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"""Tests for GEDCOM citation handling."""
import pytest
from gedcom7 import const as g7const
from gedcom7 import types as g7types
from gramps.gen.db import DbWriteBase
from gramps.gen.lib import Citation, Person, Source
from util import import_to_memory
def test_citation_even_without_role():
"""Test that EVEN t... | DavidMStraub/gramps-gedcom7 | test/test_citation.py | .py | b4edad906ef74e08 | 7 | 9 |
"""Test import of contact fields (PHON, EMAIL, FAX, WWW)."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps.gen.lib import EventType, UrlType
from gramps_gedcom7.importer import import_gedcom
def test_contact_fields_repository():
"""Test import of PHON, FAX, EMAIL... | DavidMStraub/gramps-gedcom7 | test/test_contact_fields.py | .py | d361790189fe33c9 | 8 | 9 |
"""Test import of DATE PHRASE structures."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps.gen.lib import EventType
from gramps_gedcom7.importer import import_gedcom
def test_date_phrase_on_birth():
"""Test import of PHRASE substructure on birth event DATE."""
... | DavidMStraub/gramps-gedcom7 | test/test_date_phrase.py | .py | 73fc34967b2b7a9d | 8 | 9 |
"""Test TIME substructure import."""
import os
# Set language BEFORE importing anything else
os.environ['LANGUAGE'] = 'en'
import pytest
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps.gen.lib import EventType
from gramps_gedcom7.importer import import_gedcom
def tes... | DavidMStraub/gramps-gedcom7 | test/test_date_time.py | .py | 17c442030400b651 | 7 | 9 |
"""Test import of event attributes (AGNC, RELI, CAUS)."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps.gen.lib import AttributeType, EventType
from gramps_gedcom7.importer import import_gedcom
def test_birth_event_attributes():
"""Test import of AGNC, RELI, CAUS... | DavidMStraub/gramps-gedcom7 | test/test_event_attributes.py | .py | 5dc7280ae35d68fc | 7 | 9 |
"""Test import of external IDs (EXID and REFN)."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps.gen.lib import AttributeType, EventType
from gramps_gedcom7.importer import import_gedcom
def test_individual_external_ids():
"""Test import of EXID and REFN for indi... | DavidMStraub/gramps-gedcom7 | test/test_external_ids.py | .py | aa18ddf6b716c49e | 7 | 9 |
"""Tests for GEDCOM family record handling."""
import pytest
from gedcom7 import const as g7const
from gedcom7 import types as g7types
from gramps.gen.db import DbWriteBase
from gramps.gen.lib import ChildRef, Family, Person
from util import import_to_memory
GRAMPS_ID = "F1"
def get_family(
children_structure... | DavidMStraub/gramps-gedcom7 | test/test_family.py | .py | 28114be035083d5e | 7 | 9 |
"""Test handling of PHRASE on family relationship structures (HUSB, WIFE, CHIL)."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps_gedcom7.importer import import_gedcom
def test_husb_phrase():
"""Test that HUSB PHRASE is imported as a note on the family."""
db... | DavidMStraub/gramps-gedcom7 | test/test_family_phrase.py | .py | 383b4f274787a5ec | 7 | 9 |
"""Test the GEDCOM to XML conversion."""
import gzip
import os
import tempfile
import pytest
from click.testing import CliRunner
from gramps_gedcom7.gedcom2xml import main
@pytest.fixture
def gedcom_file():
"""Return the path to a test GEDCOM file."""
return os.path.join(os.path.dirname(__file__), "data", ... | DavidMStraub/gramps-gedcom7 | test/test_gedcom2xml.py | .py | dd8a16595cf55954 | 8 | 9 |
"""Tests for GEDCOM individual record handling."""
import pytest
from gedcom7 import const as g7const
from gedcom7 import types as g7types
from gramps.gen.db import DbWriteBase
from gramps.gen.lib import (
Citation,
Event,
EventType,
Media,
NameType,
Note,
Person,
Source,
)
from util i... | DavidMStraub/gramps-gedcom7 | test/test_individual.py | .py | 22d34b34c452d0f3 | 8 | 9 |
"""Test media reference TITL handling."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps_gedcom7.importer import import_gedcom
def test_media_ref_title():
"""Test that OBJE.TITL is stored as an attribute on the media reference."""
gedcom_file = "test/data/medi... | DavidMStraub/gramps-gedcom7 | test/test_media_ref_title.py | .py | 66faff9d72a69372 | 7 | 9 |
"""Test that notes get appropriate NoteType based on object type."""
import tempfile
import os
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps.gen.lib import NoteType
from gramps_gedcom7.importer import import_gedcom
def test_family_note_type():
"""Test that HUSB/W... | DavidMStraub/gramps-gedcom7 | test/test_note_types.py | .py | 19602805f9ca2adf | 7 | 9 |
"""Test place deduplication."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps_gedcom7.importer import import_gedcom
def test_places_are_deduplicated():
"""Test that two events with the same place share a single Place object.
Two people with birth events... | DavidMStraub/gramps-gedcom7 | test/test_place_deduplication.py | .py | 2e885f59ddd2a2a1 | 8 | 9 |
"""Test place hierarchy implementation."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps.gen.lib import PlaceType
from gramps_gedcom7.importer import import_gedcom
def test_place_hierarchy_created():
"""Test that a place with multiple jurisdictions creates a hie... | DavidMStraub/gramps-gedcom7 | test/test_place_hierarchy.py | .py | d5948915ae9d7c7a | 7 | 9 |
"""Test that place properties follow first-event-wins policy for deduplicated places."""
from gramps.gen.db.utils import make_database
from gramps_gedcom7.importer import import_gedcom
def test_place_properties_first_event_wins():
"""Test that when two events have same place with different properties, first win... | DavidMStraub/gramps-gedcom7 | test/test_place_properties.py | .py | 4e69ac45733b54d1 | 7 | 9 |
"""Test handling of PHRASE on relationship structures."""
import os
import pytest
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps_gedcom7.importer import import_gedcom
@pytest.fixture(autouse=True)
def set_locale():
"""Set locale to English for consistent event t... | DavidMStraub/gramps-gedcom7 | test/test_relationship_phrase.py | .py | f2664b618c344f44 | 7 | 9 |
"""Test import of repository addresses."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps_gedcom7.importer import import_gedcom
def test_repository_full_address():
"""Test import of full ADDRESS_STRUCTURE for repositories."""
gedcom_file = "test/data/repositor... | DavidMStraub/gramps-gedcom7 | test/test_repository_address.py | .py | 9ca845c32be261f0 | 8 | 9 |
"""Test MEDI PHRASE handling in SOURCE_REPOSITORY_CITATION."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps.gen.lib import SourceMediaType
from gramps_gedcom7.importer import import_gedcom
def test_medi_with_phrase():
"""Test that MEDI with PHRASE uses the phra... | DavidMStraub/gramps-gedcom7 | test/test_source_medi_phrase.py | .py | 7b777452786544aa | 8 | 9 |
"""Test GEDCOM submitter handling."""
from gramps.gen.db import DbWriteBase
from gramps.gen.db.utils import make_database
from gramps.gen.lib import UrlType
from gramps_gedcom7.importer import import_gedcom
def test_submitter_to_researcher():
"""Test that HEAD.SUBM becomes the database Researcher."""
gedcom_... | DavidMStraub/gramps-gedcom7 | test/test_submitter.py | .py | c24b4d71f2acd8b4 | 8 | 9 |
from gedcom7 import types as g7types
from gramps.gen.lib import Date
from gramps_gedcom7.util import gedcom_date_value_to_gramps_date
def test_gedcom_date_value_to_gramps_date_date():
"""Test conversion of a valid GEDCOM date to a Gramps date."""
date_value = g7types.Date(year=2023, month="OCT", day=15, cale... | DavidMStraub/gramps-gedcom7 | test/test_util.py | .py | de35d6524c029489 | 7 | 9 |
# GPU LANGEVIN THERMOSTAT, NO ASE ROUND TRIP
#
# Demonstrates torchanipbe0.md.Langevin driving ANIPBE0_2x directly through
# tensors that stay on the GPU for the whole run. Checks that the kinetic
# temperature relaxes toward and then fluctuates around the requested bath
# temperature.
import torch
from torchanipbe0 ... | RowleyGroup/MLXDM | tests/langevin_gpu.py | .py | ce9c72d802d3009c | 7 | 9 |
# GPU LANGEVIN THERMOSTAT ON A LARGE LENNARD-JONES CLUSTER
#
# Stress-tests torchanipbe0.md.Langevin on a system much bigger than a single
# molecule: a several-hundred-atom Lennard-Jones (argon-like) cluster, using
# a minimal LJ "potential" that implements the same
# ``model((species, coordinates), cell=cell, pbc=pbc... | RowleyGroup/MLXDM | tests/langevin_lj_cluster.py | .py | 7ebe969d79546f80 | 8 | 9 |
# GPU LANGEVIN THERMOSTAT WITH THE REAL ANIPBE0_2x + MLXDM_2x POTENTIAL
#
# Runs torchanipbe0.md.Langevin against the actual combined short-range +
# dispersion neural-network potential (not a toy LJ model), on a cluster of
# water molecules, entirely through tensors kept on the GPU. Confirms the
# integrator works end... | RowleyGroup/MLXDM | tests/langevin_mlxdm_water_cluster.py | .py | 571f46e7f6f7384f | 7 | 9 |
# GPU GEOMETRY OPTIMIZATION AND NVE MOLECULAR DYNAMICS, NO ASE ROUND TRIP
#
# Demonstrates torchanipbe0.md.optimize_geometry and torchanipbe0.md.VelocityVerlet
# driving ANIPBE0_2x and ANIPBE0_2x + MLXDM_2x directly through tensors that stay
# on the GPU for the whole run (species/coordinates/masses/velocities/timestep... | RowleyGroup/MLXDM | tests/md_gpu.py | .py | 7376b078d9a26480 | 7 | 9 |
# CHECK THE RUNTIME OF EXISTED MODELS
# Author: Tu Nguyen Thien Phuc
# Last update: 2021-09-30
import numpy as np
import time
import torchanipbe0
from torchanipbe0 import models
import torch
import numpy as np
import ase
from ase import io
from ase.md.verlet import VelocityVerlet
from ase.lattice.hexagonal impor... | RowleyGroup/MLXDM | tests/runtime.py | .py | d835180b927ea310 | 7 | 9 |
# The neural network dispersion utilities
# Author: Tu Nguyen Thien Phuc
# Last update: 2021-09-30
import torch
import numpy as np
from typing import NamedTuple
from torch import Tensor
BOHR_TO_ANSTROM = 0.529177249
class CAtomic(NamedTuple):
atoms: Tensor
coefficients: Tensor
def cutoff_function(distance, ... | RowleyGroup/MLXDM | torchanipbe0/dispersion/utils.py | .py | 0f03c7545b4795e9 | 7.5 | 9 |
import torch
from collections import OrderedDict
from torch import Tensor
from torch.utils.weak import WeakTensorKeyDictionary
from typing import Tuple, NamedTuple, Optional
from . import utils
class SpeciesEnergies(NamedTuple):
species: Tensor
energies: Tensor
class SpeciesCoordinates(NamedTuple):
spec... | RowleyGroup/MLXDM | torchanipbe0/nn.py | .py | 6f0582a9404fdedf | 7.5 | 9 |
r"""Unit conversion factors used in torchani
The torchani networks themselves works internally entirely in Hartrees
(energy), Angstroms (distance) and AMU (mass). In some example code and scripts
we convert to other more commonly used units. Our conversion factors are
consistent with `CODATA 2014 recommendations`_, wh... | RowleyGroup/MLXDM | torchanipbe0/units.py | .py | 1de8618c43a5b400 | 7.5 | 9 |
"""
Fuente de abreviaciones:
https://www.ieec.org.mx/transparencia/doctos/art74/i/reglamentos/Reglamento_de_elecciones/anexo_7.pdf
"""
import pandas as pd
import plotly.graph_objects as go
from textwrap import wrap
# La fecha en la que los datos fueron recopilados.
FECHA_FUENTE = "enero 2026"
ENTID... | lapanquecita/incidencia-delictiva | top10.py | .py | 3dd3636d502829cb | 7.52 | 10 |
"""Config flow for WeatherAPI integration."""
import voluptuous as vol
from homeassistant.config_entries import ConfigEntry, ConfigFlow, OptionsFlow
from homeassistant.const import CONF_API_KEY, CONF_LATITUDE, CONF_LONGITUDE, CONF_NAME
from homeassistant.core import HomeAssistant, callback
from homeassistant.data_ent... | iprak/weatherapi | custom_components/weatherapi/config_flow.py | .py | bed0aaaf99141d2a | 7.48 | 8 |
"""The WeatherAPI data coordinator."""
import asyncio
from dataclasses import dataclass
from datetime import datetime, timedelta
from http import HTTPStatus
from typing import Any
import aiohttp
from aiohttp import ClientSession
import requests
from homeassistant.components.air_quality import (
ATTR_CO,
ATTR... | iprak/weatherapi | custom_components/weatherapi/coordinator.py | .py | fb97a2c2e7882dfa | 7.48 | 8 |
"""Support for WeatherAPI integration."""
from collections.abc import Mapping
from typing import Any
from homeassistant.components.weather import (
ATTR_WEATHER_HUMIDITY,
ATTR_WEATHER_OZONE,
ATTR_WEATHER_PRESSURE,
ATTR_WEATHER_TEMPERATURE,
ATTR_WEATHER_VISIBILITY,
ATTR_WEATHER_WIND_BEARING,
... | iprak/weatherapi | custom_components/weatherapi/weather.py | .py | c4f0c67bae6d9e55 | 7.48 | 8 |
"""Fixtures for testing."""
from datetime import timedelta
import json
import os
import pytest
from pytest_homeassistant_custom_component.common import MockConfigEntry
from custom_components.weatherapi import coordinator
from custom_components.weatherapi.const import DOMAIN, UPDATE_INTERVAL_MINUTES
from custom_compo... | iprak/weatherapi | tests/conftest.py | .py | d16dfef320d08e86 | 7.98 | 8 |
from __future__ import annotations
from importlib.metadata import entry_points
from typing import TYPE_CHECKING
if TYPE_CHECKING: # pragma: no cover
from collections.abc import Callable
from pyvisgen import __version__
from pyvisgen.utils.logging import setup_logger
LOGGER = setup_logger(__name__)
class Mana... | radionets-project/pyvisgen | src/pyvisgen/_plugin_manager.py | .py | 3e369a1f9c6136cd | 7.45 | 7 |
import sysconfig
from dataclasses import dataclass, fields
from pathlib import Path
import pandas as pd
import torch
from astropy.coordinates import EarthLocation
from pyvisgen.utils.logging import setup_logger
LOGGER = setup_logger(namespace=__name__)
__all__ = ["Stations", "get_array_layout", "get_array_names"]
... | radionets-project/pyvisgen | src/pyvisgen/layouts/layouts.py | .py | 2c1bac3e365dda19 | 7.45 | 7 |
import torch
from astropy.utils.decorators import lazyproperty
__all__ = ["Array"]
class Array:
"""Class that handles antenna array operations such
as calculating antenna pairs for baselines.
Parameters
----------
array_layout : :class:`~pyvisgen.layouts.Stations`
:class:`~pyvisgen.layou... | radionets-project/pyvisgen | src/pyvisgen/simulation/array.py | .py | acbb81311c537220 | 7.45 | 7 |
import sysconfig
import tomllib
import warnings
from functools import cache
from pathlib import Path
import torch
def _noise_config_dir() -> Path:
root = sysconfig.get_path("data", sysconfig.get_default_scheme())
return Path(root) / "share" / "resources" / "noise_configs"
def available_telescopes() -> list... | radionets-project/pyvisgen | src/pyvisgen/simulation/noise.py | .py | a38641be4418d686 | 7.45 | 7 |
from __future__ import annotations
import gc
import torch
OOM_EXCEPTIONS = (torch.cuda.OutOfMemoryError, torch.OutOfMemoryError)
MIN_BATCH_SIZE = 1
def _cuda_gc():
"""Garbage collector for CUDA."""
gc.collect()
if torch.cuda.is_available(): # pragma: no cover
torch.cuda.empty_cache()
def _r... | radionets-project/pyvisgen | src/pyvisgen/utils/batch_size.py | .py | 6938888ce468111e | 7.45 | 7 |
from __future__ import annotations
from pathlib import Path
from typing import TYPE_CHECKING
import h5py
import numpy as np
from natsort import natsorted
if TYPE_CHECKING:
from typing import String, Union
__all__ = ["load_bundles", "open_bundles"]
def load_bundles(
data_path: Union(String, Path), dataset_... | radionets-project/pyvisgen | src/pyvisgen/utils/data.py | .py | f96272cdcd326745 | 7.45 | 7 |
import pytest
import torch
from pyvisgen.simulation.observation import ValidBaselineSubset
from pyvisgen.simulation.scan import (
RIMEScan,
angular_distance,
calc_beam,
calc_feed_rotation,
calc_fourier,
integrate,
jinc,
)
try:
import cufinufft # noqa: F401
_FINUFFT_AVAIL = True
... | radionets-project/pyvisgen | tests/simulation/test_scan.py | .py | ea33a15cf1361856 | 7.95 | 7 |
#!/usr/bin/env python3
"""
Script to update ZE_API_VERSION_CURRENT value in a new dump file to match the old dump file.
This ensures ABI compatibility by reverting the version to the previous value.
"""
import re
import sys
import argparse
def get_ze_api_version_current_value(dump_file_path):
"""Extract the ZE_A... | oneapi-src/level-zero-spec | scripts/update_ze_api_version.py | .py | dab9442f44a8693e | 7.65 | 19 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | src/braket_container.py | .py | 9224af6095d4b47b | 7.63 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | src/buildspec.py | .py | 4efb19173876f033 | 8.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | src/context.py | .py | 2a2b55fe59b1f0a4 | 7.63 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | src/image.py | .py | c5d55265ca4cfdeb | 7.63 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | src/image_builder.py | .py | 36cc230a38b3724d | 7.63 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | src/metrics.py | .py | 80d692dbddb2d94a | 7.63 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | src/output.py | .py | 776fa09782b5464e | 7.63 | 17 |
import argparse
import json
import boto3
from botocore.exceptions import ClientError
def tag_image():
parser = argparse.ArgumentParser(description="Program to tag built images")
parser.add_argument("--build", type=str, required=True)
parser.add_argument("--tag", type=str, required=True)
args = parser.... | amazon-braket/amazon-braket-containers | src/tag_image.py | .py | d69d244ac727d6f3 | 7.63 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | src/utils.py | .py | acf79d9947e52f68 | 7.63 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/braket_tests/base/test_mpi.py | .py | 4f7ec44640075424 | 8.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/braket_tests/common/braket_jobs_util.py | .py | c012ed13ba5f4933 | 7.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/braket_tests/common/image_run_util.py | .py | 6cb3f54e64bc1dcc | 8.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/braket_tests/common/mpi_checks.py | .py | de338bdd18ab3974 | 8.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/braket_tests/cudaq/test_mpi.py | .py | 6b5a076c5a90b883 | 8.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/braket_tests/pytorch/test_mpi.py | .py | b65a80f3079335c6 | 8.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/conftest.py | .py | 7bc5c451a9f69c86 | 7.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/perform_additional_setup.py | .py | e00ec8b640b4ec46 | 8.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/resources/qaoa_entry_point.py | .py | 13a8228d0de9f17b | 7.13 | 17 |
# Copyright Amazon.com, Inc. or its affiliates. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License"). You
# may not use this file except in compliance with the License. A copy of
# the License is located at
#
# http://aws.amazon.com/apache2.0/
#
# or in the "license" file accompan... | amazon-braket/amazon-braket-containers | test/sagemaker_tests/test_basics.py | .py | c7fb4ed11572d13f | 7.13 | 17 |
"""
Use the elevator music as a context
"""
from typing import Callable, Union
from script_background_music.play import play_random_music_in_background, PlayThread
class BackgroundMusicContext(object):
"""
Run background music in a given context
<b>WARNING: Not verified to work on macOS! Should work the... | timo-reymann/python-script-background-music | script_background_music/context.py | .py | d86217f729f8dbff | 7.62 | 16 |
"""
Infrastructure to facilitate playing songs
"""
import logging
from multiprocessing import Process
from typing import Union
import psutil
from script_background_music.songs import get_random_song
from script_background_music.vendor.playsound import get_play_sound
class PlayThread(Process):
"""
Thread to be... | timo-reymann/python-script-background-music | script_background_music/play.py | .py | e2fd68dfac2e8c85 | 7.62 | 16 |
"""
Songs to play
"""
from random import choice
from pathlib import Path
SONGS = [
"local-forecast",
"lofi",
"overcast"
]
def __get_song(name: str) -> Path:
base_directory = Path(__file__).parent
return base_directory / f"{name}.mp3"
def get_random_song() -> Path:
"""
Pick random song f... | timo-reymann/python-script-background-music | script_background_music/songs/__init__.py | .py | 00d5e5ed6d11c42c | 7.12 | 16 |
import os
import os.path as op
import warnings
from importlib import resources
import yaml
from jinja2 import Environment, PackageLoader, StrictUndefined
from babs.generate_bidsapp_runscript import generate_bidsapp_runscript
from babs.generate_submit_script import generate_submit_script, generate_test_submit_script
f... | PennLINC/babs | babs/container.py | .py | 871d032cf6599d58 | 7.57 | 13 |
"""Create scripts for a BABS project"""
import os.path as op
import warnings
from jinja2 import Environment, PackageLoader, StrictUndefined
from babs.utils import (
RUNNING_PYTEST,
container_image_path,
replace_placeholder_from_config,
var_safe_name,
)
def generate_bidsapp_runscript(
input_data... | PennLINC/babs | babs/generate_bidsapp_runscript.py | .py | 0781daf668a42229 | 7.57 | 13 |
"""Create participant_job.sh"""
import warnings
from importlib import resources
import yaml
from jinja2 import Environment, PackageLoader, StrictUndefined
from babs.utils import container_image_path, var_safe_name
# Multiple scheduler system handling
DIRECTIVE_PREFIX = {
'sge': '#$',
'slurm': '#SBATCH',
}
... | PennLINC/babs | babs/generate_submit_script.py | .py | c5a19cd71e0da4de | 7.57 | 13 |
"""This module is for input dataset(s)."""
import os
import re
import warnings
import zipfile
from collections import defaultdict
from glob import glob
import datalad.api as dlapi
import pandas as pd
class InputDataset:
"""Represent an input dataset."""
_is_input_dataset = True
def __init__(
s... | PennLINC/babs | babs/input_dataset.py | .py | 7284163626012253 | 7.57 | 13 |
"""This module is for input dataset(s)."""
from babs.input_dataset import InputDataset, OutputDataset
from babs.utils import combine_inclusion_dataframes, validate_sub_ses_processing_inclusion
class InputDatasets:
"""Represent a collection of input datasets."""
def __init__(self, processing_level, datasets)... | PennLINC/babs | babs/input_datasets.py | .py | 21dddd95c51f8242 | 7.57 | 13 |
"""This is the main module."""
import json
import os.path as op
import sys
import time
import datalad.api as dlapi
import numpy as np
from babs.base import BABS
from babs.scheduler import (
report_job_status,
submit_array,
)
from babs.status import job_status_counts
from babs.utils import (
update_submit... | PennLINC/babs | babs/interaction.py | .py | 2ce239018c437da4 | 7.57 | 13 |
import math
import os
import os.path as op
import re
import shutil
import stat
import subprocess
import time
import warnings
import datalad.api as dlapi
from babs.base import BABS
from babs.utils import get_git_show_ref_shasum
def robust_rm_dir(path, max_retries=3, retry_delay=1):
"""
Robustly remove a dire... | PennLINC/babs | babs/merge.py | .py | 80cc024d341e75b7 | 7.57 | 13 |
import os.path as op
import re
import subprocess
from io import StringIO
import pandas as pd
import yaml
from babs.status import job_status_counts
from babs.utils import get_username, scheduler_status_columns, status_dtypes
def run_squeue(queue, job_id: int) -> str:
"""Run squeue and return raw pipe-delimited o... | PennLINC/babs | babs/scheduler.py | .py | 4fa77008c7ccd8d7 | 7.57 | 13 |
import os.path as op
import yaml
def validate_queue(queue):
"""
To validate if the type of the cluster system is valid.
For valid ones, the type string will be changed to lower case.
If not valid, raise error message.
"""
list_supported = ['slurm']
if queue.lower() in list_supported:
... | PennLINC/babs | babs/system.py | .py | c45bc4ad98c3ccf0 | 7.57 | 13 |
# This python script will be copied to `analysis/code/check_setup` folder
# and will be used during `babs check-setup`
import argparse
import os
import os.path as op
import subprocess
import sys
def cli():
parser = argparse.ArgumentParser()
parser.add_argument(
'--path-workspace',
'--path_wor... | PennLINC/babs | babs/template_test_job.py | .py | 29c6692af2a30890 | 7.07 | 13 |
"""This is the main module."""
import os.path as op
import datalad.api as dlapi
import pandas as pd
from babs.base import BABS
from babs.status import (
JobStatus,
SchedulerState,
read_job_status_csv,
write_job_status_csv,
)
EMPTY_JOB_STATUS_DF = pd.DataFrame(
columns=['sub_id', 'ses_id', 'task_... | PennLINC/babs | babs/update.py | .py | c71c419cdb52ea95 | 7.57 | 13 |
"""Test the babs workflow."""
import argparse
import json
import os
import os.path as op
import subprocess
import time
from glob import glob
from pathlib import Path
from unittest import mock
import pandas as pd
import pytest
from conftest import (
gather_slurm_job_diagnostics,
get_config_simbids_path,
up... | PennLINC/babs | tests/test_babs_workflow.py | .py | 4979fe83228c610c | 8.07 | 13 |
"""Test the check_setup functionality."""
import grp
import os
import os.path as op
import random
import re
import stat
import subprocess
from pathlib import Path
from unittest.mock import MagicMock, patch
import pandas as pd
import pytest
import yaml
from conftest import get_config_simbids_path, update_yaml_for_run
... | PennLINC/babs | tests/test_base.py | .py | e85ad59d30eb6959 | 7.07 | 13 |
"""Test the check_setup functionality."""
import os
import os.path as op
import shutil
import datalad.api as dlapi
import pytest
from babs import BABSCheckSetup
from babs.constants import CHECK_MARK
def add_commit_to_ria(ria_path, temp_path):
"""Add and commit a file to the repository."""
# Clone the datas... | PennLINC/babs | tests/test_check_setup.py | .py | 2251817619f52f68 | 8.07 | 13 |
"""Tests for BABS command-line entry points."""
from importlib.metadata import distribution
def test_console_script_entry_points_load():
"""Ensure every installed BABS console script resolves to a callable."""
console_scripts = [
entry_point
for entry_point in distribution('babs').entry_point... | PennLINC/babs | tests/test_cli.py | .py | 81b0278da1136f7d | 7.07 | 13 |
import subprocess
from pathlib import Path
import pytest
from jinja2 import Environment, PackageLoader, StrictUndefined
from babs.generate_submit_script import generate_submit_script
from babs.utils import (
read_yaml,
var_safe_name,
)
input_datasets_prep = [
{
'name': 'bids',
'path_in_ba... | PennLINC/babs | tests/test_generate_submit_script.py | .py | 145a48668d6d1160 | 8.07 | 13 |
import datalad.api as dlapi
import pytest
from babs.input_dataset import InputDataset, OutputDataset
from babs.input_datasets import InputDatasets
def _bids(**overrides):
kwargs = {
'name': 'BIDS',
'origin_url': '/does/not/matter',
'path_in_babs': 'inputs/data/BIDS',
'is_zipped': ... | PennLINC/babs | tests/test_input_datasets.py | .py | 95564817ecbdf85c | 7.07 | 13 |
"""Test merge.py error handling and edge cases."""
import os
import shutil
import stat
import subprocess
from unittest.mock import MagicMock, patch
import datalad.api as dlapi
import pytest
from babs.merge import BABSMerge, robust_rm_dir
from babs.utils import get_git_show_ref_shasum
def test_merge_no_branches(bab... | PennLINC/babs | tests/test_merge.py | .py | 7dd726895118137d | 7.07 | 13 |
"""Tests for Slurm-related functionality in BABS.
This module contains tests for Slurm job submission and monitoring functionality.
Tests are skipped if Slurm commands (squeue, sbatch) are not available on the system.
"""
from pathlib import Path
from unittest import mock
import pandas as pd
import pytest
from babs... | PennLINC/babs | tests/test_slurm.py | .py | f6af92af5150651d | 8.07 | 13 |
from importlib import resources
import pytest
import yaml
from babs.system import System
def test_system_initialization():
"""Test that System initializes with a valid type"""
system = System('slurm')
assert system.type == 'slurm'
assert isinstance(system.dict, dict)
def test_system_get_dict():
... | PennLINC/babs | tests/test_system.py | .py | 5f4b624bc2fe7f94 | 8.07 | 13 |
"""Test the template_test_job.py functionality."""
import os
import shutil
import subprocess
import sys
import tempfile
from pathlib import Path
def test_template_job_execution():
"""Test that template_test_job.py can be copied and executed successfully."""
# Get the path to the template file
template_pa... | PennLINC/babs | tests/test_template_job.py | .py | 859e98897db2fe00 | 7.07 | 13 |
"""Test the check_setup functionality."""
from pathlib import Path
from babs import BABSCheckSetup, BABSUpdate
def test_sync_code(babs_project_sessionlevel):
"""Test that missing config parts raise an error."""
babs_proj = BABSUpdate(babs_project_sessionlevel)
# Edit a file in analysis/code/
(Path... | PennLINC/babs | tests/test_update.py | .py | 0be5c7640a5f9a08 | 7.07 | 13 |
"""Test the babs workflow."""
import os
import os.path as op
import shutil
import time
from pathlib import Path
import datalad.api as dl
import pytest
from conftest import (
gather_slurm_job_diagnostics,
get_config_simbids_path,
update_yaml_for_run,
)
from babs.cli import (
babs_check_setup_main,
... | PennLINC/babs | tests/test_update_input_data.py | .py | c06a51a0d81db93b | 8.07 | 13 |
import getpass
import io
import subprocess
from pathlib import Path
from unittest.mock import MagicMock, patch
import datalad.api as dlapi
import pandas as pd
import pytest
import yaml
from babs.utils import (
app_output_settings_from_config,
combine_inclusion_dataframes,
container_image_path,
get_git... | PennLINC/babs | tests/test_utils.py | .py | 62ada730b541ab02 | 7.07 | 13 |
#!/usr/bin/env python3
import argparse
import os
import shutil
import tempfile
from pathlib import Path
import toml
ORIGINAL_PACKAGE_NAME = "python_template"
PYPROJECT_TOML = "pyproject.toml"
PYPROJECT_TOML_PATH = Path(PYPROJECT_TOML)
PROJECT_DIR_NAME = PYPROJECT_TOML_PATH.resolve().parent.name
parser = argparse.Ar... | CiscoDevNet/essentials | archive/python_template/python_scripts/pyproject_toml.py | .py | dc37403114c6e574 | 7.45 | 7 |
"""Fetch and merge messages from email and Webex into AS2 activities."""
from __future__ import annotations
from activitystreams2 import Create
from ..normalize import normalize_email, normalize_webex, sort_key
class MessageAggregator:
"""Aggregates messages from Outlook and Webex clients."""
def __init__... | CiscoDevNet/essentials | examples/python/ess-messages/src/ess_messages/aggregator/aggregator.py | .py | e4be670b08a6fc54 | 7.45 | 7 |
"""Click CLI for the unified messages inbox."""
from __future__ import annotations
import json
import logging
import click
from ess_outlook.graph import GraphClient
from ess_webex.auth import get_access_token
from ess_webex.client import WebexClient
from .aggregator import MessageAggregator
from .normalize import a... | CiscoDevNet/essentials | examples/python/ess-messages/src/ess_messages/cli.py | .py | ef79a3a7f30dd24a | 7.45 | 7 |
"""Normalize email and Webex messages to Activity Streams 2.0."""
from __future__ import annotations
import json
from datetime import datetime, timezone
from activitystreams2 import Create, Note, Person
def _ensure_datetime(value: object) -> datetime:
"""Coerce a value to a timezone-aware datetime."""
if i... | CiscoDevNet/essentials | examples/python/ess-messages/src/ess_messages/normalize.py | .py | 90b12f65a4bf235f | 7.45 | 7 |
#!/usr/bin/env python3
""" This entry knows how to manipulate Python's module path to jump the queue.
"""
import sys
def use(abs_packages_dirs):
"""Make an entry that contains an installed pip package the preferred location to import the package from.
Usage examples :
axs byname numpy_1.16.4_pi... | krai/axs | core_collection/essentials_collection/base_pip_package/code_axs.py | .py | 25594b107dce1646 | 7.42 | 6 |
import os
def parent_list_from_names(newborn_parent_names, protected=True):
protected_parent_list = [ "AS^IS" ] if protected else []
for parent_name in newborn_parent_names:
protected_parent_list.append( [ "^", "byname", parent_name ] )
return protected_parent_list
def path_to_list(path_or_lis... | krai/axs | core_collection/essentials_collection/entry_creator/code_axs.py | .py | 3fee177c9c383c74 | 7.42 | 6 |
#!/usr/bin/env python3
""" This entry knows how to extract files from a given archive.
"""
import logging
import os
def detect_archive_format(archive_path):
if archive_path.lower().endswith('.tar'):
archive_format = 'tar'
elif archive_path.lower().endswith( ('.tgz','.tar.gz') ):
archive_forma... | krai/axs | core_collection/essentials_collection/extractor/code_axs.py | .py | 113ac2a03b2d391c | 7.42 | 6 |
#!/usr/bin/env python3
""" This entry knows how to install pip packages into generated entries.
Usage examples :
# install a given pip package:
axs byname pip , install numpy
# install a specific version of the given pip package:
axs byname pip , install numpy 1.16.4
# check ava... | krai/axs | core_collection/essentials_collection/pip/code_axs.py | .py | 81eebcc107512818 | 7.42 | 6 |
#!/usr/bin/env python3
""" This entry knows how to run an arbitrary shell command in a given environment
and optionally capture the output.
"""
import logging
import os
import subprocess
import sys
def subst_run(template, __entry__=None, **rest):
"""Substitute data into a given template and run the resultin... | krai/axs | core_collection/essentials_collection/shell/code_axs.py | .py | 38fd16f27e9ddb08 | 7.42 | 6 |
#!/usr/bin/env python3
""" This entry knows how to detect and set up shell tools
Usage examples :
# show the detected tool's name:
axs byquery shell_tool,can_download_url , get tool_name
# show the detected tool's path:
axs byquery shell_tool,can_download_url , get tool_path
# sh... | krai/axs | core_collection/essentials_collection/tool_detector/code_axs.py | .py | c40c695cb233715a | 7.42 | 6 |
"""An example for "remote" axs execution in docker:
Make sure docker daemon is running on your host.
Build the image (make sure you don't have an outdated axs kernel in docker's build cache!) :
axs byquery shell_tool,can_docker , run --cmd_key=build --docker_image=axs_kernel
To run a pipeline in that docker imag... | krai/axs | core_collection/remotes_collection/entries_from_docker/code_axs.py | .py | 814f1a766b785d88 | 7.42 | 6 |
"""Submit multiple axs queries into SLURM queue and wait on their completion.
NB: needs cython Python package installed and pyslurm Python package COMPILED using this cython before running this code.
Usage examples :
# see this cookbook:
axs byname slurm , help
... | krai/axs | core_collection/remotes_collection/slurm/code_axs.py | .py | 275b89be82a2d001 | 7.42 | 6 |
#!/usr/bin/env python3
"""Example "axs-native" code that can automatically import its documented dependencies before execution.
Usage examples:
# without any dependency modifications:
axs byname numpy_import_test , deps_versions
axs byname numpy_import_test , multiply 1 2 3 4 5 6
... | krai/axs | core_collection/varia_collection/numpy_import_test/code_axs.py | .py | a87f248cb51d7816 | 7.92 | 6 |
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