fcc | Python | 15,446 | 392 | # Copyright Universitat Pompeu Fabra 2020-2023 https://www.compscience.org
# Distributed under the MIT License.
# (See accompanying file README.md file or copy at http://opensource.org/licenses/MIT)
import hashlib
import h5py
import os
import torch as pt
from torchmdnet.datasets.memdataset import MemmappedDataset
fro... |
eb66eb2cdf739652f8ffc0d71d3b52899dcf6fbdbd4d852a7dcd6be39ced98aa | Python | 15,446 | 456 | # Copyright (c) OpenMMLab. All rights reserved.
import copy
import pytest
from mmcv import Config
from numpy.testing import assert_almost_equal
from mmpose.datasets import DATASETS
from tests.utils.data_utils import convert_db_to_output
def test_OneHand10K_dataset():
dataset = 'OneHand10KDataset'
dataset_in... |
960bf5ba25b7e648ba5abf5ae4d9f61b086076975c2359d74f57ada4b0a75dc3 | Python | 15,467 | 296 | import numpy as np
import tensorflow as tf
from tensorflow.keras.optimizers import Adam
from tensorflow.keras.layers import Add
from tensorflow.keras.regularizers import l2
from tensorflow.keras import backend as K
dicc_size={0:1000,1:3000,2:2000,3:2000,4:1000,5:1000}
def YOLO_domain(optimizador=Adam,lr=0... |
375c86fa4d673b8f9767b1d22afc1e08988dfe547470b16b7b64015a72a5b78f | Python | 15,477 | 336 | # Copyright (c) OpenMMLab. All rights reserved.
import torch
from ..builder import BBOX_ASSIGNERS
from ..iou_calculators import build_iou_calculator
from .assign_result import AssignResult
from .base_assigner import BaseAssigner
def scale_boxes(bboxes, scale):
"""Expand an array of boxes by a given scale.
A... |
20f89432192c773516b6f8570f8250dce53314fe645c4d2a99b909898d2d9b31 | Python | 15,524 | 505 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Fri Aug 20 10:50:07 2021
@author: baris
"""
import numpy as np
import random
from scipy import ndimage
from scipy.stats import skewnorm
from skimage.measure import profile_line
from scipy import interpolate
from neo.core import AnalogSignal
import quantit... |
d736739050437136681b0191cc48b36e8339b78c840d5ebd137285ab7bf32f4a | Python | 15,537 | 436 |
import h5py
import numpy as np
from multiprocessing import pool
import os
import torch
from skimage.transform import resize
from skimage.metrics import mean_squared_error, normalized_root_mse
from PIL import Image
np.random.seed(123)
def mr_normalization(img, bd_low=0.1, bd_up=99.9, mean_i=None, std_i=None):
#... |
0297d9e1e733484cfaf88a2fbbab58125b765c0d79a2bf29c864cb813dd336d1 | Python | 15,570 | 314 | import argparse
import logging
import os
import random
import sys
import numpy as np
import torch
import wandb
sys.path.insert(0, os.path.abspath(os.path.join(os.getcwd(), "../../../")))
from fedml_api.data_preprocessing.cifar10.data_loader import load_partition_data_cifar10
from fedml_api.data_preprocessing.cifar10... |
ac4ae0d07ab5f461b46b948725ae03a259edf68025d85c4d0d7ca0afaf93a65a | Python | 15,579 | 363 | # Copyright (c) OpenMMLab. All rights reserved.
import numpy as np
import torch
import torch.nn as nn
import torch.nn.functional as F
from mmcv.cnn import ConvModule
from mmcv.runner import BaseModule
from mmdet.models.builder import HEADS, build_loss
@HEADS.register_module()
class GridHead(BaseModule):
def __i... |
319f1cb9c8f7ebaf2babc0a5e9ec4b24057f7d07e73bd3ef2dbc10185a9b7868 | Python | 15,580 | 423 | # This file is part of sbi, a toolkit for simulation-based inference. sbi is licensed
# under the Apache License Version 2.0, see <https://www.apache.org/licenses/>
import inspect
from dataclasses import FrozenInstanceError
import pytest
import torch
from torch import nn
from sbi.neural_nets import likelihood_nn
fro... |
6ca9508806d7b74041cea4cfc5613f937593810dc35c58d6b7256a88e3548317 | Python | 15,583 | 338 | import numpy as np
import pandas as pd
import pytest
from sklearn.linear_model import LinearRegression, LogisticRegression
from doubleml.double_ml_framework import DoubleMLCore, DoubleMLFramework, concat
from doubleml.irm.datasets import make_irm_data
from doubleml.irm.irm import DoubleMLIRM
from ._utils import gener... |
b2a3685b252d686a32e498bf86320e729654f06b6e542c09bc1699d26a812ab4 | Python | 15,596 | 387 | import os
import shutil
from dataclasses import dataclass, field
import cv2
import pathlib
import numpy as np
import umap
import matplotlib.pyplot as plt
from scipy.cluster.hierarchy import dendrogram, linkage, fcluster
import pandas as pd
from types import SimpleNamespace
from havoc_clustering_v2.general_utility.ai.t... |
9a9333a2be74f31ee873ed55cdfc37e7cc3cb585f76867daccb1ecd0c98ade4d | Python | 15,599 | 469 | """
This script defines several transforms that can be used for multiple images.
Most of the transforms are based on the code of torchvision.
These transforms are useful when input and label are both images.
Some of the transforms only change the image but keep the label unchanged, e.g. Normalize.
While others will ch... |
3a617c5215bff865362826a60eeebcb8bcd1b2cce2c4dbae0ff908bdcb6f2c89 | Python | 15,600 | 423 | # Copyright (c) OpenMMLab. All rights reserved.
import warnings
import mmcv
import torch
from mmcv.image import imwrite
from mmcv.utils.misc import deprecated_api_warning
from mmcv.visualization.image import imshow
from mmpose.core.evaluation import (aggregate_scale, aggregate_stage_flip,
... |
e0297464b26a01cd7be2a31cad61ab71009d65f2e462ec32c90595b032058a79 | Python | 15,610 | 313 | import torch
from torch import nn
from models.UNet import setup_unet
from models.perception_loss import vgg16_feat, perceptual_loss
from util.util import grayimg
from .base_model import BaseModel
from . import networks
from parse_config import ConfigParser
import parse_config
class Dadgan3chSinglemodModel(BaseModel)... |
061c7ede86f874d30168d33cb3b86f2c967ba5e8740897b870b68965ac724d8f | Python | 15,618 | 372 | import os.path
import random
import sys
import cv2
import h5py
import numpy as np
import scipy.ndimage as ndimage
from PIL import Image
import torchvision.transforms.functional as F
from pytictoc import TicToc
from data.base_dataset import BaseDataset, get_params, get_transform
from util.util import window_image
de... |
f6adc41a4a2899e9bdaec7c3c5b6a797e9643bfd2f3215180f61fe7bc12e131d | Python | 15,627 | 407 | # Copyright (c) OpenMMLab. All rights reserved.
import logging
import time
from abc import ABCMeta, abstractmethod
from dataclasses import dataclass
from threading import Thread
from typing import Callable, Dict, List, Optional, Tuple, Union
from mmcv.utils.misc import is_method_overridden
from mmpose.utils import St... |
49296021bdd643326494c72c7f53d209307a5702575bd0a135cd5a1cd29a8e05 | Python | 15,637 | 402 | import random
import numbers
import torch
import torchvision
from torchvision.transforms import functional as F
from scipy.ndimage import zoom
import numpy as np
from PIL import ImageFilter
import math
import torch
from torch import Tensor
class Compose(object):
"""Composes several transforms together.
Args:
... |
9441c29ee9881fc7bb35bfe62ef9ccc012d018c94b6e8106bd2091b705842d88 | Python | 15,694 | 312 | import argparse
import logging
import os
import random
import socket
import sys
import datetime
import numpy as np
import psutil
import setproctitle
import torch
import wandb
import yaml
# add the FedML root directory to the python path
sys.path.insert(0, os.path.abspath(os.path.join(os.getcwd(), "../../../")))
from... |
f341fedb4eabfa00a921f64eeb5a4054bb1239e5ddab17c35a04e75877b330cc | Python | 15,703 | 351 | from rdkit import Chem
from datetime import datetime
from collections import defaultdict
import numpy as np
import pandas as pd
import pickle
# from pandas.core.common import SettingWithCopyWarning
from pandas.errors import SettingWithCopyWarning
import warnings
warnings.simplefilter(action="ignore", category=Setting... |
10f77e5c339f3c29482fe314af9e592314fefd5c1e875f536a29f3005bedba71 | Python | 15,709 | 245 | import sys
import os
import argparse
import logging
import pytorch_lightning as pl
from pytorch_lightning.callbacks import EarlyStopping
from pytorch_lightning.callbacks.model_checkpoint import ModelCheckpoint
from pytorch_lightning.callbacks import StochasticWeightAveraging
from pytorch_lightning.loggers import CSVLog... |
13e4a0ec203e8cbb318d35bd49f194287eb7c62f35d301d85ede9e1455c14795 | Python | 15,714 | 474 | # Copyright (c) OpenMMLab. All rights reserved.
import math
import warnings
import mmcv
import torch
import torch.nn as nn
from mmdet.core import bbox_overlaps
from ..builder import LOSSES
from .utils import weighted_loss
@mmcv.jit(derivate=True, coderize=True)
@weighted_loss
def iou_loss(pred, target, linear=False... |
dc401111d49badfb5dbb156e0fc04a562717180d186577192b70305d82ec2b94 | Python | 15,735 | 441 | # Copyright (c) OpenMMLab. All rights reserved.
import cv2
import mmcv
import numpy as np
import torch
from mmpose.core.visualization.image import imshow_mesh_3d
from mmpose.models.misc.discriminator import SMPLDiscriminator
from .. import builder
from ..builder import POSENETS
from .base import BasePose
def set_req... |
e4f071ee059bedcfa94e53b2db8ac658d0abd7a4d251a88e3b5d55ef1142ac99 | Python | 15,738 | 379 | # Copyright Universitat Pompeu Fabra 2020-2023 https://www.compscience.org
# Distributed under the MIT License.
# (See accompanying file README.md file or copy at http://opensource.org/licenses/MIT)
from collections import defaultdict
import torch
from torch.optim import AdamW
from torch.optim.lr_scheduler import Red... |
3c30ed822d11654516351f3abcf93be2eaf237bfe0be5843f11ef02b0989837d | Python | 15,762 | 360 | import torch
import tensorflow as tf
import os
os.environ['XLA_PYTHON_CLIENT_PREALLOCATE'] = 'false'
tf.config.set_visible_devices([], device_type='GPU')
from pprint import pprint
import jax.numpy as jnp
import jax.tree_util as tree
import numpy as np
from functools import partial
import haiku as hk
import optax
impor... |
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