text stringlengths 185 73.3k | repo stringlengths 7 100 | path stringlengths 4 146 | language stringclasses 7
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"""
API support for interacting with external drivers.
"""
from __future__ import annotations
from importlib import import_module
from importlib.util import module_from_spec, spec_from_file_location
from inspect import getfullargspec
from pathlib import Path
from traceback import format_exc
from typing import TYPE_CH... | ufs-community/uwtools | src/uwtools/api/execute.py | .py | 8086dc33be55b7d9 | 7.63 | 17 |
"""
API access to ``uwtools`` Rocoto support.
"""
from __future__ import annotations
from typing import TYPE_CHECKING
from uwtools.rocoto import DEFAULT_ITERATION_RATE
from uwtools.rocoto import iterate as _iterate
from uwtools.rocoto import realize as _realize
from uwtools.rocoto import validate_xml_file as _valida... | ufs-community/uwtools | src/uwtools/api/rocoto.py | .py | a82cb135dac02f8e | 7.63 | 17 |
"""
API access to ``uwtools`` templating logic.
"""
from __future__ import annotations
import os
from pathlib import Path
from typing import TYPE_CHECKING
from uwtools.config.atparse_to_jinja2 import convert as _convert_atparse_to_jinja2
from uwtools.config.jinja2 import render as _render
from uwtools.exceptions imp... | ufs-community/uwtools | src/uwtools/api/template.py | .py | 26556656a7c372ca | 7.63 | 17 |
"""
Convert atparse templates to Jinja2 templates.
"""
from __future__ import annotations
import re
from typing import TYPE_CHECKING
from uwtools.logging import log
from uwtools.utils.file import readable, writable
if TYPE_CHECKING:
from pathlib import Path
def convert(
input_file: Path | None = None, out... | ufs-community/uwtools | src/uwtools/config/atparse_to_jinja2.py | .py | 67cce9634c9ef95e | 7.63 | 17 |
from __future__ import annotations
import difflib
import re
from abc import ABC, abstractmethod
from collections import UserDict
from copy import deepcopy
from functools import reduce
from io import StringIO
from pathlib import Path
from typing import Any, cast
import yaml
from f90nml import Namelist # type: ignore[... | ufs-community/uwtools | src/uwtools/config/formats/base.py | .py | ea79f09d330b6ba6 | 7.63 | 17 |
"""Shared fixtures for owserver tests."""
import json
import os
import platform
import subprocess
import sys
import time
import urllib.request
from pathlib import Path
import pytest
PROJECT_DIR = Path(__file__).resolve().parent.parent
DEV_DIR = PROJECT_DIR / "dev"
TEMPLATE_PATH = PROJECT_DIR / "rootfs" / "etc" / "ow... | lrybak/hassio-owserver | tests/conftest.py | .py | ed3006bc3f25dd45 | 8.14 | 18 |
"""Integration tests — port of dev/test.sh."""
import re
import subprocess
import pytest
pytestmark = pytest.mark.integration
OWSERVER = "localhost:4304"
@pytest.fixture(scope="module")
def devices(compose_project):
"""Get the device list from owdir (shared across tests in this module)."""
from conftest i... | lrybak/hassio-owserver | tests/test_integration.py | .py | 432fa89955d6feb1 | 8.14 | 18 |
#!/usr/bin/env python3
# Copyright (c) 2022 Ghiggi Gionata
# goes_api is free software: you can redistribute it and/or modify it under the
# terms of the GNU General Public License as published by the Free Software
# Foundation, either version 3 of the License, or (at your option) any later
# version.
#
# goes_api is... | ghiggi/goes_api | goes_api/abi_area.py | .py | 3de1429f7195fef9 | 7.5 | 9 |
#!/usr/bin/env python3
# Copyright (c) 2022 Ghiggi Gionata
# goes_api is free software: you can redistribute it and/or modify it under the
# terms of the GNU General Public License as published by the Free Software
# Foundation, either version 3 of the License, or (at your option) any later
# version.
#
# goes_api is... | ghiggi/goes_api | goes_api/abi_utils.py | .py | 35a98c6f4c03f5a8 | 7.5 | 9 |
#!/usr/bin/env python3
# Copyright (c) 2022 Ghiggi Gionata
# goes_api is free software: you can redistribute it and/or modify it under the
# terms of the GNU General Public License as published by the Free Software
# Foundation, either version 3 of the License, or (at your option) any later
# version.
#
# goes_api is... | ghiggi/goes_api | goes_api/checks.py | .py | 14c56deaf5f1f959 | 7.5 | 9 |
#!/usr/bin/env python3
# Copyright (c) 2022 Ghiggi Gionata
# goes_api is free software: you can redistribute it and/or modify it under the
# terms of the GNU General Public License as published by the Free Software
# Foundation, either version 3 of the License, or (at your option) any later
# version.
#
# goes_api is... | ghiggi/goes_api | goes_api/explore.py | .py | cb36eac45539c939 | 7.5 | 9 |
#!/usr/bin/env python3
# Copyright (c) 2022 Ghiggi Gionata
# goes_api is free software: you can redistribute it and/or modify it under the
# terms of the GNU General Public License as published by the Free Software
# Foundation, either version 3 of the License, or (at your option) any later
# version.
#
# goes_api is... | ghiggi/goes_api | goes_api/filter.py | .py | 8d50b763408ad896 | 7.5 | 9 |
#!/usr/bin/env python3
# Copyright (c) 2022 Ghiggi Gionata
# goes_api is free software: you can redistribute it and/or modify it under the
# terms of the GNU General Public License as published by the Free Software
# Foundation, either version 3 of the License, or (at your option) any later
# version.
#
# goes_api is... | ghiggi/goes_api | goes_api/io.py | .py | 5fc0f058e47f7d7d | 7.5 | 9 |
#!/usr/bin/env python3
"""
Created on Thu Mar 16 17:44:17 2023
@author: ghiggi
"""
import datetime
from time import perf_counter
def print_elapsed_time(fn):
def inner(*args, **kwargs):
start_time = perf_counter()
results = fn(*args, **kwargs)
end_time = perf_counter()
execution_ti... | ghiggi/goes_api | goes_api/utils/timing.py | .py | bc52be7cedce17f2 | 7.5 | 9 |
"""Contains the implementation of the Date class."""
from __future__ import annotations
from enum import IntEnum
DEFAULT_DAY = 1
DEFAULT_MONTH = 1
DEFAULT_YEAR = 1900
DAYS_IN_FEBRUARY = 28
DAYS_IN_OTHER_MONTHS = 30
MAX_DAYS_IN_MONTH = 31
class Months(IntEnum):
"""Enum for months."""
JANUARY = 1
FEBRUA... | Diapolo10/5G00EV17-3001_unit-testing | src/unit_testing/date.py | .py | c288ae7dc5775104 | 7.92 | 6 |
"""Unit tests for the date.Date class."""
from collections.abc import Generator
import pytest
from unit_testing.date import (
DEFAULT_DAY,
DEFAULT_MONTH,
DEFAULT_YEAR,
Date,
Months,
week_later,
)
def test_date_default_attributes(default_date: Date) -> None:
"""Tests the default state of... | Diapolo10/5G00EV17-3001_unit-testing | tests/test_date.py | .py | a0f05f22f24cc30c | 7.92 | 6 |
# marimo source for the "Exporting a bayesflow model to ONNX for HSSM" tutorial.
#
# Regenerate the rendered docs notebook (with outputs) after editing:
# uv run marimo export ipynb notebooks/exporting_bayesflow_to_onnx.py \
# -o docs/tutorials/exporting_bayesflow_to_onnx.ipynb --include-outputs
#
# Edit interact... | lnccbrown/LANfactory | notebooks/exporting_bayesflow_to_onnx.py | .py | ba16b78ce4cbccef | 7.62 | 16 |
# marimo source for the "Exporting an sbi model to ONNX for HSSM" tutorial.
#
# Regenerate the rendered docs notebook (with outputs) after editing:
# uv run marimo export ipynb notebooks/exporting_sbi_to_onnx.py \
# -o docs/tutorials/exporting_sbi_to_onnx.ipynb --include-outputs
#
# Edit interactively with: uv r... | lnccbrown/LANfactory | notebooks/exporting_sbi_to_onnx.py | .py | 4f0662f26f93938d | 7.62 | 16 |
# import argparse
import logging
from pathlib import Path
import pickle
import yaml
import numpy as np
import lanfactory
logger = logging.getLogger(__name__)
# def non_negative_int(value):
# """Convert string value to non-negative integer.
# Args:
# value: String value to convert to integer.
# ... | lnccbrown/LANfactory | src/lanfactory/cli/utils.py | .py | c1784a9d7664d274 | 7.62 | 16 |
"""Model card utilities for HuggingFace Hub.
This module reads user-provided model_card.yaml files and generates
HuggingFace-compatible README.md files with proper frontmatter.
"""
import logging
import pickle
from dataclasses import dataclass, field
from pathlib import Path
from typing import Any
import yaml
from ... | lnccbrown/LANfactory | src/lanfactory/hf/model_card.py | .py | 9bc1755dd1070e12 | 7.62 | 16 |
"""Pure computation: RT grids, LAN/KDE likelihoods, and manifold data."""
from __future__ import annotations
import numpy as np
import pandas as pd
from numpy.typing import ArrayLike, NDArray
from ssms.basic_simulators.simulator import simulator
from ssms.support_utils.kde_class import LogKDE
from .config import Gri... | lnccbrown/LANfactory | src/lanfactory/network_inspectors/compute.py | .py | b75835669127acfe | 8.12 | 16 |
"""Config objects: model metadata and plotting/grid defaults."""
from __future__ import annotations
from collections.abc import Callable
from dataclasses import dataclass
from typing import Any
import numpy as np
from numpy.typing import NDArray
from ssms.config import ModelConfigBuilder
@dataclass
class ModelSpe... | lnccbrown/LANfactory | src/lanfactory/network_inspectors/config.py | .py | e247db0f19e852a5 | 8.12 | 16 |
"""Network loaders: build LAN predictors from the LANfactory torch backend."""
from __future__ import annotations
from collections.abc import Callable
import os
from os import PathLike
from typing import Any
import warnings
import numpy as np
from numpy.typing import NDArray
LoadTorchMLPInfer: Any
try:
from lan... | lnccbrown/LANfactory | src/lanfactory/network_inspectors/loaders.py | .py | 7917ddf51da826fa | 7.12 | 16 |
"""Export jaxtrain networks to ONNX. Can be run as a script.
Closes the gap that made jaxtrain a dead end for HSSM: the jax trainer saves
flax parameter bytes (``*_train_state.jax``) which nothing downstream could
convert — ``transform-onnx`` only reads torch state dicts, and HSSM consumes
ONNX exclusively.
The expor... | lnccbrown/LANfactory | src/lanfactory/onnx/jax_export.py | .py | ce6e4d3efe9a5c75 | 7.62 | 16 |
"""Export trained sbi estimators to ONNX for HSSM consumption.
The single public entry point is :func:`transform_sbi_to_onnx`, which wraps a
trained sbi density or ratio estimator and writes a single-trial ONNX graph
that HSSM's ``loglik_kind="approx_differentiable"`` path can load via
``jaxonnxruntime``.
This module... | lnccbrown/LANfactory | src/lanfactory/onnx/sbi.py | .py | 26965866659e0d23 | 7.62 | 16 |
"""This module contains the function to transform Torch/Jax models to ONNX format.
Can be run as a script.
"""
import pickle
import torch
import typer
from lanfactory.trainers.torch_mlp import TorchMLP
def transform_to_onnx(
network_config_file: str,
state_dict_file: str,
input_shape: int,
output_o... | lnccbrown/LANfactory | src/lanfactory/onnx/transform_onnx.py | .py | 27f0114332624fdf | 7.62 | 16 |
"""Utilities for MLflow tracking and lineage in LANfactory."""
import json
import logging
from pathlib import Path
logger = logging.getLogger(__name__)
def get_files_from_data_generation_experiment(
experiment_id: str, tracking_uri: str = "sqlite:///mlflow.db"
) -> dict:
"""Get all files generated across al... | lnccbrown/LANfactory | src/lanfactory/utils/mlflow_utils.py | .py | d9e149d0b7ed814b | 7.62 | 16 |
"""Shared helpers for the ONNX export tests."""
import onnx
def max_int64_abs(onnx_model: onnx.ModelProto) -> int:
"""Largest absolute value stored in any int64 tensor in the graph (0 if none)."""
tensors = list(onnx_model.graph.initializer)
for node in onnx_model.graph.node:
for attr in node.att... | lnccbrown/LANfactory | tests/_onnx_utils.py | .py | ab190bbacdaace34 | 7.12 | 16 |
import subprocess
from pathlib import Path
# AF-TODO: Add test for callable without config,
# but needs to be marked as slow and skipped in CI.
def test_jax_train_cli_smoke(tmp_path):
"""Smoke test: actually runs the CLI with real data."""
# Path to the training data directory
__dir__ = Path(__file__).par... | lnccbrown/LANfactory | tests/cli/test_cli_entry_points.py | .py | 9613207c0a52de25 | 7.12 | 16 |
"""CLI smoke tests for upload-hf and download-hf commands."""
import os
import re
import subprocess
import yaml
_ANSI_RE = re.compile(r"\x1b\[[\d;]*m")
_WIDE_ENV = {**os.environ, "COLUMNS": "200"}
def _strip_ansi(text: str) -> str:
return _ANSI_RE.sub("", text)
class TestUploadHfCliHelp:
"""Tests for upl... | lnccbrown/LANfactory | tests/cli/test_hf_cli.py | .py | 8468892d088dc2bf | 7.12 | 16 |
import logging
import multiprocessing
import os
import random
import time
import uuid
from copy import deepcopy
import jax
import lanfactory
import numpy as np
import pytest
import ssms
import torch
from .constants import (
TEST_GENERATOR_CONSTANTS,
TEST_NETWORK_CONSTANTS_CPN,
TEST_NETWORK_CONSTANTS_LAN,
... | lnccbrown/LANfactory | tests/conftest.py | .py | 77e591805ece25cb | 8.12 | 16 |
"""Test configuration constants."""
from dataclasses import dataclass, field
@dataclass
class ModelFolderConstantsJAX:
"""Model folder constants."""
LAN_MODEL_FOLDER: str = "tests/test_data/jax_models/lan"
CPN_MODEL_FOLDER: str = "tests/test_data/jax_models/cpn"
OPN_MODEL_FOLDER: str = "tests/test_d... | lnccbrown/LANfactory | tests/constants.py | .py | 0bdd2c53e4e4477b | 7.12 | 16 |
"""Tests for download.py module."""
from unittest.mock import patch
import pytest
from lanfactory.hf.download import (
DEFAULT_REPO_ID,
download_model,
)
try:
import huggingface_hub # noqa: F401
HAS_HF = True
except ImportError:
HAS_HF = False
requires_hf = pytest.mark.skipif(not HAS_HF, reas... | lnccbrown/LANfactory | tests/hf/test_download.py | .py | 6699916c8e611d4b | 7.12 | 16 |
"""Tests for model_card.py module."""
import pickle
import pytest
import yaml
from lanfactory.hf import DEFAULT_LICENSE
from lanfactory.hf.model_card import (
ModelCardConfig,
generate_readme,
load_model_card_yaml,
write_readme,
)
class TestModelCardConfig:
"""Tests for ModelCardConfig dataclas... | lnccbrown/LANfactory | tests/hf/test_model_card.py | .py | a97315bef8882d68 | 7.12 | 16 |
"""Tests for upload.py module."""
from unittest.mock import MagicMock, patch
import pytest
import yaml
from lanfactory.hf.upload import (
DEFAULT_INCLUDE_PATTERNS,
DEFAULT_REPO_ID,
_collect_files,
upload_model,
)
try:
import huggingface_hub # noqa: F401
HAS_HF = True
except ImportError:
... | lnccbrown/LANfactory | tests/hf/test_upload.py | .py | 57c705c41d800ae2 | 7.12 | 16 |
"""Tests for the executable single-trial ONNX contract."""
import numpy as np
import onnx
import pytest
from onnx import TensorProto, helper
from lanfactory.onnx import assert_single_trial_contract
def make_onnx(path, input_dims):
width = input_dims[-1] if isinstance(input_dims[-1], int) else 6
# MatMul dro... | lnccbrown/LANfactory | tests/onnx/test_contract.py | .py | 1337ed97d106240d | 8.12 | 16 |
"""Tests for the jax -> ONNX exporter (feat/jax-onnx-export).
The parity test is the load-bearing one: it guards the ecosystem's
single-trial ONNX contract against silent changes in jax2onnx (0.x, pinned
but moving) and in our own wrapper.
"""
import pickle
from pathlib import Path
import lanfactory
import numpy as ... | lnccbrown/LANfactory | tests/onnx/test_jax_export.py | .py | 36b0a774fdf6018d | 8.12 | 16 |
"""End-to-end pipeline: bayesflow training → ONNX export → HSSM MCMC.
Mirrors ``tests/test_sbi_hssm_integration.py`` so the bayesflow path gets the
same cross-repo coverage as the sbi path.
1. Train a tiny bayesflow ``ContinuousApproximator`` (NLE) on synthetic DDM
data via ssm-simulators.
2. Export via ``lanfacto... | lnccbrown/LANfactory | tests/test_bayesflow_hssm_integration.py | .py | 96bdfb9fc3bd09b0 | 8.12 | 16 |
"""Verify ``transform_bayesflow_to_onnx`` for the NLE (ContinuousApproximator)
path: tiny train, export, three-way numerical agreement, gradient agreement.
Mirrors ``tests/test_sbi_nle_export.py`` so the bayesflow exporter inherits the
same coverage shape as the sbi exporter. The fixture bakes in the v1
constraints (p... | lnccbrown/LANfactory | tests/test_bayesflow_nle_export.py | .py | b1a2e1e1287fef31 | 8.12 | 16 |
"""Verify ``transform_bayesflow_to_onnx`` for the NRE (RatioApproximator) path.
NRE convention (opposite of NLE): inference_variables=θ, inference_conditions=x.
The classifier logit IS log p(x|θ) - log p(x); HSSM only cares about the
θ-dependent part, so the constant log p(x) is irrelevant. No Jacobian
correction is n... | lnccbrown/LANfactory | tests/test_bayesflow_nre_export.py | .py | 1ebda76081381bd0 | 8.12 | 16 |
import os
import pandas as pd
from sklearn import preprocessing
from tensorflow.keras.preprocessing.image import ImageDataGenerator
# Define constants for directories and image parameters
BASE_TRAIN_DIR = "Text-Classification/train_image" # Directory for training images
BASE_TEST_DIR = "Text-Classification/tes... | back-kh/GPLC-Ancient-Glyph-Palm-Leaf-Classifications | preprocessing/data_preprocessing.py | .py | e8003d9b1319f5af | 7.52 | 10 |
from unittest.mock import patch
import pytest
@pytest.fixture(autouse=True)
def auto_enable_custom_integrations(enable_custom_integrations):
"""Enable custom integrations in all tests."""
return
# This fixture is used to prevent HomeAssistant from attempting to create and dismiss persistent
# notifications... | jeyrb/hass_mikrotik_sms | conftest.py | .py | a7b81c81809a47b2 | 8.02 | 10 |
import logging
from typing import Optional
from google.cloud import logging as gcp_logging
from src.utils import constants
class Logger(logging.Logger):
# used to avoid too much verbosity from third-party libraries
DEBUG = logging.DEBUG + 1
def __init__(self, name: str) -> None:
super().__init_... | hcholab/sfkit-website | src/utils/custom_logging.py | .py | 4206f06158241fec | 7.42 | 6 |
import googleapiclient.discovery as googleapi
from src.utils import constants, custom_logging
logger = custom_logging.setup_logging(__name__)
class GoogleCloudIAM:
"""
Class to handle interactions with the Google Cloud IAM API.
"""
def __init__(self) -> None:
self.service = googleapi.build(... | hcholab/sfkit-website | src/utils/google_cloud/google_cloud_iam.py | .py | d91d45f7dc46ab8d | 7.42 | 6 |
"""Utils and helpers."""
from __future__ import annotations
import re
from http.cookies import SimpleCookie
from typing import Any
REGEXP_COOKIE_EXPIRES = re.compile("(;\\s?expires=(.*)(;|$))", re.IGNORECASE)
def normalize_cookies(cookies: list[str]) -> SimpleCookie:
"""Normalize non RFC-compliant cookies."""
... | Drafteed/pybravia | pybravia/util.py | .py | 3187bf07a99a13b5 | 7.45 | 7 |
"""Pytest fixtures for pybravia tests."""
from __future__ import annotations
import json
from collections.abc import AsyncGenerator
from pathlib import Path
from typing import Any, cast
import pytest
from aiointercept import aiointercept
from pybravia import BraviaClient
TEST_HOST = "192.168.1.100"
TEST_MAC = "AA:... | Drafteed/pybravia | tests/conftest.py | .py | a174efc9cc097b83 | 7.95 | 7 |
"""Logic for slimproto clients to discover the server on the local network."""
from __future__ import annotations
import asyncio
from collections import OrderedDict
import logging
import socket
import struct
LOGGER = logging.getLogger(__name__)
async def start_discovery(
ip_address: str,
control_port: int,... | music-assistant/aioslimproto | aioslimproto/discovery.py | .py | 5883ab1bd23f7f01 | 7.59 | 14 |
"""
Manage the display of a SlimProto based player.
Provides support for rendering text using local truetype fonts.
Copyright 2010 Doug Winter
https://github.com/winjer/squeal/blob/master/src/squeal/player/display.py
"""
from __future__ import annotations
import asyncio
import os
import struct
from typing import TY... | music-assistant/aioslimproto | aioslimproto/display.py | .py | 895faacba396c072 | 7.59 | 14 |
"""Models used for the JSON-RPC API."""
from __future__ import annotations
from dataclasses import dataclass, field
from enum import Enum, IntEnum
from typing import Any, TypedDict
class EventType(Enum):
"""Enum with possible slim proto client events."""
PLAYER_UPDATED = "player_updated"
PLAYER_HEARTBE... | music-assistant/aioslimproto | aioslimproto/models.py | .py | b4b8cce5fc0def98 | 7.59 | 14 |
"""Server implementation holding (and discovering) the SLIMProto players."""
from __future__ import annotations
import asyncio
from collections.abc import Callable
import inspect
import logging
from types import TracebackType
from typing import TYPE_CHECKING, Any, Self
from .cli import SlimProtoCLI
from .client impo... | music-assistant/aioslimproto | aioslimproto/server.py | .py | b6779b8e36237388 | 7.59 | 14 |
"""Helpers and utils."""
from __future__ import annotations
import asyncio
import logging
import socket
from typing import Any
from urllib.parse import parse_qsl
from .const import FALLBACK_CODECS
def get_ip() -> str:
"""Get primary IP-address for this host."""
sock = socket.socket(socket.AF_INET, socket.S... | music-assistant/aioslimproto | aioslimproto/util.py | .py | 56e8347c5179558c | 7.59 | 14 |
"""
Manage the sound volume of a SlimProto based player.
Copyright 2010 Doug Winter
https://github.com/winjer/squeal/blob/master/src/squeal/player/volume.py
"""
from __future__ import annotations
from typing import ClassVar
class SlimProtoVolume:
"""Represents a sound volume. This is an awful lot more complex ... | music-assistant/aioslimproto | aioslimproto/volume.py | .py | 9f44163fe782fb96 | 7.59 | 14 |
"""Tests for the SlimProto CLI."""
import asyncio
from itertools import chain
import logging
from types import SimpleNamespace
from typing import cast
from unittest.mock import AsyncMock, Mock
from urllib.parse import quote
import pytest
from aioslimproto.cli import SlimProtoCLI
from aioslimproto.client import SlimC... | music-assistant/aioslimproto | tests/cli_test.py | .py | 2dc163bdafdec66f | 7.09 | 14 |
"""Render `pyrefly coverage report`'s JSON as a human-readable table.
Reads the JSON report from stdin (i.e. run as
``pyrefly coverage report src | python scripts/pyrefly_coverage_summary.py``) and
prints one row per module -- typable symbol count, how many are untyped, and the
resulting coverage percentage -- followe... | catalyst-cooperative/ferc-xbrl-extractor | scripts/pyrefly_coverage_summary.py | .py | 9a2931b87ab64fd8 | 7.63 | 17 |
"""Abstract away interface to Arelle XBRL Library."""
import time
from pathlib import Path
from typing import Any, BinaryIO, Literal, cast
import pydantic
import stringcase
from arelle import Cntlr, FileSource, ModelManager, ModelXbrl, XbrlConst
from arelle.ModelDtsObject import ModelConcept
from arelle.ModelObject i... | catalyst-cooperative/ferc-xbrl-extractor | src/ferc_xbrl_extractor/arelle_interface.py | .py | 6581c8b2e0d78481 | 7.63 | 17 |
"""A command line interface (CLI) to the xbrl extractor."""
import argparse
import io
import json
import logging
import sys
from itertools import chain
from pathlib import Path
import coloredlogs
import duckdb
import pandas as pd
from frictionless import Package
from sqlalchemy import create_engine
from sqlalchemy.en... | catalyst-cooperative/ferc-xbrl-extractor | src/ferc_xbrl_extractor/cli.py | .py | 9add40e0ffedad36 | 7.63 | 17 |
"""XBRL prototype structures."""
import io
from pathlib import Path
from typing import Any, BinaryIO, Literal
import pydantic
from arelle import XbrlConst
from arelle.ModelDtsObject import ModelConcept, ModelType
from pydantic import AnyHttpUrl, BaseModel
from ferc_xbrl_extractor.arelle_interface import (
Metada... | catalyst-cooperative/ferc-xbrl-extractor | src/ferc_xbrl_extractor/taxonomy.py | .py | 81f6bc7659d79f6d | 7.63 | 17 |
"""XBRL extractor."""
import io
import json
import math
import re
import warnings
from collections import defaultdict, namedtuple
from collections.abc import Iterable
from concurrent.futures import ProcessPoolExecutor as Executor
from functools import partial
from pathlib import Path
from typing import BinaryIO, Typed... | catalyst-cooperative/ferc-xbrl-extractor | src/ferc_xbrl_extractor/xbrl.py | .py | dfa16362c5f88cc5 | 7.63 | 17 |
"""PyTest configuration module. Defines useful fixtures, command line args."""
import logging
import tempfile
from io import BytesIO
from pathlib import Path
import pytest
logger = logging.getLogger(__name__)
def pytest_addoption(parser):
"""Add package-specific command line options to pytest.
This is sli... | catalyst-cooperative/ferc-xbrl-extractor | tests/conftest.py | .py | c55a05a49913995f | 7.13 | 17 |
"""Test the PUDL console scripts from within PyTest."""
from importlib.metadata import entry_points
import duckdb
import pandas as pd
import pytest
# Obtain a list of all deployed entry point scripts to test:
ENTRY_POINTS = [
ep.name
for ep in entry_points(group="console_scripts")
if ep.name.startswith("... | catalyst-cooperative/ferc-xbrl-extractor | tests/integration/console_scripts_test.py | .py | 961e30217e8503a3 | 8.13 | 17 |
from collections import namedtuple
from pathlib import Path
import pytest
from ferc_xbrl_extractor.xbrl import ExtractOutput, extract
Dataset = namedtuple("Dataset", ["form", "year"])
DATASETS = [Dataset(form=f, year=y) for f in {1, 2, 6, 60, 714} for y in {2021, 2022}]
@pytest.fixture(scope="session")
def metada... | catalyst-cooperative/ferc-xbrl-extractor | tests/integration/data_quality_test.py | .py | 7efc375164220941 | 7.13 | 17 |
"""Test datapackage descriptor from taxonomy."""
import datetime
import io
import zipfile
from pathlib import Path
from typing import BinaryIO, cast
import pandas as pd
import pytest
from frictionless import Package
from ferc_xbrl_extractor.datapackage import (
DURATION_COLUMNS,
INSTANT_COLUMNS,
Datapack... | catalyst-cooperative/ferc-xbrl-extractor | tests/integration/datapackage_test.py | .py | 3762bf331a9a723d | 8.13 | 17 |
"""Integration tests for ferc_xbrl_extractor.xbrl."""
import pytest
from ferc_xbrl_extractor.xbrl import get_fact_tables
def test_get_fact_tables_rejects_invalid_datapackage(data_dir, tmp_path, mocker):
"""get_fact_tables() raises a clear error if the generated datapackage is invalid.
Forces the failure by... | catalyst-cooperative/ferc-xbrl-extractor | tests/integration/xbrl_test.py | .py | d29821664982651b | 7.13 | 17 |
"""Test the internal Arelle interface helpers."""
import pytest
import ferc_xbrl_extractor.arelle_interface as arelle_interface
@pytest.mark.parametrize("max_retries", [0, -1])
def test_taxonomy_view_rejects_non_positive_max_retries(max_retries):
"""_taxonomy_view() rejects max_retries < 1 instead of looping ze... | catalyst-cooperative/ferc-xbrl-extractor | tests/unit/arelle_interface_test.py | .py | 6d2b09d04cf9248d | 8.13 | 17 |
"""Test the FERC XBRL extractor CLI helpers."""
import json
import pytest
from ferc_xbrl_extractor.cli import convert_and_validate_datapackage_sqlite_to_parquet
def test_convert_and_validate_datapackage_sqlite_to_parquet_rejects_invalid(
tmp_path, mocker
):
"""Raises a clear error if the rewritten datapack... | catalyst-cooperative/ferc-xbrl-extractor | tests/unit/cli_test.py | .py | 46ed9119cbaf5d17 | 7.13 | 17 |
"""Test XBRL instance interface."""
import datetime
import io
import json
import logging
import zipfile
from collections import Counter
import pytest
from lxml import etree # nosec: B410
from ferc_xbrl_extractor.instance import (
Axis,
Context,
DimensionType,
Entity,
Fact,
Instance,
Inst... | catalyst-cooperative/ferc-xbrl-extractor | tests/unit/instance_test.py | .py | 4ef559d87b6d67f9 | 8.13 | 17 |
"""Test XBRL taxonomy interface."""
import pytest
from ferc_xbrl_extractor.taxonomy import Concept, LinkRole
@pytest.mark.parametrize(
"from_list,bad_list,exception_type,match",
[
(
Concept.from_list,
["not_concept", {}, {}],
ValueError,
"First element... | catalyst-cooperative/ferc-xbrl-extractor | tests/unit/taxonomy_test.py | .py | d1cb448499c7f66e | 7.13 | 17 |
import io
import zipfile
import pandas as pd
import pytest
from lxml.etree import XMLSyntaxError # nosec: B410
from ferc_xbrl_extractor.xbrl import get_fact_tables, process_batch, process_instance
def test_get_fact_tables_rejects_undated_taxonomy_filename():
"""get_fact_tables() raises a clear error if a taxon... | catalyst-cooperative/ferc-xbrl-extractor | tests/unit/xbrl_test.py | .py | a23485884774b1ad | 8.13 | 17 |
import os
import subprocess
import numpy as np
from pyzdcf import pyzdcf
from pypetal.utils.petalio import print_error
def run_plike(dcf_fname, lag_bounds, plike_dir, verbose=False):
"""
Runs the PLIKE algorithm to compute the maximum likelihood peak of the ZDCF.
Must have PLIKE (https://ui.adsabs.harva... | Zstone19/pypetal | src/pypetal/pyzdcf/utils.py | .py | bcbd3f810ecf2477 | 7.62 | 16 |
import glob
import os
import shutil
import unittest
import numpy as np
import pypetal.pipeline as pl
class TestWeighting(unittest.TestCase):
def setUp(self):
main_dir = 'examples/dat/javelin_'
filenames = [main_dir + 'continuum.dat', main_dir + 'yelm.dat', main_dir + 'zing.dat']
outpu... | Zstone19/pypetal | tests/detrend_test.py | .py | 06494daa00f074f9 | 7.12 | 16 |
from __future__ import annotations
import json
import re
from typing import TYPE_CHECKING
from django import template
if TYPE_CHECKING:
from admin_data_views.typing import Any, DictItems, ItemsView, NestedDict, SectionData
register = template.Library()
LINK_TEMPLATE = re.compile(r'<a href=".*">(?P<value>.*)</a... | MrThearMan/django-admin-data-views | admin_data_views/templatetags/admin_data_utils.py | .py | 8a2ca9254fb0d1ae | 7.5 | 9 |
"""Utility functions for checking types and values. Inspired from MNE."""
from __future__ import annotations
import logging
import operator
import os
from pathlib import Path
from typing import TYPE_CHECKING
import numpy as np
if TYPE_CHECKING:
from typing import Any
def ensure_int(item: Any, item_name: str |... | mscheltienne/template-python | src/template/utils/_checks.py | .py | 32ebc2dc31b09b3e | 7.5 | 9 |
"""Temporary bug-fixes awaiting an upstream fix."""
from __future__ import annotations
import sys
from typing import TYPE_CHECKING
if TYPE_CHECKING:
from typing import Any
# https://github.com/sphinx-gallery/sphinx-gallery/issues/1112
class WrapStdOut:
"""Dynamically wrap to sys.stdout.
This makes pac... | mscheltienne/template-python | src/template/utils/_fixes.py | .py | 46fa3989641fb722 | 7.5 | 9 |
from __future__ import annotations
import platform
import sys
import tomllib
from functools import lru_cache, partial
from importlib.metadata import PackageNotFoundError, metadata, requires, version
from importlib.util import find_spec
from pathlib import Path
from typing import TYPE_CHECKING
import psutil
from packa... | mscheltienne/template-python | src/template/utils/config.py | .py | abf26680c004c3c1 | 7.5 | 9 |
from __future__ import annotations
import inspect
import logging
from functools import wraps
from importlib import import_module
from pathlib import Path
from typing import TYPE_CHECKING
from warnings import warn_explicit
from template.utils._checks import ensure_verbose
from template.utils._fixes import WrapStdOut
... | mscheltienne/template-python | src/template/utils/logs.py | .py | 483618010a5d3b79 | 7.5 | 9 |
from __future__ import annotations
import logging
from pathlib import Path
import numpy as np
import pytest
from template.utils._checks import (
check_type,
check_value,
ensure_int,
ensure_path,
ensure_verbose,
)
def test_ensure_int() -> None:
"""Test ensure_int checker."""
# valids
... | mscheltienne/template-python | tests/utils/test_checks.py | .py | 3c206b747e1516c9 | 8 | 9 |
from __future__ import annotations
from io import StringIO
import pytest
from template.utils.config import _get_gpu_info, sys_info
def test_sys_info() -> None:
"""Test info-showing utility."""
out = StringIO()
sys_info(fid=out)
value = out.getvalue()
out.close()
assert "Platform:" in value
... | mscheltienne/template-python | tests/utils/test_config.py | .py | 78925df623e6fa2c | 8 | 9 |
from __future__ import annotations
import pytest
from template.utils._docs import copy_doc
from template.utils.logs import verbose
def test_copy_doc_function() -> None:
"""Test decorator to copy docstring on functions."""
# test copy of docstring
def foo(x, y) -> None:
"""My doc."""
@copy_... | mscheltienne/template-python | tests/utils/test_docs.py | .py | 66c29d65df7b57f8 | 7 | 9 |
from __future__ import annotations
import pytest
from template.utils._imports import import_optional_dependency
def test_import_optional_dependency() -> None:
"""Test the import of optional dependencies."""
# Test import of present package
numpy = import_optional_dependency("numpy")
assert isinstanc... | mscheltienne/template-python | tests/utils/test_imports.py | .py | 1ead2c61eed14094 | 7 | 9 |
# Note: initially copied from https://github.com/florimondmanca/httpx-sse/blob/master/src/httpx_sse/_decoders.py
from __future__ import annotations
import json
import inspect
from types import TracebackType
from typing import TYPE_CHECKING, Any, Generic, TypeVar, Iterator, Optional, AsyncIterator, cast
from typing_ext... | Increase/increase-python | src/increase/_streaming.py | .py | 14c2e06d6f1c6966 | 7.54 | 11 |
from __future__ import annotations
from os import PathLike
from typing import (
IO,
TYPE_CHECKING,
Any,
Dict,
List,
Type,
Tuple,
Union,
Mapping,
TypeVar,
Callable,
Iterable,
Iterator,
Optional,
Sequence,
AsyncIterable,
)
from typing_extensions import (
... | Increase/increase-python | src/increase/_types.py | .py | 7e283f58004cbf35 | 7.54 | 11 |
from __future__ import annotations
from typing import Any
from typing_extensions import override
from ._proxy import LazyProxy
class ResourcesProxy(LazyProxy[Any]):
"""A proxy for the `increase.resources` module.
This is used so that we can lazily import `increase.resources` only when
needed *and* so t... | Increase/increase-python | src/increase/_utils/_resources_proxy.py | .py | 22cf42d4a19405c9 | 7.54 | 11 |
""" Provides functions for iterating over several simulations to compute statistical power and more. """
# Python modules
import multiprocessing as mp
import numpy as np
import signal
import time
import traceback
# Bioverse modules and constants
from . import util
# Prevents a crash due to matplotlib when multiproce... | danielapai/bioverse | bioverse/analysis.py | .py | 09855dbe15dcf553 | 7.48 | 8 |
""" Contains class definitions. """
# System modules
from copy import deepcopy
import numpy as np
import pickle
import time
# Bioverse modules and constants
from .constants import DATA_DIR, OBJECTS_DIR
from .constants import STR_TYPES, INT_TYPES
from .constants import CONST
# Imports pandas.DataFrame if installed
tr... | danielapai/bioverse | bioverse/classes.py | .py | 7643be9c079097c2 | 7.48 | 8 |
""" This module defines the Generator class and demonstrates how to create new Generators. """
# System imports
from copy import deepcopy
import inspect
import numpy as np
import traceback
from warnings import warn
# Bioverse modules
from .classes import Object, Table, Stopwatch
from .constants import ROOT_DIR
from .... | danielapai/bioverse | bioverse/generator.py | .py | 1cec35af0bc6bd52 | 7.48 | 8 |
""" This module reproduces scipy.stats.truncnorm as of SciPy v1.3.3. More recent versions of truncnorm are orders of magnitude slower
as documented here and elsewhere: https://github.com/scipy/scipy/issues/12370.
"""
import numpy as np
from scipy.stats._continuous_distns import rv_continuous, _norm_cdf, _norm_sf, _nor... | danielapai/bioverse | bioverse/truncnorm_hack.py | .py | a8227f85b99f2159 | 7.48 | 8 |
#!/usr/bin/env python3
"""
Ensure every notebook under docs/pre_executed has metadata:
"nbsphinx": {"execute": "never"}
This script is safe to run as a pre-commit hook. It will modify notebooks in-place
and print modified file paths. It raises exceptions on hard errors (instead of
return codes). If any notebook has an... | snad-space/coniferest | .ci/pre_executed_nb.py | .py | 33f20502fd09bcad | 7.63 | 17 |
from numbers import Real
from typing import Callable
import clarabel
import numpy as np
from scipy import sparse
from ._core import calc_paths_sum # noqa
from .coniferest import Coniferest, ConiferestEvaluator
from .label import Label
__all__ = ["AADForest"]
class AADEvaluator(ConiferestEvaluator):
def __init... | snad-space/coniferest | src/coniferest/aadforest.py | .py | 144d79849791fc47 | 7.63 | 17 |
from abc import ABC, abstractmethod
from warnings import warn
import numpy as np
from ._core import Tree, build_trees # noqa
from .evaluator import ForestEvaluator
__all__ = ["Coniferest", "ConiferestEvaluator", "Tree"]
class Coniferest(ABC):
"""
Base class for the forests in the package. It settles the b... | snad-space/coniferest | src/coniferest/coniferest.py | .py | 0518cad295c5ab31 | 7.63 | 17 |
import math
import numpy as np
from scipy.sparse import csr_array
from ._core import Tree, calc_apply, calc_feature_delta_sum, calc_paths_sum # noqa
from .utils import average_path_length
__all__ = ["ForestEvaluator"]
class ForestEvaluator:
def __init__(self, samples, trees, *, num_threads, sampletrees_per_ba... | snad-space/coniferest | src/coniferest/evaluator.py | .py | cf2f69a24d5fd89a | 7.63 | 17 |
from .coniferest import Coniferest, ConiferestEvaluator
__all__ = ["IsolationForest"]
class IsolationForest(Coniferest):
"""
Isolation forest.
This is a reimplementation of sklearn.ensemble.IsolationForest,
which trains and evaluates much faster. It also supports multi-threading
for evaluation (... | snad-space/coniferest | src/coniferest/isoforest.py | .py | 9f2e2c7c43a9e5b3 | 7.63 | 17 |
import numpy as np
from .coniferest import Coniferest, ConiferestEvaluator
from .evaluator import ForestEvaluator
from .label import Label
__all__ = ["PineForest"]
class PineForest(Coniferest):
"""
Pine Forest for active anomaly detection.
Pine Forests are filtering isolation forests. That's a simple c... | snad-space/coniferest | src/coniferest/pineforest.py | .py | 645879759fa31a1b | 7.63 | 17 |
import webbrowser
from pathlib import Path
import click
from coniferest.datasets import Label
from coniferest.onnx.convert import save_onnx_model, to_onnx
class _LabelChoice(click.Choice):
"""Label choice class for click
Accepts (case-insensitive):
* -1 / a / anomaly / yes
* 1 / r / regular... | snad-space/coniferest | src/coniferest/session/callback.py | .py | 85a3b6a17e51f435 | 7.63 | 17 |
from typing import Callable, Optional
import numpy as np
from coniferest.coniferest import Coniferest
from coniferest.label import Label
from coniferest.session import Session
from coniferest.session.callback import TerminateAfter, TerminateAfterNAnomalies
class OracleSession(Session):
"""Automated session to r... | snad-space/coniferest | src/coniferest/session/oracle.py | .py | 3bea4714e0288882 | 7.63 | 17 |
from typing import List
import numpy as np
import pytest
from numpy.testing import assert_equal
from coniferest.coniferest import Coniferest, Tree
class ConiferestImpl(Coniferest):
def fit(self, data, labels=None):
super().fit(data, labels)
def fit_known(self, data, known_data=None, known_labels=No... | snad-space/coniferest | tests/test_coniferest.py | .py | d3cf9aad2aa71f87 | 8.13 | 17 |
import numpy as np
import pytest
from coniferest.aadforest import AADForest
from coniferest.datasets import non_anomalous_outliers, ztf_m31
from coniferest.label import Label
from coniferest.pineforest import PineForest
from coniferest.session import Session
from coniferest.session.callback import TerminateAfterNAnoma... | snad-space/coniferest | tests/test_session.py | .py | 3eabb877aeed2184 | 8.13 | 17 |
import jax
import jax.numpy as jnp
import jax.scipy.fft
import flt.generic
@jax.jit
def dct2dlt(b):
"""JAX implementation of dct2dlt"""
def first(x, j):
"""compute initial row of L matrix"""
even = j % 2 == 0
y = jax.lax.select(even, x * (1 - 4 / (j + 3)), x)
y = jax.lax.sele... | ntessore/flt | src/flt/jax.py | .py | 5efae05772c747d4 | 7.48 | 8 |
import webBackend.models as models
import logging
import sys
sys.path.append("..")
log = logging.getLogger(__name__)
def songIdUpdater(user: str):
"""
Song ID Updater Helper Function
Parameters:
user (str): User to Scan
Returns:
list: List of Changed Song IDs
"""
history = ... | ArthurVardevanyan/Analytics-for-Spotify | monitoringBackend/scripts.py | .py | e641b73f45765c73 | 7.45 | 7 |
import os
import sys
import django
import logging
import requests
import time
# Add project root to Python path
project_root = os.path.abspath(os.path.join(os.path.dirname(__file__), '..', '..'))
sys.path.insert(0, project_root)
os.environ.setdefault("DJANGO_SETTINGS_MODULE", "AnalyticsForSpotify.settings")
django.se... | ArthurVardevanyan/Analytics-for-Spotify | monitoringBackend/scripts/link_artists.py | .py | fa07c9ab749b1df8 | 7.45 | 7 |
import os
import base64
import urllib.parse
import json
import tarfile
import django
os.environ.setdefault("DJANGO_SETTINGS_MODULE", "AnalyticsForSpotify.settings")
django.setup() # https://stackoverflow.com/a/74238820
def extractNode():
"""
Extracts Node Modules, only used when running outside of a contain... | ArthurVardevanyan/Analytics-for-Spotify | setup.py | .py | 2ec5b65d9ccdcaa5 | 7.45 | 7 |
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