sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
4c3a52cc126c6aa618a246eb3e9a603cc1aab461d3d57df3c583fc8550cca64d | Python | 75,685 | 2,095 | # Copyright 2018 The HuggingFace Inc. team.
#
# 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 ... |
3c0c2dff618d2debf1d29a7d813f50cc3dd6274d7f911381404f0b7ce93cfecf | Python | 75,799 | 1,489 | # Copyright 2024 The HuggingFace Inc. team.
# Copyright (c) 2020, NVIDIA CORPORATION. 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/licen... |
7f99425a1cbe1e16ab4744ddd89c9cde51393e474b0a7d94bbfa1666bf08f01f | Python | 75,925 | 1,630 | # Copyright 2019-present CNRS, Facebook Inc. and the HuggingFace Inc. team.
#
# 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 requi... |
fb8d08afa66c3c4e6f798cf7e68179214e9766667351941c19467d7aba14a05a | Python | 77,558 | 2,049 | """
Controller: run_plan
=================================
Description:
Batch Controller: A SimpleMind controller for running a pipeline.
A pipeline run requires a plan + dataset.
It processes each sample in the dataset before terminating.
For supported uploaders, `run_plan.py` can reuse a ... |
3210d3821c81a32855b30fa440422a39f1ce8a09d3370d93176eb5f5f924aba0 | Python | 77,941 | 1,937 | import csv
import os
import pickle
import queue
import sys
import threading
import time
import warnings
import multiprocessing as mp
from collections import defaultdict
from math import isnan
from os.path import exists, join
from typing import (
TYPE_CHECKING, Any, Dict, List, Optional, Tuple, Union, Iterable, Call... |
1dc7393c671868b8f8e7354e011cb32372a4b13b74b910f9ddae127147c9e0a7 | Python | 77,946 | 1,712 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/deformable_detr/modular_deformable_detr.py.
# Do NOT edit this file manually as any edits will be overwritten by ... |
350ce0aa830f14771ddb22192c374da3da2e92f859d8f5cec6d307f9637e8bea | Python | 78,258 | 1,703 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/glm4v_moe/modular_glm4v_moe.py.
# Do NOT edit this file manually as any edits will be overwritten by the generati... |
d48940d3368c59c6b692453ed37ac18c45b5c3745e0d05e85241b7b08a0064ed | Python | 78,404 | 2,087 | # -----------------------------------------------------------------------------
# Copyright (c) Yongning Lei 2024-2025
# All rights reserved.
#
# This script is distributed under the Apache-2.0 license.
# You may use, distribute, and modify this code under the terms of the Apache-2.0 license.
# See the LICENSE file for... |
4e6921f3e341aa36c7ed8030a60a99a376c498ed1861eda31aed71b81287bf60 | Python | 78,680 | 2,021 | """Functions for partitions. """
import concurrent
import concurrent.futures
import copy
import json
import logging
import multiprocessing as mp
import os
import time
from functools import partial
import numpy as np
import torch
from .. import backend as F, graphbolt as gb
from ..base import dgl_warning, DGLError, ... |
f6c3936b12b462c9548469bbf4c46aae888bc513aaa6e97cf2b4b1f53bc7c5f1 | Python | 78,943 | 2,088 | """
HemiCET Optimization — Experiments E4, E5, E6, E7 and Combinations
Runs sequentially:
E4: Self-supervised MAE pretraining → fine-tune HemiCET
E5: Add midline channels (10ch instead of 8ch)
E6: Multi-segment training (up to 5 segments per patient)
E7: Retrain CNN+Attention frequency model on cleaned labels
... |
a18fd6bcba9b5870e3a3b147fa3e7d38c1c934282d056cdefbad3a1965fa28fd | Python | 79,092 | 1,581 | # Copyright 2025 HuggingFace Inc. team. 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 applicab... |
4dc978f7dda0877a180371b2fa24ac075cb54268a326a55f18af791965743626 | Python | 79,414 | 1,675 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/diffusion_gemma/modular_diffusion_gemma.py.
# Do NOT edit this file manually as any edits will be overwritten by ... |
b6ffd7a29866a984e68e6d53c317f9a928bc16a233edf1605bf7bb4cbe9a8b34 | Python | 79,935 | 2,403 | import os
import pickle
import re
import tempfile
import unittest
import backend as F
import dgl
import dgl.graphbolt as gb
import pytest
import torch
import torch.multiprocessing as mp
from dgl.graphbolt.base import etype_str_to_tuple
from scipy import sparse as spsp
from .. import gb_test_utils as gbt
torch.man... |
04016a8214eed65d2158fd78d955fe42df67018872096b65787901605496c0ef | Python | 80,488 | 1,776 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/ernie4_5_vl_moe/modular_ernie4_5_vl_moe.py.
# Do NOT edit this file manually as any edits will be overwritten by ... |
9add9eaeab65cd8e94aba274ea7e0dfd9428bc70a9ed06733e1fd02473a8041d | Python | 80,695 | 2,066 | """Module for converting graph from/to other object."""
from collections import defaultdict
from collections.abc import Mapping
import networkx as nx
import numpy as np
from scipy.sparse import spmatrix
from . import backend as F, graph_index, heterograph_index, utils
from .base import DGLError, EID, ETYPE, NID, NTY... |
80de129eec4183660086222c430ba81f8656251c19f8d5ea322c93a198806ff8 | Python | 80,808 | 1,538 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/deepseek_v4/modular_deepseek_v4.py.
# Do NOT edit this file manually as any edits will be overwritten by the gene... |
501f5f0b91bd1d83aba3bfb8b44247c7f496e74cd18f8540afee83526253fe5c | Python | 81,587 | 1,646 | # Copyright Studio-Ouisa and The HuggingFace Inc. team. 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 requ... |
d74838cc269320d881cc2d2ef161e6fdb76e79732fe38453fdd009a8394d3850 | Python | 82,088 | 1,735 | # Copyright 2018 The Google AI Language Team Authors and The HuggingFace Inc. team.
# Copyright (c) 2018, NVIDIA CORPORATION. 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 Licens... |
fcc7d022895053541cf504e5969a0ce672635a328fa7cae5507e7f1e4c207970 | Python | 82,088 | 2,169 | # python standard library imports
import copy
import hashlib
import os.path
import pickle
import warnings
from datetime import datetime
from functools import cached_property
# deal with importing collections across versions due to deprication of collections in python 3.10
try:
from collections.abc import Iterable ... |
098e23d959f6adacaa6eacdd49be1cd9ae52b5493e624a37ff240552f694981d | Python | 82,817 | 2,040 | # Copyright 2023 The Salesforce Authors and The HuggingFace Team. 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
#
# U... |
d4c6f591d9b4c07a5fe27afdbde925a2b6572bc1e728b5600083145805424e0d | Python | 84,113 | 1,856 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/conditional_detr/modular_conditional_detr.py.
# Do NOT edit this file manually as any edits will be overwritten b... |
07f0d3805286a8438842c0bfe4edd91a3848d27c8ceee6c9cead56969a3c4cd3 | Python | 84,236 | 2,004 | import imgui
import numpy as np
import glfw
import os
import copy
import OpenGL.GL as gl
from collections import defaultdict
from os.path import join, exists, dirname
from shapely.geometry import Point, Polygon
from shapely.ops import unary_union, polygonize
from tkinter.filedialog import askopenfilename
from typing im... |
6bcf3002db8f00575659e47f0ef5ff4d8a6c2b9f4fd74abf08fbe2d46357c003 | Python | 85,134 | 1,773 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/informer/modular_informer.py.
# Do NOT edit this file manually as any edits will be overwritten by the generation... |
1c857f22e0e63a060522166abecb772ed82d03aaa1383351e7cffe85538ebbad | Python | 85,147 | 1,844 | # Copyright 2022 Google LLC., LongT5 Authors and HuggingFace Inc. team.
#
# 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 ... |
943ab4af4c4a3c6fe3d666dde453b5362e017fd809b8bfe9b2cb37fa19f6362e | Python | 85,178 | 2,292 | # Copyright 2022 Meta and The HuggingFace Inc. team. 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 require... |
84649785ec54cfc4e1085028ecabea5bc6283d5bc6c534f8700961eaf34b1316 | Python | 86,218 | 2,755 | import io
import pickle
import random
import re
from copy import deepcopy
import backend as F
import dgl
import dgl.function as fn
import dgl.nn.pytorch as nn
import networkx as nx
import numpy as np # For setting seed for scipy
import pytest
import scipy as sp
import torch
import torch as th
from dgl import shortes... |
9ced6f791538f04a69614db29f3dfc694f68872ae6cd769e20fd52886fe7efae | Python | 87,665 | 1,903 | # Copyright 2025 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by appl... |
8c0bc8f6b5bf2f910daa246bec68622c35f5e195db0d6352a8887fb21cda537f | Python | 88,824 | 1,931 | # Copyright 2022 Meta Platforms authors and The HuggingFace Team. 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
#
# U... |
0eafcbf9d69603bb3dfa6ee5f2fdf6c34b93f79c31b84499b0a420035378a220 | Python | 88,825 | 1,808 | # Copyright (c) 2021 THUML @ Tsinghua University
# Copyright 2023 Amazon.com, Inc. or its affiliates. All Rights Reserved.
# Copyright 2023 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the Licens... |
2003efe086ccb143c96ebce5c26369809a756bb051862128ed4898370b0d2762 | Python | 91,417 | 1,756 | # Copyright 2023 The HuggingFace Inc. team.
#
# 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 ... |
8e9cea07a9bc10bcdb002ee40e9168920a57330c059d4f3b2a474984262917b4 | Python | 91,601 | 2,042 | # libraries
import tkinter as tk
from tkinter import ttk
from tkinter import messagebox
from tkinter.filedialog import askopenfilename, asksaveasfilename
from webbrowser import open_new
import sys
import os
import traceback
import numpy as np
from scipy import ndimage
import skimage.draw
from skimage import filters
imp... |
cf316131607894c576efdd97043b9f2afd036e230c517b521081a6f75aa99e6c | Python | 92,725 | 2,658 | """Plotting functions for AnnData."""
from __future__ import annotations
from collections import OrderedDict
from collections.abc import Collection, Mapping, Sequence
from itertools import pairwise, product
from types import NoneType
from typing import TYPE_CHECKING, NamedTuple, TypedDict, cast
import numpy as np
im... |
098b1cba1c9e13a75e2a943f0e7153b8cb014924a701360c37864796aea76f7f | Python | 92,790 | 2,093 | # Copyright Studio Ousia and The HuggingFace Inc. team.
#
# 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 la... |
20fd93d4093e99a38cde01e91244548c1559cfc272e6927ebc2547453b4b5f87 | Python | 95,410 | 2,085 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/maskformer/modular_maskformer.py.
# Do NOT edit this file manually as any edits will be overwritten by the genera... |
aae5977365e26f06976b5cac28e8bfcebac660107198d8df7b60b8d2e3d96a65 | Python | 95,948 | 2,405 | import os
import time
import numpy as np
import webbrowser
import pyperclip
import imgui
import glfw
import OpenGL.GL as gl
from contextlib import contextmanager
from typing import List, Any, Optional, Dict, Union, Tuple
from os.path import join, dirname, abspath
from PIL import Image
from tkinter import Tk
from tkinte... |
f885b1fd1513cd7f88cfaeac3ede9f3c382cfa268d932716de45c7b72916f1b8 | Python | 96,249 | 2,111 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/d_fine/modular_d_fine.py.
# Do NOT edit this file manually as any edits will be overwritten by the generation of
... |
0fc7817f27902aa57dc505d68fe376caab9a532f5ca49329b73d4900264206b0 | Python | 97,521 | 2,374 | # Copyright 2026 the HuggingFace Team. 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 applicabl... |
04b4df17b437a5fe0a7116db895192bd1c17cc37260a77dffde5014a12f6a96b | Python | 98,391 | 2,783 | import math
from random import random
from beartype.typing import List, Union, Optional
from beartype import beartype
from tqdm.auto import tqdm
from functools import partial, wraps
from contextlib import contextmanager, nullcontext
from pathlib import Path
import torch
import torch.nn.functional as F
from torch.nn.pa... |
0bd52183a573a9c9508480494dbd2dda1045cd4918b1c2620934cffc2b52dd57 | Python | 99,355 | 2,237 | import math
import random
from itertools import compress
from itertools import groupby
from operator import itemgetter
import dill as pickle
from Utils.Settings import neuropixel_dataset, utils_folder
from mpl_toolkits.axes_grid1.anchored_artists import AnchoredSizeBar
import scipy
import dill
from statannotations.Anno... |
aa92299fd966105ab5e62fa74dc38fa6bcd644aa28c12c253d45c690006a99ba | Python | 100,948 | 2,104 | # Copyright 2020 The Allen Institute for AI team and The HuggingFace Inc. team.
#
# 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 r... |
bd29424bb59322149c6253cb60746802703734f8e327c3e008ec8d09f00f4997 | Python | 102,072 | 2,237 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/deimv2/modular_deimv2.py.
# Do NOT edit this file manually as any edits will be overwritten by the generation of
... |
bd7f0679b3fe15320f6393dcdbf88482ed7e30745e6bc338d8a24392192a45a6 | Python | 103,269 | 1,664 | # Copyright 2020 The HuggingFace Team. 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 applicabl... |
b9ba50d5b9c449f85c7b29633243754715e6a68c8576f9be0a9528590f2450c3 | Python | 103,561 | 1,920 | # Copyright 2022 The HuggingFace Inc. team.
#
# 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 ... |
912636a275371401157df3defc76ff9361b5f70722985f9ccd503c84ba241da4 | Python | 103,783 | 2,372 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/glm5_next/modular_glm5_next.py.
# Do NOT edit this file manually as any edits will be overwritten by the generati... |
9c7067afab8a06d58daeb1a2242a83dd6fd95287d6058ef4f5bba24b2d601243 | Python | 105,122 | 2,178 | # Copyright 2021 Iz Beltagy, Matthew E. Peters, Arman Cohan and The HuggingFace Inc. team. 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/l... |
b2ad0d8f7f0576ece856425b3200a78966aea643b5ba0d172128a6f6706262eb | Python | 107,699 | 2,379 | # Copyright 2021 Google Research The HuggingFace Inc. team. 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 ... |
5d1e90145d97827b441aa1ed2eee6862f82b69c74cc10951102bc545a2369c29 | Python | 109,651 | 2,370 | # Copyright 2026 the HuggingFace Team. 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 applicabl... |
fa51c93792e9d8f8851da1fae56635ef14b2ba1e7232012dec5cc4ab2da6ba49 | Python | 109,783 | 2,501 | # Copyright 2021 Google Research and The HuggingFace Inc. team. 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
#
# Unl... |
977096595e4cbfadf9c35d42d0926ada5f04e9895c3d8d6c95e8ec12185ff305 | Python | 110,856 | 2,230 | # Copyright 2026 The HuggingFace Inc. team. All rights reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by appl... |
eadcac146fc91201c2e510d34cc4b4272ffad3f52b09d93e4e106b1db628a45e | Python | 111,239 | 2,790 | import logging
import sys
import warnings
import numpy as np
from scipy import sparse
from . import _tria_io as io
from . import polygon
logger = logging.getLogger(__name__)
def _reduce_edges_to_path(
edges: np.ndarray,
start_idx: int | None = None,
get_edge_idx: bool = False,
) -> list | tuple[list, l... |
2576a145881158ca5ff36c614f4550018d23d14f582597d981f4384d8a4cdf51 | Python | 111,387 | 2,287 | # Copyright 2026 BioHub and The HuggingFace Inc. team. 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 requi... |
a3dafdc8395a173fccc1d7a11cf0cfccc6ea22eed98e3c3f04131ace0c6d29a3 | Python | 111,561 | 2,327 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/gemma3n/modular_gemma3n.py.
# Do NOT edit this file manually as any edits will be overwritten by the generation o... |
aadfdc22509cc67449a2c13b8fcdafa5bb46cee5b113950162e366b200225d63 | Python | 112,606 | 2,689 | '''PyTorch backend for the slideflow.model submodule.'''
import inspect
import json
import os
import types
import numpy as np
import multiprocessing as mp
import pandas as pd
import torch
import torchvision
from torch import Tensor
from torch.nn.functional import softmax
from packaging import version
from rich.progre... |
508f200e3d7c185176c26fdc2b3576d6b9ddfdc296489900067cdb25653eaf8a | Python | 113,038 | 2,645 | '''Tensorflow backend for the slideflow.model submodule.'''
from __future__ import absolute_import, division, print_function
import atexit
import inspect
import json
import logging
import os
import shutil
import numpy as np
import multiprocessing as mp
import tensorflow as tf
from packaging import version
from os.pat... |
879f256857634bf11be989ecc2d18f736db84e8a4b7a159b5b9680fc8099049e | Python | 113,490 | 2,983 | from __future__ import annotations
import argparse
import asyncio
import base64
import fcntl
import getpass
from datetime import datetime, timezone
import json
import os
from pathlib import Path
import shlex
import shutil
import signal
import subprocess
import sys
import tempfile
import time
from typing import Any
fro... |
442e7fed4f23723aaa4059fb9fb4627c596abf2ff9c0e7e1e8ce61748c210121 | Python | 114,336 | 2,355 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/esmfold2/modular_esmfold2.py.
# Do NOT edit this file manually as any edits will be overwritten by the generation... |
3eb09b5ab981e5256cfff6e99e97fb4b46811d0ac39126b6a5ef6160d4bb1dab | Python | 114,974 | 2,510 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Tue Sep 3 15:31:24 2019
@author: kai
"""
import numpy as np
import pandas as pd
import matplotlib
matplotlib.use('agg')
import matplotlib.pyplot as plt
from rowwise_neuron_curves import *
import os
from scipy.stats import t, ttest_rel
from matplotlib.tick... |
878907aac1f46cac38a78b2ad6e38e0c4139ac51a4939d89a8960961b3dc6784 | Python | 115,278 | 2,265 | ############################################################################
# Copyright 2019 Google LLC
#
# 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
#
# https://www.apache.org/l... |
fec22f2ce5e8d780059c1311b675c1c7959d045509c38e8694af38d3feee986f | Python | 117,531 | 3,130 | import os
import pickle
import random
import re
import tempfile
import unittest
import warnings
import numpy as np
import pandas as pd
import pydantic
import pytest
import torch
import yaml
from dgl import graphbolt as gb
from dgl.graphbolt import GBWarning
from .. import gb_test_utils as gbt
def write_yaml_file(ya... |
7e1d7f5da77efc95f11531ea2ed7270ffd4e19615c48ed44d9386229a8182988 | Python | 117,562 | 2,756 | # Copyright 2018 The HuggingFace Inc. team.
#
# 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 ... |
b731858d411dcf542d18c4eedcd1ba7ed2055934e4358143d55e54d0623c7ada | Python | 117,904 | 2,523 | #!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Thu Mar 9 11:40:35 2023
@author: yatangli
"""
import numpy as np
import math
from matplotlib import pyplot as plt
from matplotlib import colors
from scipy.cluster.hierarchy import dendrogram, linkage
import seaborn as sns
import scipy
import cv2
from scip... |
e07397bf564a5468d63432b0998abf743d364561296b9f9fa99e735690573acd | Python | 117,910 | 2,679 | # Copyright 2020 The HuggingFace Team. 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 applicabl... |
c7fbfc5fc47d93dfb1eede9e6f23f36b5c12adb8f6abc6c496b72ef499abd99f | Python | 118,063 | 2,467 | # Copyright 2025 Google Inc. HuggingFace Inc. team. 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 requir... |
bf5e6269ba573a541462f41f0388a50ec114299dc736f97c344cc6e3345a8fa3 | Python | 118,270 | 2,404 | from abc import ABC, abstractmethod
from collections import UserDict
from collections.abc import Iterable
import torch
from .configuration_utils import PreTrainedConfig
from .utils import (
is_hqq_available,
is_optimum_quanto_available,
is_quanto_greater,
is_torch_greater_or_equal,
is_torchdynamo_... |
06e5fdf9499dc05db7388e5c3d67c666d501b51a45fd8c9d53dbb7b64476fdb8 | Python | 118,399 | 2,539 | # Copyright 2022 Meta Platforms, Inc. and The HuggingFace Inc. team. 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
#
... |
8a2d65700e25d458a3efe8a858347429a418b1cf03fe7d38a438b1c1bb26df62 | Python | 118,562 | 3,435 | ##
# Copyright 2019-2021 Contributors
#
# 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... |
6de023416997a090074ecf57242401994a769895eaffec9f9bb2c151fca6ab56 | Python | 123,284 | 3,673 | import itertools
import multiprocessing as mp
import unittest
from collections import Counter
import backend as F
import dgl
import dgl.function as fn
import networkx as nx
import numpy as np
import pytest
import scipy.sparse as ssp
from dgl import DGLError
from scipy.sparse import rand
from utils import (
assert... |
e303ae7ddb470c19883b6d2db4ab98869a708addb7e74df6da807aad90eaabf4 | Python | 124,083 | 2,664 | # Copyright 2026 Google Inc. HuggingFace Inc. team. 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 requir... |
6845c98e2d5bb0a7e50ac65e69ba36399166319a0ef99f33b11a101b8ec6153b | Python | 125,971 | 2,697 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/gemma4/modular_gemma4.py.
# Do NOT edit this file manually as any edits will be overwritten by the generation of
... |
b3ec04ffdcb757379269e8084e15ea19b9e6bf8722c3e66bfd72ca1fc313c458 | Python | 127,160 | 2,597 | # Copyright 2024 IDEA Research and The HuggingFace Inc. team. 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
#
# Unles... |
8edb76c051174948c9b0bf6591315f02d320b626a53954ba65c11ae57b39465b | Python | 128,660 | 3,490 | # Copyright 2016 Intel Corporation
#
# 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... |
30d2fb6413f76f1538a3f4aad2328d0dd844a86f91b1315a5990e05423e956ce | Python | 129,835 | 2,879 | from __future__ import division
import os.path as op
#----------------------------------
# initialize global variable config
#----------------------------------
class config(object):
overwrite = False
scriptlist = list()
joblist = list()
queue = False
tStam... |
631ad0cfd89b6541c53f13ca593cf0507cbbd34a40c574b07b7be923f1aaef0b | Python | 137,935 | 2,552 | # Copyright (C) 2025 the HuggingFace Inc. team. 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 ... |
731d9dddda9c87c09026d38559d784f0f2067f8e63dda6c51409937c3fd71d3b | Python | 143,516 | 4,089 | ##
# Copyright 2019-2021 Contributors
#
# 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... |
03e60f7edcc32c5ff7d945b66b1af878c0e35b1aff2d472ee394227aa2fe7856 | Python | 145,545 | 3,513 | '''This module includes tools to convolutionally section whole slide images
into tiles. These tessellated tiles can be exported as PNG or JPG as raw
images or stored in the binary format TFRecords, with or without augmentation.'''
from __future__ import absolute_import, division, print_function
import time
import os... |
1923afd8a23eb2575993d7870e8a7d354c9bd07df75ed5dfd698d354911d85b5 | Python | 147,597 | 4,013 | # Collection of analysis functions and utilities
# Specialized for Hi-C analysis
import numpy as np
import os
import subprocess
import sys
#import matplotlib as mpl
#mpl.use('Agg')
import matplotlib.pyplot as plt
import random
import copy
import matplotlib.gridspec as gridspec
from time import time, sleep
from numpy.l... |
fc17897edd9d0f447f792a06080369261174393a44d9f83e3b3f21deaa95f520 | Python | 148,152 | 3,190 | # 🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨🚨
# This file was automatically generated from src/transformers/models/edgetam_video/modular_edgetam_video.py.
# Do NOT edit this file manually as any edits will be overwritten by the ... |
e4d55dcbffafa34d5e736dda302f1c5ca8b764e144df14bde55addb806c931ed | Python | 153,232 | 3,265 | # Copyright 2024 The HuggingFace Inc. team and Google DeepMind.
#
# 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 appli... |
302a9f8fee933911767b12b016eba46a7d42e873a173cd81742c4b0b021c896b | Python | 156,365 | 3,994 | #!/usr/bin/env python
'''
This code makes the figures for the manuscript "
'''
import seaborn as sns
import matplotlib.pylab as plt
import numpy as np
import networkx as nx
import pandas as pd
import matplotlib as mpl
import os
import sys
import matplotlib.image as mpimg
import matplotlib.gridspec as gridspec
from glo... |
1fe17f37afd59fdff5cdeba4b1c965f3d04db345ef302ec3ea604e66b622890a | Python | 170,304 | 3,953 | """Module for the ``Project`` class and its associated functions.
The ``Project`` class supervises data organization and provides a high-level
API for common functionality, such as tile extraction from whole
slide images, model training and evaluation, feature calculation, and
heatmap generation.
"""
import re
import ... |
e7d39d1fe14d071dd8893aa179c835c9f6d4dcebe779ea96a542ba0f038d1bf8 | Python | 183,024 | 3,899 | from importlib.machinery import SourcelessFileLoader
from jsonschema import draft6_format_checker
from networks.tpdi_layers import TPDILayer, DFCLayer, GNLayer
from networks.abstract_network import AbstractNetwork
import torch
import torch.nn as nn
import numpy as np
from utils.utils import compute_batch_jacob... |
89114ec2afe311e70553a847c478fb03afbc25948f9e746daf2c3b3febad8553 | Python | 189,198 | 4,525 | """Module for the ``Dataset`` class and its associated functions.
The ``Dataset`` class handles management of collections of patients,
clinical annotations, slides, extracted tiles, and assembly of images
into torch DataLoader and tensorflow Dataset objects. The high-level
overview of the structure of ``Dataset`` is a... |
4f0e0ac6af55bd1cd84a19a7a932a19259f25aa6219f34d51465275dac1417ff | Python | 200,000 | 5,415 | """Classes for heterogeneous graphs."""
import copy
import itertools
import numbers
# pylint: disable= too-many-lines
from collections import defaultdict
from collections.abc import Iterable, Mapping
from contextlib import contextmanager
import networkx as nx
import numpy as np
from . import backend as F, core, grap... |
fe9c0c811c3b602b0762d3e02b0b0284288cfc4aef7949e24f4d90f0f948d476 | Python | 200,005 | 3,665 | # Copyright 2020 The Google AI Language Team Authors, Facebook AI Research authors and The HuggingFace Inc. team.
# Copyright (c) 2020, NVIDIA CORPORATION. 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 m... |
bf27420c2c1134317462018ae94cc9c87ff6bbf372273edbbf3ca77a1e44e448 | Python | 200,010 | 3,845 | # Copyright 2018 The Google AI Language Team Authors, Facebook AI Research authors and The HuggingFace Inc. team.
# Copyright (c) 2018, NVIDIA CORPORATION. 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 m... |
1838f0eecfa12757346489a588e7a15b765e21f95b14e8fa17d6d585dac5eddd | R | 50 | 4 | library(testthat)
library(SKM)
test_check("SKM")
|
cb48d5d11955f9f40f534523c1af7987500143b611219097c810318a3bcff638 | R | 64 | 4 | library(testthat)
library(geneBasisR)
test_check("geneBasisR")
|
fd0fd576e41a1af6724cff5ad856b6dd8be53aa18f89e5c7a72244c312183038 | R | 166 | 8 | #Install QuaSAR Packages
a<-installed.packages()
packages<-a[,1]
if (!is.element("qcc",packages)){
install.packages("qcc" , repos='http://cran.us.r-project.org')
}
|
f6c5564c3d160fa30a3a34fb465edf44e39a1baea11aa1b17abc1ae11480ac6f | R | 173 | 3 | #' @param x (`matrix`) The predictor (independet) variable(s). It must be a
#' numeric matrix. You can use [to_matrix()] function to convert your data to
#' a `matrix`.
|
c8f5e4fb27208c599fac697501471fe8042de82e95d1510f6086e4bb640c1a2c | R | 204 | 4 | #' @details
#' All records with missing values (`NA`), either in `x` or in `y` will be
#' removed. The positions of the removed records are returned in the
#' `removed_rows` field of the returned object.
|
c31f46015ec95e9a916b32b39115c81d390764ea56d33d451f6d69d14a046eef | R | 236 | 4 | #' @details
#' You have to consider that before tuning all columns without variance
#' (where all the records has the same value) are removed. Such columns
#' positions are returned in the `removed_x_cols` field of the returned object.
|
da79c10911ed6020c2fec47053c9149da8d5f31241e7d03a096eebdaed0a3797 | R | 263 | 17 | # Import of the bibliography
insert_head()
# container -------
bib <- list()
# reading the BibTex ------
insert_msg('Reading the BibTex')
bib <- read_bib('./paper/markdown/pah_biblio.bib')
# END ------
insert_tail() |
71b2a33daaf4b171918e5144c3f1ecebc12c23379a07c21ee0496656c49bd923 | R | 280 | 22 | data(Maize)
folds <- cv_kfold(nrow(Maize$Pheno), k = 5)
results <- gs_bayesian(
Maize$Pheno,
Maize$Geno,
traits = "Y",
folds = folds,
is_multitrait = FALSE,
iterations_number = 10,
burn_in = 5,
thinning = 5,
seed = NULL,
verbose = TRUE
)
print(results)
|
c3df2b378c415caf39235485257ab77b6ade56f3ea04594d4c354932cd367cac | R | 284 | 6 | source("../MSstatsExternalTool.R")
inputFile <- normalizePath("Human_plasma.csv")
outputdir <- file.path(getwd(), "TestResult");
outputdir <- paste(outputdir, "/", sep="")
dir.create(outputdir, showWarnings = FALSE)
QualityControl(inputFile, FALSE, "all", 100, 200, address=outputdir) |
107b728b427fd2b163e9542d604aea300e29fac88e85862758198d197dabfa87 | R | 301 | 6 | source("../MSstatsExternalTool.R")
inputFile <- normalizePath("Human_plasma.csv")
outputdir <- file.path(getwd(), "TestResult");
outputdir <- paste(outputdir, "/", sep="")
dir.create(outputdir, showWarnings=FALSE)
MsStatsExternalTool(c("GC", "--dataFileName", inputFile, "--outputFolder", outputdir))
|
1d80a4af73a1e4314e09b38f4ec2665633a000b7f729adaffa53aa37a3fb8de2 | R | 303 | 6 | source("../MSstatsExternalTool.R")
inputFile <- normalizePath("ThreeMolecules.csv")
outputdir <- file.path(getwd(), "TestResult");
outputdir <- paste(outputdir, "/", sep="")
dir.create(outputdir, showWarnings=FALSE)
MsStatsExternalTool(c("GC", "--dataFileName", inputFile, "--outputFolder", outputdir))
|
2bd168472b030ba65c83c4f20c8120d359178062d489a72b378a79b5437aade8 | R | 318 | 14 | #' Computes the coefficient of variation of a numeric vector
#'
#' @param x input numeric vector
#'
#' @return A numeric value of the relative standard deviation
#' @export
#'
#' @examples
#' calc_cv(1:10)
calc_cv <- function(x){
# compute relative standard deviation
stats::sd(x, na.rm = T)/mean(x, na.rm = T)
}
|
4cef2501fdd65c5840472ead8accc87c6c48bdb94b6b8aba86600b5151c80296 | R | 322 | 16 |
data1 <- read.table('matchedGWAS.celltype_asso.txt', header=T)
orderedDF <- data1[order(data1$log2Enrich, decreasing=T), ]
print(orderedDF)
pdf('Plots/matchedGWAS.celltype_asso.bar.pdf')
barplot(orderedDF$log2Enrich, names.arg=orderedDF$CellType, las=2, ylab='Log2 enrichment of matched PD GWAS-SNPs')
dev.off()
... |
6c33003dc299db377e6a66e06b66022f7e83b7f25d4a360f8b07151c43c5bd92 | R | 336 | 6 | source("../MSstatsExternalTool.R")
inputFile <- normalizePath("Rat_plasma.csv")
outputdir <- file.path(getwd(), "TestResult");
outputdir <- paste(outputdir, "/", sep="")
dir.create(outputdir, showWarnings=FALSE)
MsStatsExternalTool(c("GC", "--dataFileName", inputFile, "--normalization", "globalStandards","--outputFolde... |
95acd5fdced8b3b79fc845df58338ea024e75efe3fa743117dc6b23d0b0ddffb | R | 354 | 15 | # This program executes the scripts of the PAH biomarker project
# libraries -----
library(soucer)
# listing figure scripts ----
print(source_all(c('import.R',
'exploration.R',
'analysis.R',
'paper.R'),
message = T... |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.