ascl_id stringclasses 752
values | repo_url stringclasses 737
values | file_path stringlengths 4 194 | content large_stringlengths 1 1M | language stringclasses 29
values | license_type stringclasses 24
values | size int64 1 1M |
|---|---|---|---|---|---|---|
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/__main__.py | if __name__ == '__main__':
print('You have installed the resonances package. Check please the documentation!')
| Python | MIT | 115 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/logger.py | import logging
from pathlib import Path
import resonances.config
def static_init(cls):
if getattr(cls, "static_init", None):
cls.static_init()
return cls
@static_init
class logger: # pragma: no cover
@classmethod
def static_init(cls):
log_file_path = resonances.config.get('LOG_FILE'... | Python | MIT | 1,397 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/body.py | import numpy as np
from resonances.resonance import Resonance, MMR, SecularResonance
from .logger import logger
from typing import List, Union
class Body:
def __init__(self, type='particle'):
self.type = type
self.initial_data = None
self.name = ''
self.mass = 0.0
# Inte... | Python | MIT | 6,406 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/matrix/matrix.py | import resonances
import pandas as pd
from pathlib import Path
import os
class Matrix:
catalog_file = ''
matrix = None
planets = None
@classmethod
def dump(cls):
if cls.matrix is None:
cls.build()
cls.matrix.to_csv(cls.catalog_full_filename())
@classmethod
de... | Python | MIT | 1,104 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/matrix/secular_resonances.py | """
Secular resonance definitions and helper functions.
This module contains the comprehensive list of secular resonance formulas
from the literature and helper functions for working with them.
"""
from typing import Dict
from resonances.config import config
# Complete list of secular resonance formulas from the li... | Python | MIT | 5,365 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/matrix/secular_matrix.py | from typing import List, Optional, Union
from resonances.matrix.secular_resonances import SECULAR_RESONANCES
from resonances.resonance.factory import create_secular_resonance
from resonances.resonance.secular import SecularResonance, GeneralSecularResonance
class SecularMatrix:
"""
A class for building and ma... | Python | MIT | 3,087 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/matrix/two_body_matrix.py | import numpy as np
import pandas as pd
import resonances
from resonances.matrix.matrix import Matrix
class TwoBodyMatrix(Matrix):
catalog_file = 'MATRIX_2BODY_FILE'
@classmethod
def build(cls):
primary_max = int(resonances.config.get('MATRIX_2BODY_PRIMARY_MAX'))
m_max = int(resonances.co... | Python | MIT | 1,966 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/matrix/three_body_matrix.py | from typing import List
import numpy as np
import pandas as pd
import itertools
import resonances
from resonances.matrix.matrix import Matrix
class ThreeBodyMatrix(Matrix):
catalog_file = 'MATRIX_3BODY_FILE'
@classmethod
def build(cls):
primary_max = int(resonances.config.get('MATRIX_3BODY_PRIM... | Python | MIT | 2,386 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/simulation/__init__.py | from .config import SimulationConfig
from .body_manager import BodyManager
from .integration import IntegrationEngine
from .data_manager import DataManager
from .simulation import Simulation
__all__ = ['SimulationConfig', 'BodyManager', 'IntegrationEngine', 'DataManager', 'Simulation']
| Python | MIT | 288 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/simulation/body_manager.py | from typing import List, Union
import resonances
import astdys
import resonances.horizons
from .config import SimulationConfig
class BodyManager:
"""Manages addition and setup of celestial bodies."""
def __init__(self, config: SimulationConfig):
self.config = config
self.bodies: List[resonan... | Python | MIT | 3,119 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/simulation/data_manager.py | import pandas as pd
from pathlib import Path
import resonances
from .config import SimulationConfig
class DataManager:
"""Manages data saving and export functionality."""
def __init__(self, config: SimulationConfig):
self.config = config
def should_save_body(self, body: resonances.Body, resonan... | Python | MIT | 11,033 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/simulation/config.py | import datetime
import numpy as np
import resonances
import astdys
import resonances.data.util
from resonances.config import config as c
class SimulationConfig:
"""Handles simulation configuration and setup parameters."""
def __init__(self, **kwargs):
"""Initialize simulation configuration."""
... | Python | MIT | 4,758 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/simulation/simulation.py | import numpy as np
from typing import List, Union
import resonances
from .config import SimulationConfig
from .body_manager import BodyManager
from .integration import IntegrationEngine
from .data_manager import DataManager
class Simulation:
"""
Main Simulation class with component-based architecture.
T... | Python | MIT | 2,405 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/simulation/integration.py | import os
from pathlib import Path
from typing import List
import tqdm
import rebound
import resonances
from resonances.config import config as c
from .config import SimulationConfig
class IntegrationEngine:
"""Handles the actual numerical integration logic."""
def __init__(self, config: SimulationConfig):
... | Python | MIT | 3,694 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/resonance/libration.py | import numpy as np
from scipy import signal
from astropy.timeseries import LombScargle
import resonances.config
class libration:
@classmethod
def shift(cls, angle, distance=0):
tmp = np.array(angle, copy=True)
for i, elem in enumerate(tmp):
if elem > np.pi:
tmp[i] ... | Python | MIT | 19,813 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/resonance/plot.py | import matplotlib.pyplot as plt
import numpy as np
import math
from pathlib import Path
import resonances.config
import resonances
def body(sim, body: resonances.Body, resonance, image_type='png'): # noqa: C901
plt.style.use('default')
fig, axs = plt.subplots(7, 1, figsize=(10, 12))
resonance_key = re... | Python | MIT | 7,021 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/resonance/two_body.py | import numpy as np
import re
from resonances.resonance.mmr import MMR
from resonances.data import const
import rebound
class TwoBody(MMR):
def __init__(self, coeff, planets_names=None):
if isinstance(coeff, str):
coeff, planets_names = self.init_from_short_notation(coeff)
super().__in... | Python | MIT | 2,386 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/resonance/secular.py | import rebound
from resonances.resonance.resonance import Resonance
class SecularResonance(Resonance):
"""
Base class for secular resonances.
Secular resonances occur when the precession frequency of an asteroid's
orbital elements (perihelion or node) matches the precession frequency
of a planet'... | Python | MIT | 14,901 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/resonance/factory.py | import re
from typing import Union
from resonances.resonance.mmr import MMR
from resonances.resonance.resonance import Resonance
from resonances.resonance.secular import Nu16Resonance, Nu5Resonance, Nu6Resonance, SecularResonance, GeneralSecularResonance
from resonances.resonance.three_body import ThreeBody
from reson... | Python | MIT | 7,448 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/resonance/mmr.py | import numpy as np
from resonances.resonance.resonance import Resonance
class MMR(Resonance):
def __init__(self, coeff, planets_names=None, index_of_planets=None):
self.coeff = np.array(coeff)
if self.coeff[0] <= 0:
raise Exception("The primary coefficient of the resonance should be g... | Python | MIT | 2,248 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/resonance/__init__.py | from .mmr import MMR
from .secular import SecularResonance, GeneralSecularResonance, Nu6Resonance, Nu5Resonance, Nu16Resonance
from .resonance import Resonance
from .three_body import ThreeBody
from .two_body import TwoBody
from .factory import create_secular_resonance, detect_resonance_type, create_resonance
| Python | MIT | 311 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/resonance/three_body.py | import numpy as np
import re
from resonances.resonance.mmr import MMR
import resonances.data.util as util
from resonances.data import const
import rebound
class ThreeBody(MMR):
def __init__(self, coeff, planets_names=None):
if isinstance(coeff, str):
coeff, planets_names = self.init_from_short... | Python | MIT | 6,488 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/resonance/resonance.py | from abc import ABC, abstractmethod
class Resonance(ABC):
@property
@abstractmethod
def type(self) -> str:
pass
@abstractmethod
def to_s(self):
pass
@abstractmethod
def to_short(self):
pass
| Python | MIT | 246 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/finder/__init__.py | # Universal finder interface
from .finder import check, find, find_asteroids_in_mmr, find_mmrs
# Direct access to specific finders
from . import mmr_finder
from . import secular_finder
__all__ = ['check', 'find', 'find_asteroids_in_mmr', 'find_mmrs', 'mmr_finder', 'secular_finder']
| Python | MIT | 285 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/finder/mmr_finder.py | import resonances
import astdys
from typing import Union, List
from datetime import datetime
from resonances.data.util import convert_input_to_list
import resonances.horizons
def find(
asteroids: Union[int, str, List[Union[int, str]]],
planets=None,
name: str = None,
sigma2: float = 0.1,
sigma3: ... | Python | MIT | 4,998 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/finder/secular_finder.py | import resonances
import numpy as np
from typing import Union, List
from resonances.data.util import convert_input_to_list
from resonances.matrix.secular_matrix import SecularMatrix
def check(
asteroids: Union[int, str, List[Union[int, str]]],
resonance: str | list[str] | resonances.SecularResonance | list[r... | Python | MIT | 5,307 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/finder/finder.py | import resonances
from typing import Union, List
from resonances.data.util import convert_input_to_list
from . import mmr_finder, secular_finder
def _categorize_resonances(resonance_list):
"""Helper function to categorize resonances by type."""
mmr_resonances = []
secular_resonances = []
for res in ... | Python | MIT | 8,218 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/data/util.py | from typing import Union, List
from resonances.data import const
import datetime
def convert_input_to_list(asteroids: Union[int, str, List[Union[int, str]]]) -> List[str]:
if isinstance(asteroids, str) or isinstance(asteroids, int):
asteroids = [asteroids]
elif asteroids is None:
asteroids = [... | Python | MIT | 1,960 |
[ascl:2409.009] | https://github.com/smirik/resonances | resonances/data/const.py | import rebound
# PLANETS_LONGITUDE = {
# "Mercury": 0.0,
# "Venus": 7.452,
# "Earth": 17.368,
# "Mars": 17.916,
# "Jupiter": 4.257,
# "Saturn": 28.243,
# "Uranus": 0.0,
# "Neptune": 0.0,
# }
PLANETS_AXIS = {
"Mercury": 0.38709843,
"Venus": 0.72332102,
"Earth": 1.00000018,
... | Python | MIT | 1,120 |
[ascl:2409.009] | https://github.com/smirik/resonances | .github/workflows/ci.yml | name: Resonances App
on:
push:
branches: [main]
pull_request:
branches: [main]
jobs:
build:
strategy:
fail-fast: false
matrix:
python-version: [3.11.1]
poetry-version: [1.3.2]
runs-on: ubuntu-latest
steps:
... | YAML | MIT | 1,254 |
[ascl:2409.009] | https://github.com/smirik/resonances | .github/ISSUE_TEMPLATE/feature_request.md | ---
name: Feature request
about: Suggest an idea for this project
title: ''
labels: ''
assignees: ''
---
**Is your feature request related to a problem? Please describe.**
A clear and concise description of what the problem is. Ex. I'm always frustrated when [...]
**Describe the solution you'd like**
A clear and con... | Markdown | MIT | 595 |
[ascl:2409.009] | https://github.com/smirik/resonances | .github/ISSUE_TEMPLATE/bug_report.md | ---
name: Bug report
about: Create a report to help us improve
title: ''
labels: ''
assignees: ''
---
**Describe the bug**
A clear and concise description of what the bug is.
**To Reproduce**
Steps to reproduce the behaviour:
1. Go to '...'
2. Write the code '....'
3. Scroll down to '....'
4. See an error
**Expecte... | Markdown | MIT | 676 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/about.md | # About
## License
This package is available under MIT License. The text of the license is available on [GitHub](https://github.com/smirik/resonances/blob/main/LICENSE).
## Authors
The authors of the package:
- [Evgeny Smirnov](https://github.com/smirik) ([FB](https://facebook.com/smirik), [Telegram](https://t.m... | Markdown | MIT | 1,358 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/index.md | # Mean-Motion Resonances on steroids
`resonances` is an open-source package dedicated to the identification of mean-motion and secularresonances of small bodies. Many examples are for the Solar system; however, you might use the package for any possible planetary system, including exoplanets. For now, the package supp... | Markdown | MIT | 6,781 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/secular.md | # Secular Resonances
This guide shows how to work with secular resonances in the resonances library. Examples assume familiarity with secular resonance theory and asteroid dynamics.
## Quick Start
### Creating Individual Secular Resonances
```python
import resonances
# Create specific secular resonances
nu6 = reso... | Markdown | MIT | 3,662 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/matrix.md | # Resonance Matrices
The Resonance Matrices allows us to find the preliminary (theoretical) value of a resonant semi-major axis for the resonance. While for a two-body mean motion resonance the calculation follows obviously from the Third Kepler Law, it is not so straightforward for three-body mean motion resonances.
... | Markdown | MIT | 4,124 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/libration.md | # Libration
There is no obvious algorithm how to identify whether or not the asteroid is in the resonance. While there are simple cases (such as 463 Lola in `4J-2S-1`, see [Example](quick-start.ipynb)), there are many asteroids whose resonant angles are librating but not the whole time. Moreover, it might be the case ... | Markdown | MIT | 7,626 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/quick-start.ipynb | {
"cells": [
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"# Quick Start\n",
"\n",
"The easiest way to start is to use a Jupyter notebook and review the results as you get them.\n",
"\n",
"Let us start with a very first example:\n",
"\n",
"1. Creat... | Jupyter Notebook | MIT | 428,874 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/install.md | # Installation
The fastest way:
```bash
pip install resonances
```
## Poetry
The _best_ way to install `resonances` package is through [poetry](https://python-poetry.org), which is the dependency manager for python. In this case, you only need to write:
```bash
poetry add resonances
```
It will install the packag... | Markdown | MIT | 3,929 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/examples.ipynb | {
"cells": [
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"# Examples \n",
"\n",
"Below are some examples of how the package could be used in astronomical studies. While there are more use cases, the most common are outlined below."
]
},
{
"cell_type": "... | Jupyter Notebook | MIT | 245,045 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/config.md | # Config
All default config values are stored in a file called .env.dist in the source code. It is not recommended to change anything in that file directly.
If you need to change a specific config value, you can do it in the following way:
If you need to change a specific config value, you have several options:
1. ... | Markdown | MIT | 10,263 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/dev.md | # Development Documentation
## To release a new version
1. Set a new version in `pyproject.toml`.
2. Set the production token:
```bash
poetry config pypi-token.pypi TOKEN
```
3. Run tests
```bash
make test
```
4. Publish
```bash
make publish
```
5. Update docs if necessary
... | Markdown | MIT | 477 |
[ascl:2409.009] | https://github.com/smirik/resonances | docs/core.ipynb | {
"cells": [
{
"attachments": {},
"cell_type": "markdown",
"metadata": {},
"source": [
"The core objects you deal with in resonances are `Simulation`, `Body`, `MMR` (either `ThreeBody` or `TwoBody`), and `SecularResonance` (`GeneralSecularResonance`, `Nu6Resonance`, `Nu5Resonance`, `Nu16Resonance`). ... | Jupyter Notebook | MIT | 53,831 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/test_backward.py | import pytest
import resonances
from tests import tools
@pytest.fixture(autouse=True)
def setup_test_config():
"""Setup test configuration before each test and restore after."""
original_save_path = resonances.config.get('SAVE_PATH')
original_plot_path = resonances.config.get('PLOT_PATH')
resonances.... | Python | MIT | 1,580 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/tools.py | import datetime
import astdys.util
import pytest
import resonances
import astdys
# 463 Lola
def get_3body_elements_sample():
return {
"a": 2.398473292330785,
"e": 0.22009324739445424,
"inc": 0.23634522279656767,
"Omega": 0.63690730765078,
"omega": 5.753528892504344,
... | Python | MIT | 3,011 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/test_real_mmrs.py | import resonances
import astdys
from resonances.matrix.three_body_matrix import ThreeBodyMatrix
from .tools import set_fast_integrator, reset_fast_integrator
def test_find():
set_fast_integrator()
sim = resonances.find(463, ['Jupiter', 'Saturn'])
sim.run()
summary = sim.data_manager.get_simulation_s... | Python | MIT | 2,182 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/test_nasa.py | import pytest
import resonances
import resonances.horizons
import tests.tools as tools
from astroquery.jplhorizons import Horizons
from astropy.table import Table
def test_astroquery():
obj = Horizons(id='Hektor', location='500@10', epochs=2458133.33546)
elems = obj.elements()
assert isinstance(elems, Tab... | Python | MIT | 1,104 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/test_finder.py | import resonances
from .tools import set_fast_integrator, reset_fast_integrator
def test_find():
asteroids = [463, 490]
planets = ['Jupiter', 'Saturn']
set_fast_integrator()
sim = resonances.find(asteroids, planets)
sim.config.tmax = 200000 # enough for 463 and 490
assert isinstance(sim, r... | Python | MIT | 1,264 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/__init__.py | """
Tests for Resonances Package
============================
This package contains tests for the resonances package components.
"""
| Python | MIT | 134 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/test_config.py | import resonances
import pytest
def test_get_and_has():
assert resonances.config.has('SAVE_PATH') is True
assert 'cache' == resonances.config.get('SAVE_PATH')
assert resonances.config.has('PLOT_PATH') is True
assert 'cache' == resonances.config.get('PLOT_PATH')
assert resonances.config.has('SAVE... | Python | MIT | 3,026 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/test_body.py | import resonances
import numpy as np
def test_checkers():
body = resonances.Body()
mmr = resonances.create_mmr('4J-2S-1')
body.mmrs = [mmr]
body.statuses[mmr.to_s()] = 2
assert body.status(mmr) == 2
assert body.in_resonance(mmr) is True
assert body.in_pure_resonance(mmr) is True
body... | Python | MIT | 3,399 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/data/test_util.py | import pytest
import resonances
import datetime
from resonances.data.util import convert_input_to_list, datetime_from_string
def test_convert_input_to_list():
asteroids = 1
expected_output = [1]
assert convert_input_to_list(asteroids) == expected_output
asteroids = '2'
expected_output = ['2']
... | Python | MIT | 2,116 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/plot/__init__.py | """
Tests for the plot module.
"""
| Python | MIT | 35 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/plot/test_plot_round.py | from resonances.resonance.plot import round_to_nice_value
class TestRoundToNiceValue:
"""Test suite for the round_to_nice_value function."""
def test_round_to_nice_value_basic_cases(self):
"""Test round_to_nice_value with the provided test cases."""
assert round_to_nice_value(20000) == 20000
... | Python | MIT | 1,952 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/secular/__init__.py | # Secular resonance tests
BASIC_CONFIG = {
'plot': 'all',
'save': 'all',
'integration_years': 200000,
'oscillations_cutoff': 0.0005,
'libration_period_min': 10000,
'libration_period_critical': 200000 * 0.2,
'dt': 1.0,
'integrator': 'whfast',
}
| Python | MIT | 276 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/secular/test_secular_finder_check.py | import resonances.finder.secular_finder
import numpy as np
class TestSecularFinderCheck:
"""Test the secular_finder.check function parameter propagation."""
def test_check_function_kwargs_propagation(self):
"""Test that old parameters passed via kwargs are correctly set up in simulation object."""
... | Python | MIT | 5,111 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/secular/test_secular_calculations.py | #!/usr/bin/env python3
"""
Simple test to verify secular resonance coefficient parsing and angle calculations
for g-g6+s-s6 and 2g-2g6+s-s6 cases.
"""
import math
from resonances.resonance.secular import GeneralSecularResonance
class SimpleBody:
"""Simple body class with orbital elements."""
def __init__(se... | Python | MIT | 4,318 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/secular/test_secular_finder_find.py | import resonances.finder.secular_finder
import resonances
import numpy as np
import pytest
from resonances.matrix.secular_matrix import SecularMatrix
from tests.resonances.secular import BASIC_CONFIG
@pytest.fixture(autouse=True)
def setup_test_config():
"""Setup test configuration before each test and restore a... | Python | MIT | 7,250 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/secular/test_secular_check.py | from resonances.resonance.secular import GeneralSecularResonance
import resonances.finder.secular_finder
import resonances
import numpy as np
import pytest
from tests.resonances.secular import BASIC_CONFIG
@pytest.fixture(autouse=True)
def setup_test_config():
"""Setup test configuration before each test and res... | Python | MIT | 4,929 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/matrix/test_secular_matrix.py | import pytest
from resonances.matrix.secular_matrix import SecularMatrix
from resonances.matrix.secular_resonances import SECULAR_RESONANCES, get_available_secular_resonance_formulas, get_available_orders
from resonances.resonance.secular import SecularResonance, Nu5Resonance, Nu6Resonance, Nu16Resonance, GeneralSecula... | Python | MIT | 8,686 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/matrix/test_two_body_matrix.py | import pytest
import pandas as pd
from pathlib import Path
import shutil
import resonances
from resonances.matrix.two_body_matrix import TwoBodyMatrix
@pytest.fixture(autouse=True)
def run_around_tests():
resonances.config.set(TwoBodyMatrix.catalog_file, 'cache/tests/mmr-2body-test.csv')
Path('cache/tests').... | Python | MIT | 2,727 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/matrix/test_three_body_matrix.py | import pytest
import pandas as pd
from pathlib import Path
import shutil
import resonances
from resonances.matrix.three_body_matrix import ThreeBodyMatrix
@pytest.fixture(autouse=True)
def run_around_tests():
resonances.config.set(ThreeBodyMatrix.catalog_file, 'cache/tests/mmr-3body-test.csv')
Path('cache/te... | Python | MIT | 3,210 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/matrix/test_factory_integration.py | import pytest
from resonances.resonance.factory import create_secular_resonance
from resonances.resonance.secular import Nu5Resonance, Nu6Resonance, Nu16Resonance, GeneralSecularResonance
class TestFactoryIntegration:
"""Test that the factory method works with the new secular matrix functionality."""
def tes... | Python | MIT | 2,362 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/resonance/test_factory.py | import pytest
from resonances.resonance.three_body import ThreeBody
from resonances.resonance.two_body import TwoBody
from resonances.resonance.mmr import MMR
from resonances.resonance.secular import Nu6Resonance, Nu5Resonance, Nu16Resonance, GeneralSecularResonance
from resonances.resonance.factory import create_mmr,... | Python | MIT | 7,865 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/resonance/test_plot.py | from pathlib import Path
import resonances
import os
import tests.tools as tools
def test_simple_run():
sim = tools.create_test_simulation_for_solar_system()
sim.add_body(tools.get_3body_elements_sample(), resonances.ThreeBody('4J-2S-1'))
sim.add_body(tools.get_2body_elements_sample(), resonances.TwoBody(... | Python | MIT | 1,315 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/resonance/test_mmr.py | import resonances
import pytest
def test_get_letter_from_planet_name():
mmr = resonances.TwoBody([2, -1, 0, -1])
assert 'E' == mmr.get_letter_from_planet_name('Earth')
assert 'J' == mmr.get_letter_from_planet_name('Jupiter')
assert 'R' == mmr.get_letter_from_planet_name('Mercury')
assert 'M' == mm... | Python | MIT | 2,096 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/resonance/test_circulation.py | import resonances
def test_find_breaks():
x = [1, 2, 3]
y = [1, 2, 5]
breaks = resonances.libration.find_breaks(x, y)
assert 0 == len(breaks[0]) # no breaks
breaks = resonances.libration.find_breaks(x, y, break_value=2)
assert 1 == len(breaks[0])
assert 3 == breaks[0][0] # break at x=3... | Python | MIT | 4,690 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/resonance/test_three_body.py | import resonances
import pytest
def test_order():
mmr = resonances.ThreeBody('4J-2S-1')
assert 1 == mmr.order()
mmr = resonances.ThreeBody('3J-2S-1')
assert 0 == mmr.order()
mmr = resonances.ThreeBody('6J-1S-1')
assert 4 == mmr.order()
def test_full_create():
mmr = resonances.ThreeBody... | Python | MIT | 4,874 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/resonance/test_filtering.py | import resonances
import numpy as np
import pytest
def test_periodogram():
t = np.linspace(0, 10, 101)
y = np.sin(np.pi * t)
(frequency, power) = resonances.libration.periodogram(t, y, minimum_frequency=0.0, maximum_frequency=2.0)
key = 0
for i, elem in enumerate(frequency):
if elem == 0.... | Python | MIT | 1,829 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/resonance/test_two_body.py | import resonances
import pytest
def test_order():
mmr = resonances.TwoBody('4J-1')
assert 3 == mmr.order()
mmr = resonances.TwoBody('1J-1')
assert 0 == mmr.order()
mmr = resonances.TwoBody('1J+1')
assert 2 == mmr.order()
def test_full_create():
mmr = resonances.TwoBody([2, -1, 0, -1])
... | Python | MIT | 3,807 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/resonance/test_libration.py | import numpy as np
import pytest
import resonances
def test_pure():
arr = [1, 2, 3, 3, 2, 1, 1, 2, 3, 3, 2, 1]
assert resonances.libration.pure(arr) is True
arr = [1, 2, 3, 4, 5, 6, 1, 2, 3, 4, 5, 6]
assert resonances.libration.pure(arr) is False
arr = [6, 0, 1, 0, 6, 5, 6, 0, 1, 2]
assert r... | Python | MIT | 4,152 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/__init__.py | """
Tests for Simulation Components
==============================
This package contains tests for the refactored simulation architecture.
"""
| Python | MIT | 144 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/test_body_manager.py | #!/usr/bin/env python3
"""
Tests for BodyManager Component
==============================
This module tests the BodyManager class.
"""
import pytest
from unittest.mock import Mock, patch
from resonances.simulation import BodyManager, SimulationConfig
class TestBodyManager:
"""Test the BodyManager component."""... | Python | MIT | 4,016 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/test_config.py | #!/usr/bin/env python3
"""
Tests for SimulationConfig Component
===================================
This module tests the SimulationConfig class.
"""
import pytest
import numpy as np
from resonances.simulation import SimulationConfig
class TestSimulationConfig:
"""Test the SimulationConfig component."""
d... | Python | MIT | 1,976 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/test_config_propagation.py | #!/usr/bin/env python3
"""
Tests for Configuration Parameter Propagation
=============================================
This module tests that configuration parameters passed to Simulation are correctly
propagated through the system components and actually used during integration.
Tests cover:
1. Direct verification o... | Python | MIT | 11,315 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/test_integration.py | #!/usr/bin/env python3
"""
Tests for IntegrationEngine Component
====================================
This module tests the IntegrationEngine class.
"""
import pytest
from unittest.mock import Mock, patch
from resonances.simulation import SimulationConfig, IntegrationEngine
class TestIntegrationEngine:
"""Test... | Python | MIT | 2,965 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/test_simulation.py | #!/usr/bin/env python3
import datetime # noqa: F401 - used in patches
import astdys # noqa: F401 - used in patches
import rebound # noqa: F401 - used in patches
import tests.tools as tools
import shutil # noqa: F401 - used in fixtures
from pathlib import Path
import pytest
from unittest.mock import Mock, patch
imp... | Python | MIT | 8,712 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/test_config_core_validation.py | #!/usr/bin/env python3
"""
Core Configuration Validation Tests
===================================
Focused tests to verify the core issue: whether configuration parameters
passed to Simulation constructor are actually used by the integration engine.
This addresses the specific concern about configuration parameter pr... | Python | MIT | 9,147 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/test_simulation_integration.py | #!/usr/bin/env python3
"""
Tests for Simulation Integration
===============================
This module tests the integration between simulation components.
"""
import pytest
from unittest.mock import Mock, patch
from resonances.simulation import SimulationConfig, BodyManager, IntegrationEngine, DataManager
@pytes... | Python | MIT | 2,723 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/test_runtime_config_validation.py | #!/usr/bin/env python3
"""
Runtime Configuration Validation Tests
======================================
This module performs deeper integration tests to verify that configuration
parameters are actually applied and used during simulation runtime.
These tests focus on:
1. Actual REBOUND integrator configuration
2. Ru... | Python | MIT | 7,980 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/simulation/test_data_manager.py | #!/usr/bin/env python3
"""
Tests for DataManager Component
==============================
This module tests the DataManager class.
"""
import pytest
from unittest.mock import Mock, patch
from resonances.simulation import SimulationConfig, DataManager
class TestDataManager:
"""Test the DataManager component."""... | Python | MIT | 4,202 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/mmr/__init__.py | # MMR Tests
| Python | MIT | 12 |
[ascl:2409.009] | https://github.com/smirik/resonances | tests/resonances/mmr/test_finder_check.py | import resonances.finder.mmr_finder
class TestFinderCheck:
"""Test the finder.check function parameter propagation."""
def test_check_function_kwargs_propagation(self):
"""Test that parameters passed via kwargs are correctly set up in simulation object."""
# Define parameters that should be ... | Python | MIT | 5,144 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | LICENSE.md | The ReverseDiff.jl package is licensed under the MIT "Expat" License:
> Copyright (c) 2016: Jarrett Revels, John Pearson
>
> Permission is hereby granted, free of charge, to any person obtaining a copy
> of this software and associated documentation files (the "Software"), to deal
> in the Software without restriction... | Markdown | MIT | 1,181 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | Project.toml | name = "ReverseDiff"
uuid = "37e2e3b7-166d-5795-8a7a-e32c996b4267"
version = "1.16.2"
[deps]
ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
DiffResults = "163ba53b-c6d8-5494-b064-1a9d43ac40c5"
DiffRules = "b552c78f-8df3-52c6-915a-8e097449b14b"
ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210"
FunctionWrapp... | TOML | MIT | 1,482 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | README.md | # ReverseDiff
[](https://juliadiff.org/ReverseDiff.jl/stable)
[](https://juliadiff.org/ReverseDiff.jl/dev)
[](https://gith... | Markdown | MIT | 5,057 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | benchmark/benchmark.jl | using ReverseDiff
####################################################################
function grad_benchmark_driver!(out, f, x)
println("benchmarking ∇$(f)...")
cfg = ReverseDiff.GradientConfig(x)
tp = ReverseDiff.GradientTape(f, x)
# warmup
ReverseDiff.gradient!(out, f, x, cfg)
ReverseDif... | Julia | MIT | 3,595 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | docs/Project.toml | [deps]
Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
[compat]
Documenter = "1" | TOML | MIT | 85 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | docs/make.jl | using Documenter, ReverseDiff
makedocs(;
modules=[ReverseDiff],
sitename="ReverseDiff.jl",
format=Documenter.HTML(;
prettyurls=get(ENV, "CI", nothing) == "true",
),
pages=[
"Home" => "index.md",
"Limitation of ReverseDiff" => "limits.md",
"API" => "api.md",
],
... | Julia | MIT | 431 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | docs/src/api.md | # ReverseDiff API
```@meta
CurrentModule = ReverseDiff
```
## Gradients of `f(x::AbstractArray{<:Real}...)::Real`
```@docs
ReverseDiff.gradient
ReverseDiff.gradient!
```
## Jacobians of `f(x::AbstractArray{<:Real}...)::AbstractArray{<:Real}`
```@docs
ReverseDiff.jacobian
ReverseDiff.jacobian!
```
## Hessians of `... | Markdown | MIT | 2,512 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | docs/src/limits.md | # Limitations of ReverseDiff
ReverseDiff works by injecting user code with new number types that record all operations
that occur on them, accumulating an execution trace of the target function which can be
re-run forwards and backwards to propagate new input values and derivative information.
Naturally, this techniqu... | Markdown | MIT | 2,155 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | docs/src/index.md | # ReverseDiff.jl
This documentation provides a specification of ReverseDiff's API, tips for usage,
and details about the package's implementation.
For a basic introduction to ReverseDiff, see
[the package's README](https://github.com/JuliaDiff/ReverseDiff.jl).
For usage examples, see
[the examples directory](https:/... | Markdown | MIT | 380 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | .github/dependabot.yml | # https://docs.github.com/github/administering-a-repository/configuration-options-for-dependency-updates
version: 2
updates:
- package-ecosystem: "github-actions"
directory: "/" # Location of package manifests
schedule:
interval: "monthly"
| YAML | MIT | 256 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | .github/workflows/TagBot.yml | name: TagBot
on:
issue_comment:
types:
- created
workflow_dispatch:
inputs:
lookback:
default: "3"
permissions:
actions: read
checks: read
contents: write
deployments: read
issues: read
discussions: read
packages: read
pages: read
pull-requests: read
repository-projec... | YAML | MIT | 650 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | .github/workflows/CompatHelper.yml | name: CompatHelper
on:
schedule:
- cron: 0 0 * * *
workflow_dispatch:
permissions:
contents: write
pull-requests: write
jobs:
CompatHelper:
runs-on: ubuntu-latest
steps:
- name: Check if Julia is already available in the PATH
id: julia_in_path
run: which julia
continu... | YAML | MIT | 1,282 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | .github/workflows/DocsPreviewCleanup.yml | name: Docs Preview Cleanup
on:
pull_request:
types: [closed]
# Ensure that only one "Doc Preview Cleanup" workflow is force pushing at a time
concurrency:
group: doc-preview-cleanup
cancel-in-progress: false
jobs:
doc-preview-cleanup:
runs-on: ubuntu-latest
permissions:
contents: write
... | YAML | MIT | 995 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | .github/workflows/ci.yml | name: CI
on:
pull_request:
branches:
- master
push:
branches:
- master
tags: '*'
concurrency:
# Skip intermediate builds: always.
# Cancel intermediate builds: only if it is a pull request build.
group: ${{ github.workflow }}-${{ github.ref }}
cancel-in-progress: ${{ startsWith(git... | YAML | MIT | 2,153 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | examples/jacobian.jl | using ReverseDiff: JacobianTape, JacobianConfig, jacobian, jacobian!, compile
using LinearAlgebra: mul!
#########
# setup #
#########
# some objective functions to work with
f(a, b) = (a + b) * (a * b)'
g!(out, a, b) = mul!(out, a + b, a * b)
# pre-record JacobianTapes for `f` and `g` using inputs of shape 10x10 wit... | Julia | MIT | 2,005 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | examples/gradient.jl | using ReverseDiff: GradientTape, GradientConfig, gradient, gradient!, compile, DiffResults
#########
# setup #
#########
# some objective function to work with
f(a, b) = sum(a' * b + a * b')
# pre-record a GradientTape for `f` using inputs of shape 100x100 with Float64 elements
const f_tape = GradientTape(f, (rand(1... | Julia | MIT | 1,954 |
[ascl:2411.010] | https://github.com/JuliaDiff/ReverseDiff.jl | src/ReverseDiff.jl | module ReverseDiff
using Base: RefValue
using Random
using LinearAlgebra
using Statistics
using FunctionWrappers: FunctionWrapper
using DiffResults
using DiffResults: DiffResult
using DiffRules, SpecialFunctions, NaNMath
using ForwardDiff
using ForwardDiff: Dual, Partials
using StaticArrays
using LogExpFunctions: ... | Julia | MIT | 1,971 |
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