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3b936adc0268f74cb8bbdb1cce6ab6ef4fb525b1d5ef4dc12dbcd3cebc928f59
Python
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# Kai Sandbrink # 2023-06-23 # This script analyzes the task 1 behavior for a compiled DF or responses # %% LIBRARY IMPORT import numpy as np import pandas as pd import scipy.fft import os, pickle import seaborn as sns import matplotlib.pyplot as plt import matplotlib as mpl from human_utils_project import sort_tra...
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Python
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"""idea is to have abscissa and ordinate, and to use aliasing to have n_series, _series_subset, series_ids, (or trial_ids), and so on. What is the genericized class? EventArray? eventseries, eventcollection when event <==> spike, abscissa <==> data, eventseries <==> eventarray eventseries_id <==> series_id, even...
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Python
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""" Schemas for resonant scanners.""" import datajoint as dj from datajoint.jobs import key_hash import matplotlib.pyplot as plt import numpy as np import scanreader from scipy import ndimage from tqdm import tqdm from . import experiment, injection, notify, shared from .utils import galvo_corrections, signal, quality...
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Python
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""" Copyright 1999 Illinois Institute of Technology Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publis...
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Python
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# note: # veva can be binned, and binning can be accommodative, or accumulative # accomodative is averaging/interp while accumulative is mass-preserving # __all__ = ['EventArray', # 'BinnedEventArray', # 'SpikeTrainArray', # 'BinnedSpikeTrainArray'] # __all__ = ['BaseValueEventArray(...
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# Code (c) by Paula T. Kuokkanen, Z. Mehnoush Faghani # # Code is licensed under a # Creative Commons Attribution 4.0 International License. # # You should have received a copy of the license along with this # work. If not, see <https://creativecommons.org/licenses/by/4.0/>. # # Code for figures 6-9 in the manuscript...
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Python
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import elikopy.utilsSynb0Disco as util import nibabel as nib import numpy as np from random import shuffle import math import glob import sys import datetime import time import os import json import shutil import matplotlib.pyplot from future.utils import iteritems import subprocess from dipy.data import get_sphere f...
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"""Contains the tests for the model abstractions of ViRelAy.""" import glob import os import h5py import numpy import pytest from virelay.model import ( Analysis, AnalysisCategory, AnalysisDatabase, Attribution, AttributionDatabase, DownSamplingMethod, Hdf5Dataset, ImageDirectoryDatas...
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Python
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""" Iterative mesh refinement for surface morphometrics pipeline. This script implements density-guided mesh refinement that moves surface vertices toward the true membrane center by: 1. Sampling density profiles along normal vectors 2. Fitting dual Gaussians to identify membrane leaflet peaks 3. Computing displacemen...
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Python
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# Ultralytics 🚀 AGPL-3.0 License - https://ultralytics.com/license """ Export a YOLO PyTorch model to other formats. TensorFlow exports authored by https://github.com/zldrobit. Format | `format=argument` | Model --- | --- | --- PyTorch ...
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Python
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#!/usr/bin/python2 # Handle unicode encoding import csv import errno import getpass import itertools import locale import os import platform import threading import time import shlex import socket import sys import tempfile import urllib2 from optparse import OptionParser, OptionGroup, SUPPRESS_HELP from re import c...
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# -*- coding: utf-8 -*- # @Author : LG import functools import math import os import cv2 # 调整图像饱和度 import imgviz import numpy as np import orjson import requests import torch from PIL import Image from PyQt5 import QtCore, QtGui, QtWidgets from PyQt5.QtCore import QThread, pyqtSignal from skimage.draw.draw import p...
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"""PyTorch ResNet This started as a copy of https://github.com/pytorch/vision 'resnet.py' (BSD-3-Clause) with additional dropout and dynamic global avg/max pool. ResNeXt, SE-ResNeXt, SENet, and MXNet Gluon stem/downsample variants, tiered stems added by Ross Wightman Copyright 2019, Ross Wightman """ import math fro...
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""" Copyright 1999 Illinois Institute of Technology Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publis...
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import warnings import logging from pathlib import Path import sys sys.path.append('...') import torch.nn from torch.nn.parameter import Parameter import torch.nn.functional as F import torch.autograd as autograd import flair.nn import torch from flair.data import Dictionary, Sentence, Token, Label from flair.datase...
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# Copyright 2022 Andrew Lehr ### License: Apache-2.0 (http://www.apache.org/licenses/LICENSE-2.0) import os import datetime import warnings import numpy as np import seaborn from sklearn.linear_model import Ridge from sklearn.decomposition import PCA import matplotlib.pyplot as plt from collections import defaultdict ...
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# -*- coding: utf-8 -*- # Resource object code # # Created by: The Resource Compiler for PyQt5 (Qt v5.12.3) # # WARNING! All changes made in this file will be lost! from PyQt5 import QtCore qt_resource_data = b"\ \x00\x00\x07\x21\ \x89\ \x50\x4e\x47\x0d\x0a\x1a\x0a\x00\x00\x00\x0d\x49\x48\x44\x52\x00\ \x00\x00\x20\x...
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""" This file regroups several custom keras layers used in the generation model: - RandomSpatialDeformation, - RandomCrop, - RandomFlip, - SampleConditionalGMM, - SampleResolution, - GaussianBlur, - DynamicGaussianBlur, - MimicAcquisition, - BiasFieldCorruption, - IntensityAugmen...
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Python
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import os import re import sys import csv import glob import shutil import pickle import inspect import textwrap import itertools import subprocess import numpy as np import pandas as pd import seaborn as sns import networkx as nx from scipy import stats from typing import Literal from jinja2 import Template from tqdm....
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# This file is part of connectome-manipulator. # # SPDX-License-Identifier: Apache-2.0 # Copyright (c) 2024 Blue Brain Project/EPFL """Definition and mapping of model types to classes""" from abc import ABCMeta, abstractmethod import os import sys import json import numpy as np import pandas as pd import scipy.spars...
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import torch import torch.nn as nn import numpy as np from torch.nn import MSELoss, BCELoss, CrossEntropyLoss from torch.optim import Adam, SGD from copy import deepcopy from collections import defaultdict from functools import partial from typing import Optional, Dict, Any, Union, Tuple, List import EIANN.utils as ...
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__all__ = [ "TuningCurve1D", "TuningCurve2D", "TuningCurveND", "DirectionalTuningCurve1D", ] import copy import numbers import warnings import numpy as np from scipy.ndimage import gaussian_filter from .. import utils from ..utils_.decorators import keyword_deprecation # TODO: TuningCurve2D # 1. ini...
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# Ultralytics 🚀 AGPL-3.0 License - https://ultralytics.com/license from __future__ import annotations import contextlib import importlib import pickle import re import threading from copy import deepcopy from pathlib import Path import numpy as np import torch from torch import nn from ultralytics.nn.autobackend i...
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# /------------------------------------------------------------------------------+ # | 06-JUL-2022 | # | Copyright (c) Bone Imaging Laboratory | # | All rights reserved ...
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""" (C) Copyright 2019 IBM Corp. 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 in writing, software ...
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Python
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import os import math import shutil import time import random import functools import traceback import sys import csv import tensorflow as tf import numpy as np from tensorflow import keras import pandas as pd import utils.normalization as normalization import matplotlib.pyplot as plt from scipy.spatial import Convex...
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""" nems_lbhb.analysis.dstrf - tools for generating/analyzing dstrfs dstrf_pca - subspace_model_fit - """ import logging import copy import numpy as np import matplotlib.pyplot as plt from sklearn.decomposition import PCA, FactorAnalysis from scipy.ndimage import zoom, gaussian_filter from nems.tools import dstrf a...
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""" nems_lbhb.analysis.dstrf - tools for generating/analyzing dstrfs dstrf_pca - subspace_model_fit - """ import logging import copy import numpy as np import matplotlib.pyplot as plt from sklearn.decomposition import PCA, FactorAnalysis from scipy.ndimage import zoom, gaussian_filter from nems.tools import dstrf a...
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Python
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# Resource object code (Python 3) # Created by: object code # Created by: The Resource Compiler for Qt version 6.4.2 # WARNING! All changes made in this file will be lost! from PySide6 import QtCore qt_resource_data = b"\ \x00\x00\x18\x83\ \x00\ \x00\xa2\xbex\xda\xed]\x09XTYv.\xda\x9e\xe9\ \xa4\xa7\xd3\xf6d&==\xf9&1I...
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Python
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# imagecodecs/numcodecs.py # Copyright (c) 2021-2026, Christoph Gohlke # All rights reserved. # # Redistribution and use in source and binary forms, with or without # modification, are permitted provided that the following conditions are met: # # 1. Redistributions of source code must retain the above copyright notice...
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Python
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"""Generator module for dannce training. """ import os import numpy as np from tensorflow import keras from dannce.engine import processing as processing from dannce.engine import ops as ops from dannce.engine.video import LoadVideoFrame import imageio import warnings import time import scipy.ndimage.interpolation impo...
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""" Schemas for mesoscope scans.""" import datajoint as dj from datajoint.jobs import key_hash import matplotlib.pyplot as plt import numpy as np import pandas as pd import scanreader from scipy import ndimage from tqdm import tqdm from . import experiment, injection, notify, shared from .utils import galvo_correction...
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Python
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#!/bin/python3 # Arbor simulation of memory consolidation in recurrent spiking neural networks, consisting of multi-compartment neurons (with soma, apical dendrite, # and basal dendrite). The neurons are connected via current-based, plastic synapses (early-phase plasticity is based on calcium dynamics, and late # phas...
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"""Main chat interface page for ChemGraph.""" import asyncio import hashlib import logging import os import pprint import queue import threading import uuid from datetime import datetime from pathlib import Path from typing import Any, Dict, Optional import pandas as pd import streamlit as st from ase.io import read ...
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#!/usr/bin/env python3 """ Hyperparameter Optimization CLI Tool A command-line tool for hyperparameter optimization of ML models using Optuna and MLflow. Supports RandomForest, XGBoost, LightGBM, and EBM classifiers with multiple optimization metrics. Features: - Multi-metric optimization with Optuna pruning for effi...
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Python
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# Copyright (C) 2019-2022 Intel Corporation # Copyright (C) CVAT.ai Corporation # # SPDX-License-Identifier: MIT from __future__ import annotations import os.path as osp import re import sys from collections import defaultdict from collections.abc import Callable, Collection, Generator, Iterable, Iterator, Mapping, S...
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# -*- coding: utf-8 -*- """ RegularlySampledAnalogSignalArray ----------------- Core object definition and implementation for RegularlySampledAnalogSignalArray. """ __all__ = [ "RegularlySampledAnalogSignalArray", "AnalogSignalArray", "PositionArray", # Trajectory? "IMUSensorArray", "MinimalExamp...
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# coding: utf-8 import inspect import itertools import math import re import sys import textwrap import warnings from functools import partial from pathlib import Path import joblib import numpy as np import pytest import scipy.sparse from scipy.stats import spearmanr from sklearn.base import clone from sklearn.calibr...
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Python
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import anndata try: from anndata.base import Raw except ImportError: from anndata import Raw import batchglm.api as glm import dask import logging import numpy as np import pandas as pd import patsy import scipy.sparse from typing import Union, List, Dict, Callable, Tuple from diffxpy import pkg_constants from...
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Python
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from __future__ import annotations import copy import inspect import os import warnings from abc import ABC, abstractmethod from collections import defaultdict from collections.abc import Iterable from pathlib import Path from typing import Any, Literal, Optional, TypedDict from urllib.parse import urljoin import h5p...
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Python
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# Copyright (C) CVAT.ai Corporation # # SPDX-License-Identifier: MIT import gzip import io import json import math import os import os.path as osp import zipfile from collections import Counter from collections.abc import Iterable, Sequence from copy import deepcopy from functools import partial from http import HTTPS...
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Python
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import numpy as np import h5py def get_bmu(sample, som): loc = np.argmin(((som.K - sample) ** 2).sum(axis=2)) bmu = np.divide(loc, som.kshape[1]), loc % som.kshape[1] return bmu def distance_map(K): """ Returns the average distance map of the weights. (Each mean is normalized in order to sum u...
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Python
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# -*- coding: utf-8 -*- # Resource object code # # Created by: The Resource Compiler for PyQt5 (Qt v5.5.1) # # WARNING! All changes made in this file will be lost! from PyQt5 import QtCore qt_resource_data = b"\ \x00\x00\x06\x08\ \x89\ \x50\x4e\x47\x0d\x0a\x1a\x0a\x00\x00\x00\x0d\x49\x48\x44\x52\x00\ \x00\x00\x30\x0...
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import warnings import logging from pathlib import Path import torch.nn from torch.nn.parameter import Parameter import torch.nn.functional as F import torch.autograd as autograd import flair.nn import torch from flair.data import Dictionary, Sentence, Token, Label from flair.datasets import DataLoader from flair.embe...
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# Kai Sandbrink # 2023-06-23 # This script analyzes the task 1 behavior for a compiled DF or responses # %% LIBRARY IMPORT import numpy as np import pandas as pd import scipy.fft import os import pickle from sklearn.linear_model import Ridge, Lasso import seaborn as sns import matplotlib.pyplot as plt import matplot...
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Python
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import pandas as pd import os import glob import seaborn as sns import matplotlib.pyplot as plt from matplotlib.colors import to_rgb import numpy as np import pingouin as pg from statannot import add_stat_annotation from tqdm import tqdm import argparse from math import comb #from sklearn.utils import check...
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Python
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# Ultralytics 🚀 AGPL-3.0 License - https://ultralytics.com/license import contextlib import csv import os import platform import shutil import tarfile import urllib import zipfile from copy import copy from pathlib import Path import cv2 import numpy as np import pytest import torch from PIL import Image import ult...
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Python
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""" Fine-tune trainer: a trainer for finetuning BERT and able to be parallelized based on flair Author: Xinyu Wang Contact: wangxy1@shanghaitech.edu.cn """ from .distillation_trainer import * from transformers import ( AdamW, get_linear_schedule_with_warmup, ) from flair.models.biaffine_attention import BiaffineAtte...
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Python
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# coding: utf-8 """Distributed training with LightGBM and dask.distributed. This module enables you to perform distributed training with LightGBM on dask.Array and dask.DataFrame collections. It is based on dask-lightgbm, which was based on dask-xgboost. """ import operator import socket from collections import defa...
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Python
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#Lucas Sancéré - # import copy # import glob import json import math import multiprocessing as mp import warnings # import os # from ast import literal_eval from itertools import product import cv2 import numpy as np import PIL import scipy import shapely.geometry from PIL import Image from skimage.measure import re...
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Python
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"""The viewer's single HTML page. Kept as one self-contained string — no build step, no external assets, no CDN. A bundle gets shared with people who will run one command and expect a page; anything that needs npm or a network fetch fails that test. Three tabs, because a run holds three different kinds of question: ...
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Python
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""" Copyright 1999 Illinois Institute of Technology Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publis...
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""" Figures - Figures within the EMPRISE project (Revision) Joram Soch, MPI Leipzig <soch@cbs.mpg.de> 2023-05-28, 15:45: inherited from "Figures_V1.py" 2024-05-28, 16:16: WP1_Fig1 2024-06-04, 15:47: WP1_Fig2 2024-06-19, 14:59: WP1_Fig3 2024-06-19, 15:27: WP1_Fig4 2024-06-25, 19:57: WP1_Fig2 2024-06-27, 13:18: WP1_Fig2...
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Python
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# Copyright (C) 2021-2022 Intel Corporation # Copyright (C) CVAT.ai Corporation # # SPDX-License-Identifier: MIT import copy import itertools import json import multiprocessing import os import os.path as osp import random import xml.etree.ElementTree as ET import zipfile from collections.abc import Callable from cont...
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Python
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from __future__ import annotations import asyncio import json import math import os import re import tempfile import warnings from abc import ABC, abstractmethod from collections import defaultdict from itertools import groupby from pathlib import Path from queue import PriorityQueue from typing import Any, AsyncGener...
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Python
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from PySide6.QtWidgets import (QApplication, QMainWindow, QWidget, QVBoxLayout, QSpacerItem, QHBoxLayout, QPushButton, QFileDialog, QMessageBox, QTreeView, QHeaderView, QLabel, QFrame, QTableView, QStackedWidget, QComboBox, QInputDialog, QGridLayout, QSizeP...
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Python
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""" Copyright 1999 Illinois Institute of Technology Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publis...
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Python
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import os from argparse import ArgumentParser from math import sqrt import dgl import dgl.function as fn import numpy as np import pandas as pd import pytorch_lightning as pl import torch import torch.nn as nn import torchmetrics as tm import wandb from dgl.nn.pytorch import GraphConv from torch.nn import functional a...
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""" Copyright 1999 Illinois Institute of Technology Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publis...
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#!/usr/bin/env python3 """ Enhanced NTCP Analysis with Traditional and Machine Learning Models ================================================================== This comprehensive script combines: 1. Traditional NTCP models (LKB Log-Logistic, LKB Probit, RS Poisson) 2. Machine learning models (ANN, XGBoost) wi...
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Python
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""" Hypnogram-related functions and class. """ import datetime import logging import warnings import mne import numpy as np import pandas as pd from pandas.api.types import CategoricalDtype from .evaluation import EpochByEpochAgreement from .io import set_log_level from .plotting import _plot_hypnogram from .sleepst...
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"""RHINO functions.""" from __future__ import annotations import os import copy import shutil import warnings from pathlib import Path import numpy as np import pandas as pd import nibabel as nib import nilearn as nil import matplotlib.pyplot as plt from sklearn.mixture import GaussianMixture from skimage import mea...
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import os, sys, time, re, gzip import numpy as np import scipy as sp import matplotlib.pyplot as plt from matplotlib import gridspec import numpy.random as npr # Uncomment this if you need tensorflow #import tensorflow as tf import pandas as pd from scipy.optimize import least_squares from sklearn.metrics import confus...
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import os import re import copy from typing import Dict, List, Optional, Union from urllib.parse import urlparse import scipy.io from typing_extensions import Literal from .config import get_bustools_binary_path, get_kallisto_binary_path from .constants import ( ABUNDANCE_FILENAME, ABUNDANCE_GENE_FILENAME, ...
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""" EMPRISE - EMergence of PRecISE numerosity representations in the human brain Joram Soch, MPI Leipzig <soch@cbs.mpg.de> 2023-06-26, 15:31: get_onsets 2023-06-26, 16:39: get_confounds 2023-06-26, 18:03: get_mask_nii, get_bold_nii, get_events_tsv, get_confounds_tsv 2023-06-29, 11:21: load_mask, load_data 2023-06-29, ...
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import io import os import logging import json import re import math import copy import tempfile import warnings import pandas as pd import numpy as np import h5py from scipy.sparse import csr_array from .epoch import (remove_overlap, merge_epoch, epoch_contained, epoch_intersection, epoch_names_m...
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import numpy as np import numexpr as ne import scipy.signal import logging from nems.registry import layer from nems.distributions import Normal from .base import Layer, Phi, Parameter from .tools import require_shape, pop_shape log = logging.getLogger(__name__) class StateGain(Layer): state_arg = 'state' ...
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#!/usr/bin/env python import json import os import argparse import ntpath import re import sys from PyQt5 import QtGui from PyQt5 import QtWidgets from PyQt5 import QtCore import glob from functools import partial import subprocess import shutil import tqdm import inspect try: import mrcfile except ImportError: ...
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# This file is part of connectome-manipulator. # # SPDX-License-Identifier: Apache-2.0 # Copyright (c) 2024 Blue Brain Project/EPFL """Module for building stochastic connection probability models of various model orders""" from functools import partial import itertools import os.path import matplotlib.pyplot as plt ...
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""" LIST OF FUNCTIONS LoadAndCrop cropframe Reference Locate TrackLocation LocationThresh_View ROI_plot ROI_Location Batch_LoadFiles Batch_Process PlayVideo PlayVideo_ext showtrace Heatmap DistanceTool ScaleDistance """ ######################################################################################## im...
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# -*- coding: utf-8 -*- """ Created on Sun Apr 7 20:03:31 2024 @author: aka2333 """ # In[] import numpy as np from scipy import ndimage import pandas as pd # basic plot functions import matplotlib as mpl import matplotlib.pyplot as plt import re, seaborn as sns # turn off warning messages import ...
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import multiprocessing import os import os.path as op import random from typing import List, Self, Tuple, Union import cvxpy as cvx import nibabel as nib import numpy as np # import numpy.matlib as npm import scipy.linalg as sla from joblib import Parallel, delayed from scipy.special import factorial, gamma, hyp1f1 fr...
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import datajoint as dj import torch import numpy as np from .utils import list_hash, key_hash, deepdraw, process, unprocess, SpatialTransformerPyramid2d, roll from attorch.regularizers import Laplace from neuro_data.static_images.data_schemas import StaticMultiDataset, InputResponse, StaticScan, meso from neuro_dat...
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# coding: utf-8 """Scikit-learn wrapper interface for LightGBM.""" import copy import warnings from inspect import signature from pathlib import Path from typing import TYPE_CHECKING, Any, Callable, Dict, List, Optional, Tuple, Union import narwhals as nw import narwhals.dependencies as nwd import narwhals.typing as ...
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""" YASA code for evaluating the agreement between two scorers (e.g., human vs YASA), either at the epoch-by-epoch level or at the level of summary sleep statistics. Analyses are influenced by the standardized framework proposed in Menghini et al., 2021, SLEEP. See the following resources: - https://doi.org/10.1093/sl...
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from __future__ import annotations import json import h5py import traceback import numpy as np import traceback from tqdm import tqdm from pathlib import Path from typing import Optional, Union, BinaryIO, TextIO from dataclasses import dataclass from scipy.spatial.distance import cdist import torch from torch_geometr...
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""" This file contains functions to edit/preprocess volumes (i.e. not tensors!). These functions are sorted in five categories: 1- volume editing: this can be applied to any volume (i.e. images or label maps). It contains: -mask_volume -rescale_volume -crop_volume -crop_volume_around_reg...
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# Copyright (C) CVAT.ai Corporation # # SPDX-License-Identifier: MIT import csv import json from http import HTTPStatus from io import BytesIO, StringIO from typing import Any from zipfile import ZipFile import pytest from cvat_sdk.core.helpers import get_paginated_collection from deepdiff import DeepDiff from rest_...
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from __future__ import annotations import copy import enum import functools import math import os import platform import re import subprocess import time import typing import webbrowser from pathlib import Path from typing import Final from typing import Literal from typing import NamedTuple from typing import TypeAli...
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""" YASA (Yet Another Spindle Algorithm): fast and robust detection of spindles, slow-waves, and rapid eye movements from sleep EEG recordings. - Author: Raphael Vallat (www.raphaelvallat.com) - GitHub: https://github.com/raphaelvallat/yasa - License: BSD 3-Clause License """ import logging from collections import Or...
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import logging from typing import Dict, List, Tuple from math import ceil, prod import numpy as np from zigzag.classes.mapping.combined_mapping import Mapping from zigzag.classes.mapping.combined_mapping import FourWayDataMoving from zigzag.utils import pickle_deepcopy logger = logging.getLogger(__name__) class Por...
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""" Schemas for structural stacks. """ import datajoint as dj from datajoint.hash import key_hash import matplotlib.pyplot as plt import numpy as np import scanreader from scipy import signal from scipy import ndimage from scipy import optimize import itertools from . import experiment, notify, shared, reso, meso anat...
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# Ultralytics 🚀 AGPL-3.0 License - https://ultralytics.com/license from __future__ import annotations import math import random from copy import deepcopy from typing import Any import cv2 import numpy as np import torch from PIL import Image from torch.nn import functional as F from ultralytics.data.utils import p...
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# Generated by the protocol buffer compiler. DO NOT EDIT! from google.protobuf import descriptor from google.protobuf import message from google.protobuf import reflection from google.protobuf import descriptor_pb2 # @@protoc_insertion_point(imports) DESCRIPTOR = descriptor.FileDescriptor( name='caffe.proto', ...
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# Copyright (C) 2018-2022 Intel Corporation # Copyright (C) CVAT.ai Corporation # # SPDX-License-Identifier: MIT import itertools import os import os.path as osp import re import shutil import textwrap import traceback import zlib from abc import ABCMeta, abstractmethod from contextlib import suppress from copy import...
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import matplotlib.pyplot as plt import matplotlib.patches as mpatches from matplotlib import gridspec import seaborn as sns import numpy as np import pandas as pd import pingouin as pg import copy import diptest from statsmodels.stats.anova import AnovaRM from statsmodels.stats.multicomp import pairwise_tukeyhsd from s...
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import datajoint as dj import torch import numpy as np from numpy.linalg import eigvals from attorch.regularizers import Laplace from scipy import ndimage from scipy.optimize import minimize from scipy.interpolate import interp1d from scipy.ndimage.filters import gaussian_filter from skimage.morphology import convex_hu...
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""" Copyright 1999 Illinois Institute of Technology Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publis...
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# Copyright (c) 1999-2002 Gary Strangman; All Rights Reserved. # # This software is distributable under the terms of the GNU # General Public License (GPL) v2, the text of which can be found at # http://www.gnu.org/copyleft/gpl.html. Installing, importing or otherwise # using this module constitutes acceptance of the t...
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""" Elikopy @author: qdessain, msimon """ import datetime import os import json import shutil import time import subprocess import matplotlib.pyplot import matplotlib import elikopy.utils from elikopy.individual_subject_processing import (preproc_solo, dti_solo, white_mask_solo, noddi_solo, diamond_solo, mf_solo...
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# baseline pytorch framework import torch import torch.nn as nn from torch.utils.data import Dataset, DataLoader, random_split import torch.nn.functional as F from torchvision import transforms from torchvision.datasets.folder import default_loader from torchvision.datasets.utils import download_url # plotting and dat...
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"""GenoCAE. Usage: run_gcae.py train --datadir=<name> --data=<name> --model_id=<name> --train_opts_id=<name> --data_opts_id=<name> --save_interval=<num> --epochs=<num> [--resume_from=<num> --trainedmodeldir=<name> --recomb_rate=<num> --superpops=<name> --generations=<num> --phenofile=<name> --pheno=<name> --rand_spl...
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import datajoint as dj import numpy as np from itertools import product from scipy import ndimage from functools import partial import math import torch.optim as optim from skimage import morphology from tqdm import tqdm import torch from torch import nn import torch.nn.functional as F import os import pickle import ra...
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import numpy as np import random from scipy.stats import norm from scipy.stats import multivariate_normal import pickle import itertools def agent_run(learner, rewards, world): state_new, reward_new = world.next_state(learner, rewards) if not world.passive: feature_iw = 0 learner.update_estima...
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# Standard library import importlib import importlib.metadata try: from importlib.resources import files tmp = files('encore.gui') except (TypeError, ImportError): # Python < 3.10 from importlib_resources import files import math import os import pickle import sys import time from datetime import datetime ...
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import os, csv from abc import abstractmethod from torch.utils.data import Dataset, random_split from typing import List, Dict, Union import re import logging from pathlib import Path import torch.utils.data.dataloader from torch.utils.data.dataset import Subset, ConcatDataset import flair from flair.data import Sen...
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import os, csv import json from abc import abstractmethod from torch.utils.data import Dataset, random_split from typing import List, Dict, Union import re import logging from pathlib import Path import torch.utils.data.dataloader from torch.utils.data.dataset import Subset, ConcatDataset import flair from flair.data...
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import math ################################# ##### ENERGY PARAMETERS ##### ################################# interior_loop_lengths = [math.inf,math.inf,math.inf,math.inf,1.7,1.8,2.0,2.2,2.3,2.4,2.5,2.6,2.7,2.8,2.9,3.0,3.0,3.1,3.1,3.2,3.3,3.3,3.4,3.4,3.4,3.5,3.5,3.6,3.6,3.6,3.7] bulge_loop_lengths = [math.inf,3...
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# Generated by the protocol buffer compiler. DO NOT EDIT! # source: caffe_fastrcnn.proto from google.protobuf.internal import enum_type_wrapper from google.protobuf import descriptor as _descriptor from google.protobuf import message as _message from google.protobuf import reflection as _reflection from google.protob...
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# Copyright (C) 2019-2022 Intel Corporation # Copyright (C) CVAT.ai Corporation # # SPDX-License-Identifier: MIT from __future__ import annotations import mimetypes import os import re import shutil import string import textwrap import uuid import warnings from collections import OrderedDict from collections.abc impo...