Promote weak form SINDy from a feature library to a sibling `SINDy` class. #1856

Workflow file for this run

	name: CI

	on:
	push:
	branches:
	- main
	pull_request:
	branches:
	- main


	jobs:
	linting:
	name: Linting
	runs-on: ubuntu-latest

	steps:
	- uses: actions/checkout@v4
	- name: Set up Python
	uses: actions/setup-python@v4
	with:
	python-version: "3.12"
	- uses: pre-commit/action@v3.0.1

	build:
	name: Build
	runs-on: ubuntu-latest

	steps:
	- uses: actions/checkout@v4
	- name: Set up Python
	uses: actions/setup-python@v4
	with:
	python-version: "3.12"
	- name: build
	run: pip install .
	- name: test import
	run: python -c "import pysindy"

	docs:
	name: Docs
	runs-on: ubuntu-latest
	strategy:
	fail-fast: false

	steps:
	- uses: actions/checkout@v4
	- name: "Set up Python"
	uses: actions/setup-python@v4
	with:
	python-version: "3.12"
	- name: Install doc dependencies
	run: \|
	sudo apt-get update -y
	sudo apt-get install pandoc
	pip install -e .[docs,cvxpy,miosr,sbr]
	- name: Build docs
	run: \|
	cd docs
	python -m sphinx -T -E -W -b html -d _build/doctrees . _build/html

	- name: Save the built docs
	uses: actions/upload-artifact@v4
	with:
	name: docs-html
	path: docs/_build/html/
	retention-days: 5


	tests:
	name: Tests
	runs-on: ubuntu-latest
	strategy:
	fail-fast: false
	max-parallel: 4
	matrix:
	python-version: ["3.12", "3.13", "3.14"]

	steps:
	- uses: actions/checkout@v4
	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v4
	with:
	python-version: ${{ matrix.python-version }}

	- name: Cache pip
	uses: actions/cache@v4
	with:
	path: ~/.cache/pip
	key: ${{ runner.os }}-pip-${{ hashFiles('pyproject.toml') }}
	restore-keys: \|
	${{ runner.os }}-pip-

	- name: Install dependencies
	run: \|
	pip install --upgrade pip
	pip install .[dev,miosr,cvxpy,sbr]
	pip freeze > environment.txt

	- name: Save the environment
	uses: actions/upload-artifact@v4
	with:
	name: requirements ${{matrix.python-version}}
	path: environment.txt
	retention-days: 5

	- name: Test with pytest
	run: \|
	coverage run --source=pysindy -m pytest test -m "not slow" && coverage xml

	- name: Upload coverage to Codecov
	uses: codecov/codecov-action@v4
	with:
	token: ${{ secrets.CODECOV_TOKEN }}
	file: ./coverage.xml

	benchmarks:
	name: Benchmarks (ASV)
	needs: tests
	runs-on: ubuntu-latest

	strategy:
	matrix:
	python-version: ["3.12"]

	permissions:
	contents: write # gh-pages publishing

	steps:
	# checkout code
	- uses: actions/checkout@v4
	with:
	fetch-depth: 0 # ASV history

	# Get Python
	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v4
	with:
	python-version: ${{ matrix.python-version }}

	# Restore environment if it's cached
	- name: Cache pip
	uses: actions/cache@v4
	with:
	path: ~/.cache/pip
	key: ${{ runner.os }}-pip-${{ hashFiles('pyproject.toml') }}
	restore-keys: \|
	${{ runner.os }}-pip-

	# Otherwise, restore environment
	- name: Install dependencies
	run: \|
	pip install --upgrade pip
	pip install .[dev]
	pip install asv

	# Restore any cached ASV environments
	- name: Cache ASV environments
	uses: actions/cache@v4
	with:
	path: asv_bench/.asv/env
	key: asv-${{ runner.os }}-py${{ matrix.python-version }}-${{ hashFiles('asv_bench/asv.conf.json') }}
	restore-keys: \|
	asv-${{ runner.os }}-py${{ matrix.python-version }}-

	# Detect machine information for benchmarks
	- name: Setup ASV machine
	run: \|
	cd asv_bench
	asv machine --yes

	# Check regressions of any benchmarks
	- name: Check regression
	if: github.event_name == 'pull_request'
	run: \|
	cd asv_bench
	git fetch origin $GITHUB_BASE_REF:base $GITHUB_REF:pr
	asv continuous base pr -e

	# This whole second section should be a separate workflow, triggered by
	# commit to main, not PRs
	# Checkout gh-pages into a side folder (if it exists)
	- uses: actions/checkout@v4
	continue-on-error: true
	with:
	ref: gh-pages
	path: gh-pages

	# Restore historical ASV results into workspace
	- name: Restore ASV history
	run: \|
	mkdir -p asv_bench/.asv/results
	if [ -d gh-pages/.asv/results ]; then
	rsync -a gh-pages/.asv/results/ asv_bench/.asv/results/
	fi

	# Generate website benchmark results for new commits
	- name: Run benchmarks on main
	if: github.event_name == 'push' && github.ref == 'refs/heads/main'
	run: \|
	cd asv_bench
	asv run --skip-existing-successful
	asv publish

	# Stage site payload: html + updated results
	- name: Prepare Pages payload
	run: \|
	rm -rf pages && mkdir -p pages/.asv
	rsync -a asv_bench/.asv/html/ pages/
	rsync -a asv_bench/.asv/results/ pages/.asv/results/

	# Deploy
	- name: Deploy ASV dashboard to gh-pages
	if: github.event_name == 'push' && github.ref == 'refs/heads/main'
	uses: peaceiris/actions-gh-pages@v4
	with:
	github_token: ${{ secrets.GITHUB_TOKEN }}
	publish_dir: asv_bench/.asv/html
	force_orphan: false

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Promote weak form SINDy from a feature library to a sibling `SINDy` class. #1856

Workflow file

Promote weak form SINDy from a feature library to a sibling `SINDy` class. #1856

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Workflow file for this run

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Promote weak form SINDy from a feature library to a sibling SINDy class. #1856

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Workflow file for this run

Promote weak form SINDy from a feature library to a sibling `SINDy` class. #1856