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import os import sys import ctypes import pathlib from typing import Optional P_FLOAT = ctypes.POINTER(ctypes.c_float) class RWKVContext: def __init__(self, ptr: ctypes.pointer): self.ptr = ptr class RWKVSharedLibrary: """ Python wrapper around rwkv.cpp shared library. """ def __init__...
/rwkv_cpp_python-0.0.1.tar.gz/rwkv_cpp_python-0.0.1/rwkv/rwkv_cpp_shared_library.py
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rwkv_cpp_shared_library.py
pypi
import os import time import uuid import json import pathlib from typing import List, Optional, Literal, Union, Iterator, Dict from typing_extensions import TypedDict import sampling import tokenizers import rwkv_cpp_model import rwkv_cpp_shared_library import server_types from fastapi import FastAPI from fastapi.mi...
/rwkv_cpp_python-0.0.1.tar.gz/rwkv_cpp_python-0.0.1/rwkv/server.py
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from typing import List, Optional, Dict, Union from typing_extensions import TypedDict, NotRequired, Literal class EmbeddingUsage(TypedDict): prompt_tokens: int total_tokens: int class EmbeddingData(TypedDict): index: int object: str embedding: List[float] class Embedding(TypedDict): objec...
/rwkv_cpp_python-0.0.1.tar.gz/rwkv_cpp_python-0.0.1/rwkv/server_types.py
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import os import torch import multiprocessing import rwkv_cpp_shared_library from typing import Tuple, Optional class RWKVModel: """ PyTorch wrapper around rwkv.cpp model. """ def __init__( self, shared_library: rwkv_cpp_shared_library.RWKVSharedLibrary, model_path:...
/rwkv_cpp_python-0.0.1.tar.gz/rwkv_cpp_python-0.0.1/rwkv/rwkv_cpp_model.py
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rwkv_cpp_model.py
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# rwkv.cpp This is a port of [BlinkDL/RWKV-LM](https://github.com/BlinkDL/RWKV-LM) to [ggerganov/ggml](https://github.com/ggerganov/ggml). Besides the usual **FP32**, it supports **FP16** and **quantized INT4** inference on CPU. This project is **CPU only**. RWKV is a novel large language model architecture, [with t...
/rwkv_cpp-0.0.1.tar.gz/rwkv_cpp-0.0.1/README.md
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import argparse import os import pathlib import time import sampling import tokenizers import rwkv_cpp_model import rwkv_cpp_shared_library # ======================================== Script settings ======================================== prompt: str = """# rwkv.cpp This is a port of [BlinkDL/RWKV-LM](https://git...
/rwkv_cpp-0.0.1.tar.gz/rwkv_cpp-0.0.1/rwkv/generate_completions.py
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import os import sys import argparse import pathlib import sampling import tokenizers import rwkv_cpp_model import rwkv_cpp_shared_library # ======================================== Script settings ======================================== # Copied from https://github.com/ggerganov/llama.cpp/blob/6e7801d08d81c931a542...
/rwkv_cpp-0.0.1.tar.gz/rwkv_cpp-0.0.1/rwkv/chat_with_bot.py
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chat_with_bot.py
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import os import time import pathlib import argparse import tokenizers import torch import rwkv_cpp_model import rwkv_cpp_shared_library from typing import List def parse_args(): parser = argparse.ArgumentParser(description='Measure perplexity and per-token latency of an RWKV model on a given text file') pars...
/rwkv_cpp-0.0.1.tar.gz/rwkv_cpp-0.0.1/rwkv/measure_pexplexity.py
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import os import sys import ctypes import pathlib from typing import Optional P_FLOAT = ctypes.POINTER(ctypes.c_float) class RWKVContext: def __init__(self, ptr: ctypes.pointer): self.ptr = ptr class RWKVSharedLibrary: """ Python wrapper around rwkv.cpp shared library. """ def __init__...
/rwkv_cpp-0.0.1.tar.gz/rwkv_cpp-0.0.1/rwkv/rwkv_cpp_shared_library.py
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rwkv_cpp_shared_library.py
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import os import time import uuid import json import pathlib from typing import List, Optional, Literal, Union, Iterator, Dict from typing_extensions import TypedDict import sampling import tokenizers import rwkv_cpp_model import rwkv_cpp_shared_library import server_types from fastapi import FastAPI from fastapi.mi...
/rwkv_cpp-0.0.1.tar.gz/rwkv_cpp-0.0.1/rwkv/server.py
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from typing import List, Optional, Dict, Union from typing_extensions import TypedDict, NotRequired, Literal class EmbeddingUsage(TypedDict): prompt_tokens: int total_tokens: int class EmbeddingData(TypedDict): index: int object: str embedding: List[float] class Embedding(TypedDict): objec...
/rwkv_cpp-0.0.1.tar.gz/rwkv_cpp-0.0.1/rwkv/server_types.py
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server_types.py
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import os import torch import multiprocessing import rwkv_cpp_shared_library from typing import Tuple, Optional class RWKVModel: """ PyTorch wrapper around rwkv.cpp model. """ def __init__( self, shared_library: rwkv_cpp_shared_library.RWKVSharedLibrary, model_path:...
/rwkv_cpp-0.0.1.tar.gz/rwkv_cpp-0.0.1/rwkv/rwkv_cpp_model.py
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rwkv_cpp_model.py
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"""Console script for ddlpy.""" import sys import io import logging import click import pandas as pd import dateutil import ddlpy @click.group() @click.option('-v', '--verbose', count=True) def cli(verbose, args=None): """Console script for ddlpy.""" level = logging.INFO if verbose >= 1: level ...
/rws-ddlpy-0.1.0.tar.gz/rws-ddlpy-0.1.0/ddlpy/cli.py
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import io import logging from datetime import datetime, timedelta from typing import Optional, Tuple import mpu import pandas as pd import requests logging.basicConfig() logger = logging.getLogger(__name__) logger.setLevel("INFO") def import_daily_data( start: str, end: str, coord: Optional[Tuple[float, float]]...
/rws_knmi_lib-1.0.0-py3-none-any.whl/rws_knmi_lib/knmi_downloader.py
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from typing import List, Optional, Tuple from pydantic import BaseModel, validator class NWBConfig(BaseModel): """NWB Config class. only_state_roads Whether to only keep state_roads (much faster when True), fewer data of course. output_file_path The file path to write the downloa...
/rws-nwb-lib-1.0.1.tar.gz/rws-nwb-lib-1.0.1/rws_nwb_lib/config.py
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import logging import warnings from typing import List, Tuple import geopandas as gpd import requests from requests import Response from rws_nwb_lib.config import NWBConfig logging.getLogger(__name__).addHandler(logging.NullHandler()) # Filter out warning thrown by geopandas warnings.filterwarnings( "ignore", ...
/rws-nwb-lib-1.0.1.tar.gz/rws-nwb-lib-1.0.1/rws_nwb_lib/download_nwb.py
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_colors = { "blue": { 100: "#00549F", 75: "#407FB7", 50: "#8EBAE5", 25: "#C7DDF2", 10: "#E8F1FA" }, "black": { 100: "#000000", 75: "#646567", 50: "#9C9E9F", 25: "#CFD1D2", 10: "#ECEDED" }, "magenta": { 100: "#E30...
/rwth-CD-colors-0.1.1.tar.gz/rwth-CD-colors-0.1.1/rwth_colors.py
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# rwth.nb ## Introduction This project consists of Jupyter Notebook definitions used by RWTH Aachen University. ## Table of Contents * [RWTH Plots](RWTH%20Plots.ipynb) * [RWTH Colors](RWTH%20Colors.ipynb) ## Jupyter Quick Start * To run all cells of a notebook: In the menu: Run <span class="fa-chevron-right fa"...
/rwth_nb-0.1.8.tar.gz/rwth_nb-0.1.8/index.ipynb
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from matplotlib import rcParams rcParams["axes.axisbelow"] = False # rcParams['font.family'] = 'sans-serif' # rcParams['font.sans-serif'] = ['Arial'] # TODO # rcParams['font.size'] = 14 # rcParams['text.usetex'] = True # rcParams['text.latex.unicode'] = True import matplotlib.pyplot as plt import matplotlib.ticker a...
/rwth_nb-0.1.8.tar.gz/rwth_nb-0.1.8/rwth_nb/plots/mpl_decorations.py
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mpl_decorations.py
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from scipy import signal # butter def butter(cutoff, fs, order=5, type='Tiefpass', fdelta=0): """Butterworth Filter of order n Parameters ---------- cutoff : float cutoff frequency fs : float sampling frequency, is used to calculate nyquist frequency ...
/rwth_nb-0.1.8.tar.gz/rwth_nb-0.1.8/rwth_nb/misc/filters.py
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# Colors When using `rwth_nb.plots.colors`, the RWTH [Corporate Design](http://www.rwth-aachen.de/cms/root/Die-RWTH/Einrichtungen/Verwaltung/Stabsstellen/Marketing/~eqbm/Corporate-Design/) color scheme is stored in a dictionary called `rwth_colors`. When loading `rwth_nb.plots.mpl_decorations`, the RWTH colors are pro...
/rwth_nb-0.1.8.tar.gz/rwth_nb-0.1.8/docs/source/examples/RWTH Colors.ipynb
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# Miscellaneous 1. [Transforms](#Transforms) 1. [Fourier Transform](#Fourier-Transform) 2. [Laplace Transform](#Laplace-Transform) 3. [$z$-Transform](#$z$-Transform) --- ## Transforms Following transforms are defined in `rwth_nb.misc.transforms`: - [Fourier Transform](#Fourier-Transform) - [Laplace T...
/rwth_nb-0.1.8.tar.gz/rwth_nb-0.1.8/docs/source/examples/RWTH Misc.ipynb
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# Plots with Matplotlib `rwth_nb.plots.mpl_decorations` extends Matplotlib to some useful functionality explained below 1. [Simple Plots](#Simple-Plots) 1. [Graph Plot](#Graph-Plot) 2. [Stem Plot](#Stem-Plot) 3. [Multiple Plots](#Multiple-Plots) 4. [Updating Plots](#Updating-Plots) 2. [Annotations](#An...
/rwth_nb-0.1.8.tar.gz/rwth_nb-0.1.8/docs/source/examples/RWTH Plots.ipynb
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RWTH Plots.ipynb
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import matplotlib.pyplot as plt from RWTHColors.colors import * from cycler import cycler class ColorManager: RWTHBlau = RWTHBlau() RWTHSchwarz = RWTHSchwarz() RWTHMagenta = RWTHMagenta() RWTHGelb = RWTHGelb() RWTHPetrol = RWTHPetrol() RWTHTuerkis = RWTHTuerkis() RWTHGruen = RWTHGruen() ...
/rwthcolors-0.2.3-py3-none-any.whl/RWTHColors/cm.py
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from abc import ABC, abstractmethod class Color(ABC): frmt = "HEX" def __init__(self, frmt: str = "HEX"): if frmt not in ["HEX", "RGB"]: raise ValueError("frmt must be HEX or RGB not %s" % frmt) self.frmt = frmt @property @abstractmethod def HEX(self) -> dict: ...
/rwthcolors-0.2.3-py3-none-any.whl/RWTHColors/colors/colors.py
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import math import matplotlib.pyplot as plt from .Generaldistribution import Distribution class Gaussian(Distribution): """ Gaussian distribution class for calculating and visualizing a Gaussian distribution. Attributes: mean (float) representing the mean value of the distribution stdev (float) representing ...
/rwx824550565_udacity-0.1.tar.gz/rwx824550565_udacity-0.1/rwx824550565_udacity/Gaussiandistribution.py
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Gaussiandistribution.py
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import numpy import math import pandas as pnd import utils_noroot as utnr import matplotlib.pyplot as plt from data_splitter import splitter as dsplit #---------------------------- class calculator: log = utnr.getLogger('lep_reso') #---------------------------------- def __init__(self, dat...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/lep_reso.py
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lep_reso.py
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import utils_noroot as utnr import read_calibration as rcal import utils from rk.cutflow import cutflow from rk.efficiency import efficiency from rk.selection import selection as rksl import os import re import ROOT #----------------------------------------------------------- class pr_getter: log...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/pr_getter.py
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pr_getter.py
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import utils_noroot as utnr import matplotlib.pyplot as plt import zutils.utils as zut import ROOT import zfit import math import tqdm import numpy import logging import os import utils from zutils.plot import plot as zfplot from data_splitter import splitter as dsplit from fitter import z...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/fithst.py
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fithst.py
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import math import numpy import utils_noroot as utnr import numdifftools as ndt from scipy.optimize import minimize #--------------------------- class extractor: log = utnr.getLogger('reso_extractor') #--------------------------- def __init__(self, data=None, method = None, bounds=None, init_x = None, nb...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/reso_extractor.py
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reso_extractor.py
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import ROOT import os import math import numpy as np import utils import utils_noroot as utnr from rk.oscillator import oscillator as osc #------------------------------------------- class reader: log=utnr.getLogger(__name__) def __init__(self): self.d_map = {} self.d_bound = {} se...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/trackreader.py
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from collections import UserDict from rk.differential_efficiency import defficiency from rk.efficiency import efficiency from ndict import ndict import utils_noroot as utnr import pandas as pnd #----------------------------------------- class cutflow(UserDict): log=u...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/cutflow.py
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cutflow.py
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from logzero import logger as log from zutils.plot import plot as zfp from fitter import zfitter import zfit import math import pandas as pnd import utils_noroot as utnr import matplotlib.pyplot as plt #--------------------------- class calculator: def __init__(self, pdf, poi_name = '...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/model_uncertainty.py
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model_uncertainty.py
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import numpy import logging import pandas as pnd import utils_noroot as utnr import matplotlib.pyplot as plt from rk.eff_yld_loader import eff_yld_loader as eyl from stats.covariance import covariance #------------------------------ class calculator: log=utnr.getLogger(__name__) #----------...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/ckcov.py
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ckcov.py
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import utils_noroot as utnr import utils import read_selection as rs import logging from rk.selection import selection as rksl #-------------------------------------------------- class selection: """ Class used to apply selections to dataframes """ log=utnr.getLogger('selection') #-------------...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/dfselect.py
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dfselect.py
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import utils_noroot as utnr import re import math #-------------------------------------- class boundaries: log=utnr.getLogger('boundaries') #-------------------------- def __init__(self, tp): self._bounds = tp self._regex = '([inf\d\.-]+),\s+([inf\d\.-]+)' self._identi...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/boundaries.py
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boundaries.py
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import numpy import re import math import logging import pandas as pnd import utils_noroot as utnr import matplotlib.pyplot as plt import zutils.utils as zut from fitter import zfitter from rk.boundaries import boundaries from data_splitter import splitter as dsplit from zutils.plot imp...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/dilep_reso.py
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dilep_reso.py
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import utils_noroot as utnr import matplotlib.pyplot as plt import zfit import math import numpy import re import os from zutils.plot import plot as zfp from logzero import logger as log from rk.scales import mass as mscale from fitter import zfitter #----------------------------------------...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/musg_extractor.py
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musg_extractor.py
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import jacobi as jac import math import utils_noroot as utnr import matplotlib.pyplot as plt import zfit from logzero import logger as log #----------------------------------------- class mass: def __init__(self, dt=None, mc=None): self._d_par_dt = dt self._d_par_mc = mc ...
/rx_tools-0.0.3.tar.gz/rx_tools-0.0.3/src/rk/scales.py
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scales.py
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import funcy import typing from typing import Any import requests import rx from rx import operators as ops import pdb from rxw.models import * def default_unit(key: str) -> Unit: """ given a json key, returns the unit for that key's corresponding measurement """ units = { 'temp': Unit(Uni...
/rx_weather-2.0.1-py3-none-any.whl/rxw/openweathermap.py
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openweathermap.py
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import typing from typing import List, NewType, NamedTuple from datetime import datetime import pytz import tzlocal class Unit: """ defines a unit of measure, "km/h or degress C """ @property def symbol(self) -> str: return self._symbol def __init__(self, sym: str): self._symbol = sy...
/rx_weather-2.0.1-py3-none-any.whl/rxw/models.py
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![PyPI - License](https://img.shields.io/badge/downloads-32k%2Fmonth-brightgreen?style=plastic) ![PyPI - License](https://img.shields.io/pypi/l/rx7?color=orange&style=plastic) ![PyPI - License](https://img.shields.io/badge/status-stable-success?style=plastic) -------------------------------------------------------- "r...
/rx7-4.0.0.tar.gz/rx7-4.0.0/README.md
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RxPy back-pressure extension ============================ ![Build Status](https://github.com/MichaelSchneeberger/rxbackpressure/workflows/build/badge.svg) [![Coverage Status](https://coveralls.io/repos/github/MichaelSchneeberger/rxbackpressure/badge.svg?branch=master)](https://coveralls.io/github/MichaelSchneeberger/...
/rxbp-3.0.0a9.tar.gz/rxbp-3.0.0a9/README.md
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from dataclasses import field from pathlib import Path from typing import List, Optional, Union from pydantic.dataclasses import dataclass from xsdata_pydantic.bindings import XmlParser from .models.oai_dc.org.openarchives.oai.pkg_2.pkg_0.oai_dc.dc import Dc from .models.oai_pmh.org.openarchives.oai.pkg_2.header_type...
/rxiv_types-0.1.0.tar.gz/rxiv_types-0.1.0/src/rxiv_types/chemrxiv.py
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chemrxiv.py
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from dataclasses import field from pydantic.dataclasses import dataclass from typing import List, Optional from xsdata.models.datatype import XmlDateTime from .get_record_type import GetRecordType from .identify_type import IdentifyType from .list_identifiers_type import ListIdentifiersType from .list_metadata_formats_...
/rxiv_types-0.1.0.tar.gz/rxiv_types-0.1.0/src/rxiv_types/models/oai_pmh/org/openarchives/oai/pkg_2/oai_pmhtype.py
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oai_pmhtype.py
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from dataclasses import field from pydantic.dataclasses import dataclass from typing import List, Optional, Union from xsdata.models.datatype import XmlDate from .deleted_record_type import DeletedRecordType from .description_type import DescriptionType from .granularity_type import GranularityType from .protocol_versi...
/rxiv_types-0.1.0.tar.gz/rxiv_types-0.1.0/src/rxiv_types/models/oai_pmh/org/openarchives/oai/pkg_2/identify_type.py
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identify_type.py
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from dataclasses import field from pydantic.dataclasses import dataclass from typing import Optional from xsdata.models.datatype import XmlDate __NAMESPACE__ = "https://api.bioriv.org/OAI/medRxivRaw/" @dataclass class MedRxivRawType: class Meta: name = "medRxivRaw_type" id: Optional[str] = field( ...
/rxiv_types-0.1.0.tar.gz/rxiv_types-0.1.0/src/rxiv_types/models/medrxiv/https/api/bio_rxiv/org/oaipmh/med_rxiv_raw/med_rxiv_raw_type.py
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med_rxiv_raw_type.py
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from dataclasses import field from pydantic.dataclasses import dataclass from typing import Optional from xsdata.models.datatype import XmlDate __NAMESPACE__ = "https://api.biorxiv.org/oaipmh/bioRxivRaw/" @dataclass class BioRxivRawType: class Meta: name = "bioRxivRaw_type" id: Optional[str] = field...
/rxiv_types-0.1.0.tar.gz/rxiv_types-0.1.0/src/rxiv_types/models/biorxiv/https/api/biorxiv/org/oaipmh/bio_rxiv_raw/bio_rxiv_raw_type.py
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from dataclasses import field from pydantic.dataclasses import dataclass from typing import List __NAMESPACE__ = "http://www.openarchives.org/OAI/2.0/oai_dc/" @dataclass class OaiDcType: class Meta: name = "oai_dcType" title: List[str] = field( default_factory=list, metadata={ ...
/rxiv_types-0.1.0.tar.gz/rxiv_types-0.1.0/src/rxiv_types/models/oai_dc/org/openarchives/oai/pkg_2/pkg_0/oai_dc/oai_dc_type.py
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oai_dc_type.py
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# :leaves: Biocatalysis Model *Biocatalysed Synthesis Planning using Data-driven Learning* ## Table of Contents - [Abstract](#abstract) - [Data](#data) - [ECREACT](#ecreact) - [Data Sources](#data-sources) - [Using the Pre-trained Model](#using-the-pre-trained-model) - [Training your own Model](#training-your-ow...
/rxn-biocatalysis-tools-1.0.1.tar.gz/rxn-biocatalysis-tools-1.0.1/README.md
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README.md
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import re from typing import List, Any from .chemical_reaction import ChemicalReaction from rdkit.Chem import AllChem as rdk from rdkit.Chem.rdchem import Mol UNKNOWN_CHEMICAL_REGEX = re.compile(r"^(<.*>)$|^(<)|(>)$") class EnzymaticReaction(ChemicalReaction): """Representation of an enzymatic reaction. Rea...
/rxn-biocatalysis-tools-1.0.1.tar.gz/rxn-biocatalysis-tools-1.0.1/rxn_biocatalysis_tools/enzymatic_reaction.py
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import re SMILES_TOKENIZER_PATTERN = r"(\%\([0-9]{3}\)|\[[^\]]+]|Br?|Cl?|N|O|S|P|F|I|b|c|n|o|s|p|\||\(|\)|\.|=|#|-|\+|\\|\/|:|~|@|\?|>>?|\*|\$|\%[0-9]{2}|[0-9])" SMILES_REGEX = re.compile(SMILES_TOKENIZER_PATTERN) def tokenize_enzymatic_reaction_smiles(rxn: str, keep_pipe=False) -> str: """Tokenize an enzymatic ...
/rxn-biocatalysis-tools-1.0.1.tar.gz/rxn-biocatalysis-tools-1.0.1/rxn_biocatalysis_tools/tokenizer.py
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tokenizer.py
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import logging import random from typing import Callable, List from .miscellaneous import apply_to_any_smiles, apply_to_smiles_groups logger = logging.getLogger(__name__) logger.addHandler(logging.NullHandler()) class SmilesAugmenter: """ Class to augment any kind of SMILES string with the help of randomiza...
/rxn_chem_utils-1.3.0-py3-none-any.whl/rxn/chemutils/smiles_augmenter.py
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smiles_augmenter.py
pypi
from enum import auto from rxn.utilities.types import RxnEnum from .extended_reaction_smiles import ( parse_extended_reaction_smiles, to_extended_reaction_smiles, ) from .reaction_equation import ReactionEquation class ReactionFormat(RxnEnum): """ Existing reaction SMILES formats. Attributes: ...
/rxn_chem_utils-1.3.0-py3-none-any.whl/rxn/chemutils/reaction_smiles.py
0.924874
0.501282
reaction_smiles.py
pypi
from functools import partial from typing import Callable, Iterable, List, Optional from rxn.utilities.containers import remove_duplicates from .conversion import canonicalize_smiles def multicomponent_smiles_to_list( multicomponent_smiles: str, fragment_bond: Optional[str] = None ) -> List[str]: """ Co...
/rxn_chem_utils-1.3.0-py3-none-any.whl/rxn/chemutils/multicomponent_smiles.py
0.957981
0.528959
multicomponent_smiles.py
pypi
import logging import re import shutil from typing import List, Optional from rxn.utilities.files import ( PathLike, dump_list_to_file, iterate_lines_from_file, raise_if_paths_are_identical, ) from .exceptions import UnclearWhetherTokenized logger = logging.getLogger(__name__) logger.addHandler(loggi...
/rxn_chem_utils-1.3.0-py3-none-any.whl/rxn/chemutils/tokenization.py
0.792424
0.320715
tokenization.py
pypi
from itertools import chain, repeat, zip_longest from typing import Iterable, Iterator, Sequence, Tuple from rxn.utilities.misc import get_multipliers from .miscellaneous import merge_reactions from .reaction_equation import ReactionEquation, canonicalize_compounds, sort_compounds from .reaction_smiles import ( R...
/rxn_chem_utils-1.3.0-py3-none-any.whl/rxn/chemutils/reaction_combiner.py
0.918969
0.570391
reaction_combiner.py
pypi
import logging import re import typing from collections import Counter from functools import partial from typing import Callable, List from rdkit.Chem import AddHs, Atom, Mol from rxn.utilities.files import ( PathLike, dump_list_to_file, iterate_lines_from_file, raise_if_paths_are_identical, ) from .c...
/rxn_chem_utils-1.3.0-py3-none-any.whl/rxn/chemutils/miscellaneous.py
0.876344
0.438785
miscellaneous.py
pypi
from functools import partial from typing import ( Callable, Generator, Iterable, Iterator, List, Optional, Type, TypeVar, ) import attr from rxn.utilities.containers import remove_duplicates from .conversion import canonicalize_smiles, cleanup_smiles from .exceptions import InvalidRea...
/rxn_chem_utils-1.3.0-py3-none-any.whl/rxn/chemutils/reaction_equation.py
0.939178
0.588121
reaction_equation.py
pypi
from typing import Any, Dict, Iterable, List, Sequence import numpy as np from rxn.chemutils.reaction_smiles import parse_any_reaction_smiles from rxn.utilities.containers import chunker from rxn.utilities.files import PathLike, iterate_lines_from_file from .metrics import top_n_accuracy from .metrics_calculator impo...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/context_metrics.py
0.91668
0.518241
context_metrics.py
pypi
from typing import Dict, List, Sequence, Tuple, TypeVar import numpy as np from rxn.utilities.containers import chunker from .utils import get_sequence_multiplier T = TypeVar("T") def top_n_accuracy( ground_truth: Sequence[T], predictions: Sequence[T] ) -> Dict[int, float]: """ Compute the top-n accura...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/metrics.py
0.927486
0.685357
metrics.py
pypi
from typing import Any, Dict, Iterable, List, Optional from rxn.utilities.files import PathLike, iterate_lines_from_file, load_list_from_file from .metrics import class_diversity, coverage, round_trip_accuracy, top_n_accuracy from .metrics_calculator import MetricsCalculator from .metrics_files import MetricsFiles, R...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/retro_metrics.py
0.901708
0.316871
retro_metrics.py
pypi
import logging from rxn.utilities.files import ( PathLike, dump_list_to_file, iterate_lines_from_file, raise_if_paths_are_identical, ) logger = logging.getLogger(__name__) logger.addHandler(logging.NullHandler()) def detokenize_class(tokenized_class: str) -> str: """ Function performing a de...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/tokenize_file.py
0.719679
0.389285
tokenize_file.py
pypi
from typing import Iterator, Sequence, TypeVar from rxn.chemutils.reaction_combiner import ReactionCombiner from rxn.chemutils.reaction_smiles import ReactionFormat from rxn.utilities.files import PathLike, count_lines, iterate_lines_from_file from rxn.utilities.misc import get_multiplier, get_multipliers T = TypeVar...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/utils.py
0.9363
0.285412
utils.py
pypi
import logging from pathlib import Path from typing import Optional, Union from rxn.chemutils.tokenization import file_is_tokenized, tokenize_file from rxn.onmt_utils import translate from rxn.utilities.files import dump_list_to_file, is_path_exists_or_creatable from .metrics_files import RetroFiles from .tokenize_fi...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/classification_translation.py
0.931455
0.31662
classification_translation.py
pypi
import json import logging from pathlib import Path from typing import Dict, Type from rxn.chemutils.miscellaneous import canonicalize_file from rxn.chemutils.tokenization import copy_as_detokenized from rxn.onmt_models import rxn_translation from rxn.utilities.files import PathLike, ensure_directory_exists_and_is_emp...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/run_metrics.py
0.656438
0.188268
run_metrics.py
pypi
from pathlib import Path from rxn.utilities.files import PathLike class MetricsFiles: def __init__( self, directory: PathLike, gt_src: str = "gt_src.txt", gt_tgt: str = "gt_tgt.txt", predicted: str = "pred.txt", predicted_canonical: str = "predicted_canonical.txt",...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/metrics_files.py
0.837454
0.248056
metrics_files.py
pypi
import logging from pathlib import Path from typing import List, Tuple, Union import click from rxn.utilities.containers import chunker from rxn.utilities.files import dump_list_to_file, load_list_from_file from rxn.metrics.metrics_files import RetroFiles from rxn.metrics.utils import get_sequence_multiplier logger ...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/scripts/reorder_retro_predictions_class_token.py
0.798383
0.448849
reorder_retro_predictions_class_token.py
pypi
import logging import math from pathlib import Path from typing import Iterable, Tuple import click from rxn.utilities.files import ( PathLike, count_lines, dump_list_to_file, load_list_from_file, ) from rxn.utilities.logging import setup_console_logger logger = logging.getLogger(__name__) logger.addH...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/scripts/ensure_data_dimension.py
0.55917
0.222278
ensure_data_dimension.py
pypi
import logging from pathlib import Path from typing import Optional import click from rxn.chemutils.miscellaneous import canonicalize_file from rxn.chemutils.tokenization import copy_as_detokenized from rxn.onmt_models import rxn_translation from rxn.utilities.files import ensure_directory_exists_and_is_empty from rxn...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/scripts/prepare_retro_metrics.py
0.819207
0.174991
prepare_retro_metrics.py
pypi
import logging import re import shutil from pathlib import Path from typing import List, Tuple import click from rxn.utilities.files import PathLike, raise_if_paths_are_identical from rxn.utilities.logging import setup_console_logger logger = logging.getLogger(__name__) logger.addHandler(logging.NullHandler()) def ...
/rxn_metrics-1.1.0-py3-none-any.whl/rxn/metrics/scripts/join_data_files.py
0.6508
0.263757
join_data_files.py
pypi
import logging from collections import defaultdict from functools import partial from typing import Callable, DefaultDict, Iterable, Iterator, Tuple from rxn.chemutils.conversion import canonicalize_smiles, smiles_to_inchi from rxn.chemutils.miscellaneous import apply_to_any_smiles, sort_any from typing_extensions imp...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/prediction_collapser.py
0.876905
0.295408
prediction_collapser.py
pypi
from typing import Optional from rxn.chemutils.tokenization import detokenize_file, file_is_tokenized, tokenize_file from rxn.onmt_utils import translate from rxn.utilities.files import PathLike, is_path_exists_or_creatable def rxn_translation( src_file: PathLike, tgt_file: Optional[PathLike], pred_file:...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/translation.py
0.92887
0.363223
translation.py
pypi
import datetime import logging import subprocess from typing import IO, List, Optional, cast logger = logging.getLogger(__name__) logger.addHandler(logging.NullHandler()) def log_file_name_from_time(prefix: Optional[str] = None) -> str: """ Get the name of a log file (typically to create it) from the current...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/utils.py
0.775732
0.181354
utils.py
pypi
import logging import re from itertools import count from pathlib import Path from typing import Optional from rxn.utilities.files import PathLike logger = logging.getLogger(__name__) logger.addHandler(logging.NullHandler()) class ModelFiles: """ Class to make it easy to get the names/paths of the trained O...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/training_files.py
0.881328
0.343356
training_files.py
pypi
import logging from typing import Tuple import click from rxn.onmt_utils import __version__ as onmt_utils_version from rxn.onmt_utils.train_command import OnmtTrainCommand from rxn.utilities.logging import setup_console_and_file_logger from rxn.onmt_models import __version__ as onmt_models_version from rxn.onmt_model...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/scripts/rxn_onmt_train.py
0.693784
0.169337
rxn_onmt_train.py
pypi
import logging from typing import Optional, Tuple import click from rxn.onmt_utils import __version__ as onmt_utils_version from rxn.onmt_utils.model_introspection import ( get_model_dropout, get_model_seed, model_vocab_is_compatible, ) from rxn.onmt_utils.train_command import OnmtTrainCommand from rxn.uti...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/scripts/rxn_onmt_continue_training.py
0.737158
0.204362
rxn_onmt_continue_training.py
pypi
import logging from pathlib import Path import click from rxn.onmt_utils import __version__ as onmt_utils_version from rxn.reaction_preprocessing.config import ( CommonConfig, Config, DataConfig, FragmentBond, InitialDataFormat, PreprocessConfig, RxnImportConfig, SplitConfig, Standa...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/scripts/rxn_prepare_data.py
0.470007
0.153962
rxn_prepare_data.py
pypi
import logging import random from pathlib import Path from typing import List, Optional, Tuple import click from rxn.chemutils.tokenization import ensure_tokenized_file from rxn.onmt_utils import __version__ as onmt_utils_version from rxn.onmt_utils.train_command import preprocessed_id_names from rxn.utilities.files i...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/scripts/rxn_onmt_preprocess.py
0.829043
0.37711
rxn_onmt_preprocess.py
pypi
from typing import Iterator, List, Optional, Union import click from attr import define from rxn.onmt_utils.train_command import RxnCommand import rxn.onmt_models.defaults as defaults _CONTEXT_DATA_BATCH_SIZE = 8 class Parameter: """ Parameter to be queried to the user, if the command(s) are necessary. ...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/scripts/rxn_plan_training.py
0.885761
0.262286
rxn_plan_training.py
pypi
import logging import random from pathlib import Path from typing import Tuple import click from rxn.utilities.files import stable_shuffle from rxn.utilities.logging import setup_console_logger from rxn.onmt_models.augmentation import augment_translation_dataset from rxn.onmt_models.training_files import RxnPreproces...
/rxn-onmt-models-1.0.1.tar.gz/rxn-onmt-models-1.0.1/src/rxn/onmt_models/scripts/rxn_onmt_augment.py
0.761361
0.217639
rxn_onmt_augment.py
pypi
from argparse import Namespace from typing import Any, Dict, List import torch from onmt.inputters.text_dataset import TextMultiField from rxn.utilities.files import PathLike def get_model_vocab(model_path: PathLike) -> List[str]: """ Get the vocabulary from a model checkpoint. Args: model_path:...
/rxn-onmt-utils-1.0.3.tar.gz/rxn-onmt-utils-1.0.3/src/rxn/onmt_utils/model_introspection.py
0.958421
0.527256
model_introspection.py
pypi
import logging from typing import List import torch import torch.nn as nn from onmt.model_builder import build_model # type: ignore from onmt.utils.parse import ArgumentParser # type: ignore from rxn.utilities.files import PathLike from torch.nn.init import xavier_uniform_ logger = logging.getLogger(__name__) logge...
/rxn-onmt-utils-1.0.3.tar.gz/rxn-onmt-utils-1.0.3/src/rxn/onmt_utils/model_resize.py
0.926628
0.307631
model_resize.py
pypi
import logging import subprocess from typing import List, Optional from rxn.utilities.files import PathLike, iterate_lines_from_file from .translator import Translator logger = logging.getLogger(__name__) logger.addHandler(logging.NullHandler()) def translate( model: PathLike, src: PathLike, tgt: Optio...
/rxn-onmt-utils-1.0.3.tar.gz/rxn-onmt-utils-1.0.3/src/rxn/onmt_utils/translate.py
0.904564
0.407098
translate.py
pypi
from argparse import Namespace from typing import Any, Iterable, Iterator, List, Optional, Union from .internal_translation_utils import RawTranslator, TranslationResult, get_onmt_opt class Translator: """ Wraps the OpenNMT translation functionality into a class. """ def __init__(self, opt: Namespac...
/rxn-onmt-utils-1.0.3.tar.gz/rxn-onmt-utils-1.0.3/src/rxn/onmt_utils/translator.py
0.942692
0.381824
translator.py
pypi
"""Training on a single process.""" import os import torch from onmt.inputters.inputter import build_dataset_iter, \ load_old_vocab, old_style_vocab, build_dataset_iter_multiple from onmt.model_builder import build_model from onmt.utils.optimizers import Optimizer from onmt.utils.misc import set_random_seed from ...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/train_single.py
0.646906
0.3229
train_single.py
pypi
import torch import torch.nn as nn def context_gate_factory(gate_type, embeddings_size, decoder_size, attention_size, output_size): """Returns the correct ContextGate class""" gate_types = {'source': SourceContextGate, 'target': TargetContextGate, ...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/modules/gate.py
0.967039
0.58519
gate.py
pypi
import torch import torch.nn as nn import torch.nn.functional as F from onmt.modules.sparse_activations import sparsemax from onmt.utils.misc import aeq, sequence_mask # This class is mainly used by decoder.py for RNNs but also # by the CNN / transformer decoder when copy attention is used # CNN has its own attention...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/modules/global_attention.py
0.927831
0.698783
global_attention.py
pypi
import torch import torch.nn as nn from torch.autograd import Function from onmt.modules.sparse_activations import _threshold_and_support from onmt.utils.misc import aeq class SparsemaxLossFunction(Function): @staticmethod def forward(ctx, input, target): """ input (FloatTensor): ``(n, num_cl...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/modules/sparse_losses.py
0.962116
0.615637
sparse_losses.py
pypi
import torch import torch.nn as nn import torch.nn.functional as F from torch.nn import Parameter def get_var_maybe_avg(namespace, var_name, training, polyak_decay): """ utility for retrieving polyak averaged params Update average """ v = getattr(namespace, var_name) v_avg = getattr(namespace,...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/modules/weight_norm.py
0.900891
0.483283
weight_norm.py
pypi
import torch import torch.nn as nn import torch.nn.functional as F from onmt.utils.misc import aeq SCALE_WEIGHT = 0.5 ** 0.5 def seq_linear(linear, x): """ linear transform for 3-d tensor """ batch, hidden_size, length, _ = x.size() h = linear(torch.transpose(x, 1, 2).contiguous().view( batch * ...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/modules/conv_multi_step_attention.py
0.954616
0.692759
conv_multi_step_attention.py
pypi
import torch from torch.autograd import Function import torch.nn as nn def _make_ix_like(input, dim=0): d = input.size(dim) rho = torch.arange(1, d + 1, device=input.device, dtype=input.dtype) view = [1] * input.dim() view[0] = -1 return rho.view(view).transpose(0, dim) def _threshold_and_suppor...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/modules/sparse_activations.py
0.938752
0.645357
sparse_activations.py
pypi
"""Average Attention module.""" import torch import torch.nn as nn from onmt.modules.position_ffn import PositionwiseFeedForward class AverageAttention(nn.Module): """ Average Attention module from "Accelerating Neural Transformer via an Average Attention Network" :cite:`DBLP:journals/corr/abs-1805-...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/modules/average_attn.py
0.97151
0.671188
average_attn.py
pypi
from itertools import chain, starmap from collections import Counter import torch from torchtext.data import Dataset as TorchtextDataset from torchtext.data import Example from torchtext.vocab import Vocab def _join_dicts(*args): """ Args: dictionaries with disjoint keys. Returns: a sin...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/inputters/dataset_base.py
0.911557
0.564399
dataset_base.py
pypi
import os import torch from torchtext.data import Field from onmt.inputters.datareader_base import DataReaderBase # domain specific dependencies try: from PIL import Image from torchvision import transforms import cv2 except ImportError: Image, transforms, cv2 = None, None, None class ImageDataRea...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/inputters/image_dataset.py
0.898994
0.435841
image_dataset.py
pypi
import os import torch from torchtext.data import Field from onmt.inputters.datareader_base import DataReaderBase try: import numpy as np except ImportError: np = None class VecDataReader(DataReaderBase): """Read feature vector data from disk. Raises: onmt.inputters.datareader_base.MissingD...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/inputters/vec_dataset.py
0.911436
0.556641
vec_dataset.py
pypi
import os from tqdm import tqdm import torch from torchtext.data import Field from onmt.inputters.datareader_base import DataReaderBase # imports of datatype-specific dependencies try: import torchaudio import librosa import numpy as np except ImportError: torchaudio, librosa, np = None, None, None ...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/inputters/audio_dataset.py
0.827898
0.338214
audio_dataset.py
pypi
from functools import partial import six import torch from torchtext.data import Field, RawField from onmt.inputters.datareader_base import DataReaderBase class TextDataReader(DataReaderBase): def read(self, sequences, side, _dir=None): """Read text data from disk. Args: sequences (...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/inputters/text_dataset.py
0.918815
0.525369
text_dataset.py
pypi
import torch.nn as nn import torch.nn.functional as F from torch.nn.utils.rnn import pack_padded_sequence as pack from torch.nn.utils.rnn import pad_packed_sequence as unpack from onmt.encoders.encoder import EncoderBase from onmt.utils.rnn_factory import rnn_factory class RNNEncoder(EncoderBase): """ A generic...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/encoders/rnn_encoder.py
0.95469
0.521837
rnn_encoder.py
pypi
import torch.nn as nn from onmt.encoders.encoder import EncoderBase from onmt.modules import MultiHeadedAttention from onmt.modules.position_ffn import PositionwiseFeedForward from onmt.utils.misc import sequence_mask class TransformerEncoderLayer(nn.Module): """ A single layer of the transformer encoder. ...
/rxn_opennmt_py-1.1.4-py3-none-any.whl/onmt/encoders/transformer.py
0.956685
0.355188
transformer.py
pypi