From e7b1a23bc9c5d1ac43fc3777af7051b510b6000c Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Tue, 10 Nov 2026 11:29:50 +0000 Subject: [PATCH 01/12] Adopt python-copier-template 5.5.0 Generated with `copier copy` from https://github.com/DiamondLightSource/python-copier-template (5.5.0) and reconciled by hand with the existing project: - Move metadata from setup.cfg into pyproject.toml [project]. setup.py still builds the setuptools_dso extension and sets install_requires, declared dynamic, so the epicscorelibs ABI pin from abi_requires() is kept. - Replace _version_git.py with setuptools_scm. - Require Python >= 3.11. - Replace flake8 with ruff check, using the template's rule selection and ignores so the existing code passes unchanged; the temporary ignores are to be fixed in a follow-up (#214). ruff format is not used. - Configure pyright in basic mode with the rules the existing code violates turned off. - Replace code.yml/docs.yml with the template's ci.yml and reusable workflows. _dist.yml is custom: it builds the sdist and cibuildwheel wheels for cp311-cp314 on Linux, Windows and macOS and tests them as before. Checkouts include the iocStats submodule. The weekly test against upstream master branches moves to periodic.yml. - Switch the docs theme to pydata-sphinx-theme with myst, keeping the existing .rst pages and index. Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz5t8qhYupzSkLkFc5K --- .copier-answers.yml | 19 ++ .devcontainer/devcontainer.json | 72 ++++++ .gitattributes | 1 - .github/ISSUE_TEMPLATE/bug_report.md | 21 ++ .github/ISSUE_TEMPLATE/issue.md | 13 + .../pull_request_template.md | 8 + .github/pages/make_switcher.py | 96 +++++++ .github/workflows/_dist.yml | 118 +++++++++ .github/workflows/_docs.yml | 57 +++++ .github/workflows/_pypi.yml | 22 ++ .github/workflows/_release.yml | 32 +++ .github/workflows/_test.yml | 35 +++ .github/workflows/_tox.yml | 25 ++ .github/workflows/ci.yml | 52 ++++ .github/workflows/code.yml | 211 ---------------- .github/workflows/docs.yml | 51 ---- .github/workflows/periodic.yml | 45 ++++ .gitignore | 40 ++- .gitleaks.toml | 19 ++ .pre-commit-config.yaml | 35 +++ .python-version | 1 + .vscode/extensions.json | 4 +- .vscode/launch.json | 18 +- .vscode/settings.json | 16 +- .vscode/tasks.json | 4 +- CHANGELOG.rst | 14 +- CONTRIBUTING.rst | 43 ++-- Dockerfile | 8 + README.rst | 12 +- catalog-info.yaml | 10 + docs/_templates/custom-module-template.rst | 37 +++ docs/conf.py | 216 +++++++++++----- .../asyncio-cothread-differences.rst | 2 - docs/explanations/decisions.md | 12 + .../0001-record-architecture-decisions.md | 18 ++ ...0002-switched-to-python-copier-template.md | 28 +++ docs/explanations/decisions/COPYME | 19 ++ docs/how-to/make-publishable-ioc.rst | 1 - docs/index.rst | 1 + docs/tutorials/installation.rst | 6 +- pyproject.toml | 238 +++++++++++++++++- renovate.json | 48 ++++ setup.cfg | 81 ------ setup.py | 20 +- softioc/__init__.py | 2 +- softioc/_version_git.py | 97 ------- tests/test_cli.py | 9 + 47 files changed, 1341 insertions(+), 596 deletions(-) create mode 100644 .copier-answers.yml create mode 100644 .devcontainer/devcontainer.json delete mode 100644 .gitattributes create mode 100644 .github/ISSUE_TEMPLATE/bug_report.md create mode 100644 .github/ISSUE_TEMPLATE/issue.md create mode 100644 .github/PULL_REQUEST_TEMPLATE/pull_request_template.md create mode 100755 .github/pages/make_switcher.py create mode 100644 .github/workflows/_dist.yml create mode 100644 .github/workflows/_docs.yml create mode 100644 .github/workflows/_pypi.yml create mode 100644 .github/workflows/_release.yml create mode 100644 .github/workflows/_test.yml create mode 100644 .github/workflows/_tox.yml create mode 100644 .github/workflows/ci.yml delete mode 100644 .github/workflows/code.yml delete mode 100644 .github/workflows/docs.yml create mode 100644 .github/workflows/periodic.yml create mode 100644 .gitleaks.toml create mode 100644 .pre-commit-config.yaml create mode 100644 .python-version create mode 100644 Dockerfile create mode 100644 catalog-info.yaml create mode 100644 docs/_templates/custom-module-template.rst create mode 100644 docs/explanations/decisions.md create mode 100644 docs/explanations/decisions/0001-record-architecture-decisions.md create mode 100644 docs/explanations/decisions/0002-switched-to-python-copier-template.md create mode 100644 docs/explanations/decisions/COPYME create mode 100644 renovate.json delete mode 100644 setup.cfg delete mode 100644 softioc/_version_git.py create mode 100644 tests/test_cli.py diff --git a/.copier-answers.yml b/.copier-answers.yml new file mode 100644 index 00000000..2b996b9a --- /dev/null +++ b/.copier-answers.yml @@ -0,0 +1,19 @@ +# Changes here will be overwritten by Copier +_commit: 5.5.0 +_src_path: https://github.com/DiamondLightSource/python-copier-template.git +author_email: Michael.Abbott@diamond.ac.uk +author_name: Michael Abbott +component_lifecycle: production +component_owner: group:default/accelerator-controls +component_type: library +description: Embed an EPICS IOC in a Python process +distribution_name: softioc +docker: false +docs_type: sphinx +git_platform: github.com +github_org: DiamondLightSource +package_name: softioc +pypi: true +repo_name: pythonSoftIOC +strict_typing: false +type_checker: pyright diff --git a/.devcontainer/devcontainer.json b/.devcontainer/devcontainer.json new file mode 100644 index 00000000..c12cce59 --- /dev/null +++ b/.devcontainer/devcontainer.json @@ -0,0 +1,72 @@ +// For format details, see https://containers.dev/implementors/json_reference/ +{ + "name": "Python 3 Developer Container", + "build": { + "dockerfile": "../Dockerfile", + "target": "developer" + }, + "remoteEnv": { + // Allow X11 apps to run inside the container + "DISPLAY": "${localEnv:DISPLAY}", + // Put things that allow it in the persistent cache + "PRE_COMMIT_HOME": "/cache/pre-commit", + "UV_CACHE_DIR": "/cache/uv", + "UV_PYTHON_CACHE_DIR": "/cache/uv-python", + // Make a venv that is specific for this workspace path as the cache is shared + "UV_PROJECT_ENVIRONMENT": "/cache/venv-for${localWorkspaceFolder}", + // Do the equivalent of "activate" the venv so we don't have to "uv run" everything + "VIRTUAL_ENV": "/cache/venv-for${localWorkspaceFolder}", + "PATH": "/cache/venv-for${localWorkspaceFolder}/bin:${containerEnv:PATH}" + }, + "customizations": { + "vscode": { + // Set *default* container specific settings.json values on container create. + "settings": { + // Use the container's python by default + "python.defaultInterpreterPath": "/cache/venv-for${localWorkspaceFolder}/bin/python", + // Don't activate the venv as it is already in the PATH + "python.terminal.activateEnvInCurrentTerminal": false, + "python.terminal.activateEnvironment": false, + // Workaround to prevent garbled python REPL in the terminal + // https://github.com/microsoft/vscode-python/issues/25505 + "python.terminal.shellIntegration.enabled": false + }, + // Add the IDs of extensions you want installed when the container is created. + "extensions": [ + "ms-python.python", + "github.vscode-github-actions", + "tamasfe.even-better-toml", + "redhat.vscode-yaml", + "ryanluker.vscode-coverage-gutters", + "charliermarsh.ruff", + "ms-azuretools.vscode-docker" + ] + } + }, + // Create the config folder for the bash-config feature and uv cache + "initializeCommand": "mkdir -p ${localEnv:HOME}/.config/terminal-config", + "runArgs": [ + // Allow the container to access the host X11 display and EPICS CA + "--net=host", + // Make sure SELinux does not disable with access to host filesystems like tmp + "--security-opt=label=disable" + ], + "mounts": [ + // Mount in the user terminal config folder so it can be edited + { + "source": "${localEnv:HOME}/.config/terminal-config", + "target": "/user-terminal-config", + "type": "bind" + }, + // Keep a persistent cross container cache for uv, pre-commit, and the venvs + { + "source": "devcontainer-shared-cache", + "target": "/cache", + "type": "volume" + } + ], + // Mount the parent as /workspaces so we can pip install peers as editable + "workspaceMount": "source=${localWorkspaceFolder}/..,target=/workspaces,type=bind", + // After the container is created, recreate the venv then make pre-commit first run faster + "postCreateCommand": "uv venv --clear && uv sync && pre-commit install --install-hooks" +} diff --git a/.gitattributes b/.gitattributes deleted file mode 100644 index 41a13933..00000000 --- a/.gitattributes +++ /dev/null @@ -1 +0,0 @@ -*/_version_git.py export-subst diff --git a/.github/ISSUE_TEMPLATE/bug_report.md b/.github/ISSUE_TEMPLATE/bug_report.md new file mode 100644 index 00000000..92087f5b --- /dev/null +++ b/.github/ISSUE_TEMPLATE/bug_report.md @@ -0,0 +1,21 @@ +--- +name: Bug Report +about: The template to use for reporting bugs and usability issues +title: " " +labels: 'bug' +assignees: '' + +--- + +Describe the bug, including a clear and concise description of the expected behaviour, the actual behavior and the context in which you encountered it (ideally include details of your environment). + +## Steps To Reproduce +Steps to reproduce the behavior: +1. Go to '...' +2. Click on '....' +3. Scroll down to '....' +4. See error + + +## Acceptance Criteria +- Specific criteria that will be used to judge if the issue is fixed diff --git a/.github/ISSUE_TEMPLATE/issue.md b/.github/ISSUE_TEMPLATE/issue.md new file mode 100644 index 00000000..52c84dd8 --- /dev/null +++ b/.github/ISSUE_TEMPLATE/issue.md @@ -0,0 +1,13 @@ +--- +name: Issue +about: The standard template to use for feature requests, design discussions and tasks +title: " " +labels: '' +assignees: '' + +--- + +A brief description of the issue, including specific stakeholders and the business case where appropriate + +## Acceptance Criteria +- Specific criteria that will be used to judge if the issue is fixed diff --git a/.github/PULL_REQUEST_TEMPLATE/pull_request_template.md b/.github/PULL_REQUEST_TEMPLATE/pull_request_template.md new file mode 100644 index 00000000..8200afe5 --- /dev/null +++ b/.github/PULL_REQUEST_TEMPLATE/pull_request_template.md @@ -0,0 +1,8 @@ +Fixes #ISSUE + +### Instructions to reviewer on how to test: +1. Do thing x +2. Confirm thing y happens + +### Checks for reviewer +- [ ] Would the PR title make sense to a user on a set of release notes diff --git a/.github/pages/make_switcher.py b/.github/pages/make_switcher.py new file mode 100755 index 00000000..c06813af --- /dev/null +++ b/.github/pages/make_switcher.py @@ -0,0 +1,96 @@ +"""Make switcher.json to allow docs to switch between different versions.""" + +import json +import logging +from argparse import ArgumentParser +from pathlib import Path +from subprocess import CalledProcessError, check_output + + +def report_output(stdout: bytes, label: str) -> list[str]: + """Print and return something received frm stdout.""" + ret = stdout.decode().strip().split("\n") + print(f"{label}: {ret}") + return ret + + +def get_branch_contents(ref: str) -> list[str]: + """Get the list of directories in a branch.""" + stdout = check_output(["git", "ls-tree", "-d", "--name-only", ref]) + return report_output(stdout, "Branch contents") + + +def get_sorted_tags_list() -> list[str]: + """Get a list of sorted tags in descending order from the repository.""" + stdout = check_output(["git", "tag", "-l", "--sort=-v:refname"]) + return report_output(stdout, "Tags list") + + +def get_versions(ref: str, add: str | None) -> list[str]: + """Generate the file containing the list of all GitHub Pages builds.""" + # Get the directories (i.e. builds) from the GitHub Pages branch + try: + builds = set(get_branch_contents(ref)) + except CalledProcessError: + builds = set() + logging.warning(f"Cannot get {ref} contents") + + # Add and remove from the list of builds + if add: + builds.add(add) + + # Get a sorted list of tags + tags = get_sorted_tags_list() + + # Make the sorted versions list from main branches and tags + versions: list[str] = [] + for version in ["master", "main"] + tags: + if version in builds: + versions.append(version) + builds.remove(version) + + # Add in anything that is left to the bottom + versions += sorted(builds) + print(f"Sorted versions: {versions}") + return versions + + +def write_json(path: Path, repository: str, versions: list[str]): + """Write the JSON switcher to path.""" + org, repo_name = repository.split("/") + struct = [ + {"version": version, "url": f"https://{org}.github.io/{repo_name}/{version}/"} + for version in versions + ] + text = json.dumps(struct, indent=2) + print(f"JSON switcher:\n{text}") + path.write_text(text, encoding="utf-8") + + +def main(args=None): + """Parse args and write switcher.""" + parser = ArgumentParser( + description="Make a versions.json file from gh-pages directories" + ) + parser.add_argument( + "--add", + help="Add this directory to the list of existing directories", + ) + parser.add_argument( + "repository", + help="The GitHub org and repository name: ORG/REPO", + ) + parser.add_argument( + "output", + type=Path, + help="Path of write switcher.json to", + ) + args = parser.parse_args(args) + + # Write the versions file + versions = get_versions("origin/gh-pages", args.add) + write_json(args.output, args.repository, versions) + + +if __name__ == "__main__": + main() diff --git a/.github/workflows/_dist.yml b/.github/workflows/_dist.yml new file mode 100644 index 00000000..7852d68e --- /dev/null +++ b/.github/workflows/_dist.yml @@ -0,0 +1,118 @@ +# Unlike the python-copier-template's _dist.yml this builds binary wheels of the +# C extension for each platform and python version with cibuildwheel, and tests +# each wheel with the full test suite. +on: + workflow_call: + +jobs: + sdist: + runs-on: "ubuntu-latest" + + steps: + - name: Checkout + uses: actions/checkout@v7 + with: + # Need this to get version number from last tag + fetch-depth: 0 + # iocStats sources are needed in the sdist + submodules: true + + - name: Install uv + uses: astral-sh/setup-uv@v10.3.2 + + - name: Build sdist + run: > + export SOURCE_DATE_EPOCH=$(git log -1 --pretty=%ct) && + uv build --sdist + + - name: Upload sdist as artifact + uses: actions/upload-artifact@v7 + with: + name: dist-sdist + path: dist + + - name: Check for packaging errors + run: uvx twine check --strict dist/* + + wheels: + strategy: + fail-fast: false + matrix: + os: [ubuntu-latest, windows-latest, macos-15-intel] + python: [cp311, cp312, cp313, cp314] + + include: + # Put results files in the project directory for mac + - os: macos-15-intel + results_file: "{project}/dist/pytest-results.xml" + # And for windows + - os: windows-latest + results_file: "{project}/dist/pytest-results.xml" + # But put results files in the output dir mounted in docker for linux + - os: ubuntu-latest + results_file: /output/pytest-results.xml + + name: wheels/${{ matrix.os }}/${{ matrix.python }} + runs-on: ${{ matrix.os }} + + steps: + - name: Checkout + uses: actions/checkout@v7 + with: + # Need this to get version number from last tag + fetch-depth: 0 + # iocStats is needed to build the extension + submodules: true + + - name: Build and test wheel + uses: pypa/cibuildwheel@v4.3.5 + with: + output-dir: dist + env: + CIBW_BUILD: ${{ matrix.python }}*64 + CIBW_TEST_GROUPS: dev + # Added a sleep command afterwards to let all cleanup finish; sometimes + # cibuildwheel reports it cannot clean up the temp dir used for testing, + # and fails the build. Sleeping seems to give pytest enough time to + # fully clean up. + CIBW_TEST_COMMAND: pytest {project}/tests --junit-xml=${{ matrix.results_file }} && sleep 2 + # Run with faulthandler and -s in the hope we get a stack trace on seg fault on windows... + CIBW_TEST_COMMAND_WINDOWS: python -X faulthandler -m pytest -s {project}/tests --junit-xml=${{ matrix.results_file }} + # Disable auditwheel as it isn't compatible with setuptools_dso approach + # https://github.com/mdavidsaver/setuptools_dso/issues/17 + CIBW_REPAIR_WHEEL_COMMAND: "" + CIBW_MANYLINUX_X86_64_IMAGE: manylinux_2_28 + CIBW_ENVIRONMENT_LINUX: SETUPTOOLS_DSO_PLAT_NAME=manylinux2014_x86_64 + # epicscorelibs doesn't build on musllinux platforms + # Ensure we never use free-threaded variants, as we (and our EPICS python dependencies) do not support it + CIBW_SKIP: "*-musllinux* cp3??t-*" + + - name: Upload wheel as artifact + uses: actions/upload-artifact@v7 + with: + name: dist-${{ matrix.os }}-${{ matrix.python }} + path: dist/softioc* + + test-sdist: + needs: [sdist] + strategy: + fail-fast: false + matrix: + os: [ubuntu-latest, windows-latest, macos-15-intel] + python: ["3.11", "3.12", "3.13", "3.14"] + + runs-on: ${{ matrix.os }} + + steps: + - name: Download sdist artifact + uses: actions/download-artifact@v8 + with: + name: dist-sdist + path: dist + + - name: Install uv + uses: astral-sh/setup-uv@v10.3.2 + + - name: Install sdist in a venv and check cli works + run: uvx --python ${{ matrix.python }} --from "$(ls dist/*.tar.gz)" pythonSoftIOC --version + shell: bash diff --git a/.github/workflows/_docs.yml b/.github/workflows/_docs.yml new file mode 100644 index 00000000..bd8865a6 --- /dev/null +++ b/.github/workflows/_docs.yml @@ -0,0 +1,57 @@ +on: + workflow_call: + + +jobs: + build: + runs-on: ubuntu-latest + + steps: + - name: Avoid git conflicts when tag and branch pushed at same time + if: github.ref_type == 'tag' + run: sleep 60 + + - name: Checkout + uses: actions/checkout@v7 + with: + # Need this to get version number from last tag + fetch-depth: 0 + # iocStats is needed to build the extension + submodules: true + + - name: Install system packages + run: sudo apt-get install graphviz + + - name: Install uv + uses: astral-sh/setup-uv@v10.3.2 + + - name: Build docs + run: uv run --locked tox -e docs + + - name: Remove environment.pickle + run: rm build/html/.doctrees/environment.pickle + + - name: Upload built docs artifact + uses: actions/upload-artifact@v7 + with: + name: docs + path: build + + - name: Sanitize ref name for docs version + run: echo "DOCS_VERSION=${GITHUB_REF_NAME//[^A-Za-z0-9._-]/_}" >> $GITHUB_ENV + + - name: Move to versioned directory + run: mv build/html .github/pages/$DOCS_VERSION + + - name: Write switcher.json + run: python .github/pages/make_switcher.py --add $DOCS_VERSION ${{ github.repository }} .github/pages/switcher.json + + - name: Publish Docs to gh-pages + if: github.ref_type == 'tag' || github.ref_name == 'master' + # We pin to the SHA, not the tag, for security reasons. + # https://docs.github.com/en/actions/learn-github-actions/security-hardening-for-github-actions#using-third-party-actions + uses: peaceiris/actions-gh-pages@84c30a85c19949d7eee79c4ff27748b70285e453 # v4.1.0 + with: + github_token: ${{ secrets.GITHUB_TOKEN }} + publish_dir: .github/pages + keep_files: true diff --git a/.github/workflows/_pypi.yml b/.github/workflows/_pypi.yml new file mode 100644 index 00000000..951e4203 --- /dev/null +++ b/.github/workflows/_pypi.yml @@ -0,0 +1,22 @@ +on: + workflow_call: + +jobs: + upload: + runs-on: ubuntu-latest + environment: release + + steps: + - name: Download sdist and wheel artifacts + uses: actions/download-artifact@v8 + with: + pattern: dist-* + path: dist + merge-multiple: true + + - name: Publish to PyPI using trusted publishing + uses: pypa/gh-action-pypi-publish@release/v1 + with: + attestations: false + # Use the pypi_token secret if set, otherwise trusted publishing + password: ${{ secrets.pypi_token }} diff --git a/.github/workflows/_release.yml b/.github/workflows/_release.yml new file mode 100644 index 00000000..59b92929 --- /dev/null +++ b/.github/workflows/_release.yml @@ -0,0 +1,32 @@ +on: + workflow_call: + +jobs: + artifacts: + runs-on: ubuntu-latest + + steps: + - name: Download artifacts + uses: actions/download-artifact@v8 + with: + merge-multiple: true + + - name: Zip up docs + run: | + set -vxeuo pipefail + if [ -d html ]; then + mv html $GITHUB_REF_NAME + zip -r docs.zip $GITHUB_REF_NAME + rm -rf $GITHUB_REF_NAME + fi + + - name: Create GitHub Release + # We pin to the SHA, not the tag, for security reasons. + # https://docs.github.com/en/actions/learn-github-actions/security-hardening-for-github-actions#using-third-party-actions + uses: softprops/action-gh-release@efb35369e0ad2afab669f228072c1b0d510eae64 # v3.0.3 + with: + prerelease: ${{ contains(github.ref_name, 'a') || contains(github.ref_name, 'b') || contains(github.ref_name, 'rc') }} + files: "*" + generate_release_notes: true + env: + GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} diff --git a/.github/workflows/_test.yml b/.github/workflows/_test.yml new file mode 100644 index 00000000..a8ea1331 --- /dev/null +++ b/.github/workflows/_test.yml @@ -0,0 +1,35 @@ +on: + workflow_call: + inputs: + python-version: + type: string + description: The version of python to install, default is from .python-version file + default: "" + runs-on: + type: string + description: The runner to run this job on + required: true + +env: + # https://github.com/pytest-dev/pytest/issues/2042 + PY_IGNORE_IMPORTMISMATCH: "1" + UV_PYTHON: ${{ inputs.python-version }} + +jobs: + run: + runs-on: ${{ inputs.runs-on }} + + steps: + - name: Checkout + uses: actions/checkout@v7 + with: + # Need this to get version number from last tag + fetch-depth: 0 + # iocStats is needed to build the extension + submodules: true + + - name: Install uv + uses: astral-sh/setup-uv@v10.3.2 + + - name: Run tests + run: uv run --locked tox -e tests diff --git a/.github/workflows/_tox.yml b/.github/workflows/_tox.yml new file mode 100644 index 00000000..668e44d1 --- /dev/null +++ b/.github/workflows/_tox.yml @@ -0,0 +1,25 @@ +on: + workflow_call: + inputs: + tox: + type: string + description: What to run under tox + required: true + + +jobs: + run: + runs-on: "ubuntu-latest" + + steps: + - name: Checkout + uses: actions/checkout@v7 + with: + # iocStats is needed to build the extension + submodules: true + + - name: Install uv + uses: astral-sh/setup-uv@v10.3.2 + + - name: Run tox + run: uv run --locked tox -e ${{ inputs.tox }} diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml new file mode 100644 index 00000000..4f379827 --- /dev/null +++ b/.github/workflows/ci.yml @@ -0,0 +1,52 @@ +name: CI + +on: + push: + branches: + - master + tags: + - '*' + pull_request: + merge_group: + +jobs: + + lint: + uses: ./.github/workflows/_tox.yml + with: + tox: pre-commit,type-checking + + test: + strategy: + matrix: + runs-on: ["ubuntu-latest"] # can add windows-latest, macos-latest + python-version: ["3.11", "3.12", "3.13", "3.14"] + fail-fast: false + uses: ./.github/workflows/_test.yml + with: + runs-on: ${{ matrix.runs-on }} + python-version: ${{ matrix.python-version }} + + docs: + uses: ./.github/workflows/_docs.yml + permissions: + contents: write + + dist: + uses: ./.github/workflows/_dist.yml + + pypi: + needs: [dist, test] + if: github.ref_type == 'tag' + uses: ./.github/workflows/_pypi.yml + permissions: + id-token: write + # Pass the pypi_token secret through, if it is unset trusted publishing is used + secrets: inherit + + release: + needs: [dist, test, docs] + if: github.ref_type == 'tag' + uses: ./.github/workflows/_release.yml + permissions: + contents: write diff --git a/.github/workflows/code.yml b/.github/workflows/code.yml deleted file mode 100644 index 4038c3b9..00000000 --- a/.github/workflows/code.yml +++ /dev/null @@ -1,211 +0,0 @@ -name: Code CI - -on: - push: - branches: - - master - - main - tags: - - "*" - pull_request: - schedule: - # Run every Monday at 8am - - cron: '0 8 * * MON' - -jobs: - lint: - runs-on: "ubuntu-latest" - steps: - - name: Checkout Source - uses: actions/checkout@v4 - - - name: Install Python - uses: actions/setup-python@v4 - with: - python-version: "3.12" - - - name: Install Python Dependencies - run: pip install flake8 - - - name: Lint - run: flake8 - - sdist: - runs-on: "ubuntu-latest" - steps: - - name: Checkout Source - uses: actions/checkout@v4 - with: - # require history to get back to last tag for version number of branches - fetch-depth: 0 - submodules: true - - - name: Build Sdist - run: pipx run build --sdist . - - - name: Upload Sdist - uses: actions/upload-artifact@v4 - with: - name: dist - path: dist/* - - build: - strategy: - fail-fast: false - matrix: - os: [ubuntu-latest, windows-latest, macos-15-intel] - python: [cp37, cp38, cp39, cp310, cp311, cp312, cp313, cp314] - - - include: - # Put results files in the project directory for mac - - os: macos-15-intel - results_file: "{project}/dist/pytest-results.xml" - # And for windows - - os: windows-latest - results_file: "{project}/dist/pytest-results.xml" - # But put results files in the output dir mounted in docker for linux - - os: ubuntu-latest - results_file: /output/pytest-results.xml - - exclude: - # Exclude Windows + Python 3.9 as p4p can't build there, due to numpy bug #27224 - # which was never ported back to the 2.0.* numpy release stream. - - os: windows-latest - python: cp39 - - name: build/${{ matrix.os }}/${{ matrix.python }} - runs-on: ${{ matrix.os }} - - steps: - - name: Checkout Source - uses: actions/checkout@v4 - with: - # require history to get back to last tag for version number of branches - fetch-depth: 0 - submodules: true - - - name: Install Python - uses: actions/setup-python@v4 - with: - python-version: "3.12" - - - name: Install Python Dependencies - # cibuildwheel 3.0.0 dropped support for Python 3.7. We still want to - # support 3.7 for the time being. - # Python 3.14 isn't supported on lower versions of cibuildwheel, so conditionally install when required - run: | - pip install build - [ ${{matrix.python }} == "cp314" ] && pip install cibuildwheel || pip install cibuildwheel==2.23.4 - pip freeze - shell: bash - - - name: Build Wheel - run: cibuildwheel --output-dir dist - env: - CIBW_BUILD: ${{ matrix.python }}*64 - CIBW_TEST_EXTRAS: dev - # Added a sleep command afterwards to let all cleanup finish; sometimes - # cibuildwheel reports it cannot clean up the temp dir used for testing, - # and fails the build. Sleeping seems to give pytest enough time to - # fully clean up. - CIBW_TEST_COMMAND: pytest {project}/tests --junit-xml=${{ matrix.results_file }} && sleep 2 - # Run with faulthandler and -s in the hope we get a stack trace on seg fault on windows... - CIBW_TEST_COMMAND_WINDOWS: python -X faulthandler -m pytest -s {project}/tests --junit-xml=${{ matrix.results_file }} - # Disable auditwheel as it isn't compatible with setuptools_dso approach - # https://github.com/mdavidsaver/setuptools_dso/issues/17 - CIBW_REPAIR_WHEEL_COMMAND: "" - CIBW_MANYLINUX_X86_64_IMAGE: manylinux_2_28 - CIBW_ENVIRONMENT_LINUX: SETUPTOOLS_DSO_PLAT_NAME=manylinux2014_x86_64 - # epicscorelibs doesn't build on musllinux platforms - # Ensure we never use free-threaded variants, as we (and our EPICS python dependencies) do not support it - CIBW_SKIP: "*-musllinux* cp3??t-*" - - - name: Upload Wheel - uses: actions/upload-artifact@v4 - with: - name: dist-${{ matrix.os }}-${{ matrix.python }} - path: dist/softioc* - - test-sdist: - needs: [sdist] - strategy: - fail-fast: false - matrix: - os: [ubuntu-latest, windows-latest, macos-15-intel] - python: [cp37, cp38, cp39, cp310, cp311, cp312, cp313, cp314] - - exclude: - # Exclude Windows + Python 3.9 as p4p can't build there, due to numpy bug #27224 - # which was never ported back to the 2.0.* numpy release stream. - - os: windows-latest - python: cp39 - - runs-on: ${{ matrix.os }} - - steps: - - uses: actions/download-artifact@v4 - with: - name: dist - path: dist - - - name: Install sdist in a venv and check cli works - run: pipx run --spec dist/*.tar.gz pythonSoftIOC --version - shell: bash - - release: - needs: [build, sdist] - runs-on: ubuntu-latest - # upload to PyPI and make a release on every tag - if: github.event_name == 'push' && startsWith(github.event.ref, 'refs/tags') - steps: - - uses: actions/download-artifact@v4 - with: - pattern: dist* - path: dist - merge-multiple: true - - - name: Github Release - # We pin to the SHA, not the tag, for security reasons. - # https://docs.github.com/en/actions/learn-github-actions/security-hardening-for-github-actions#using-third-party-actions - uses: softprops/action-gh-release@2d72d869af3bf23602f9593a1e3fd739b80ac1eb # v0.1.12 - with: - files: dist/* - body: See [Changelog](CHANGELOG.rst) for more details - env: - GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} - - - name: Publish to PyPI - env: - TWINE_USERNAME: __token__ - TWINE_PASSWORD: ${{ secrets.pypi_token }} - run: pipx run twine upload dist/* - - # Check that the master branches of various upstream dependencies are - # still compatible when used together - master_branch_test: - if: ${{ github.event_name == 'schedule' }} - runs-on: "ubuntu-latest" - steps: - - name: Checkout Source - uses: actions/checkout@v4 - with: - # require history to get back to last tag for version number of branches - fetch-depth: 0 - submodules: true - - - name: Install Python - uses: actions/setup-python@v4 - with: - python-version: "3.12" - - - name: Install master versions - run: | - pip install --pre git+https://github.com/epics-base/p4p.git git+https://github.com/epics-base/pvxs.git git+https://github.com/epics-base/epicscorelibs.git - pip install --pre git+https://github.com/DiamondLightSource/aioca git+https://github.com/DiamondLightSource/cothread - pip install -e .[dev] - pip freeze - - - name: Run tests - run: | - python -m pytest diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml deleted file mode 100644 index 7e03ac8a..00000000 --- a/.github/workflows/docs.yml +++ /dev/null @@ -1,51 +0,0 @@ -name: Docs CI - -on: - push: - branches: - # Add more branches here to publish docs from other branches - - master - - main - tags: - - "*" - pull_request: - -jobs: - build: - name: "Docs CI" - runs-on: ubuntu-22.04 - - steps: - - name: Checkout Source - uses: actions/checkout@v2 - with: - # require history to get back to last tag for version number of branches - fetch-depth: 0 - submodules: true - - - name: Set up Python - uses: actions/setup-python@v2 - with: - python-version: "3.7" - - - name: Install Python Dependencies - run: | - pip install pipenv - pipenv install --dev --deploy --python $(which python) && pipenv graph - - - name: Build Docs - run: pipenv run docs - - - name: Move to versioned directory - # e.g. master or 0.1.2 - run: mv build/html ".github/pages/${GITHUB_REF##*/}" - - - name: Publish Docs to gh-pages - if: github.ref_type == 'tag' || github.ref_name == 'main' || github.ref_name == 'master' - # We pin to the SHA, not the tag, for security reasons. - # https://docs.github.com/en/actions/learn-github-actions/security-hardening-for-github-actions#using-third-party-actions - uses: peaceiris/actions-gh-pages@4f9cc6602d3f66b9c108549d475ec49e8ef4d45e # v4.0.0 - with: - github_token: ${{ secrets.GITHUB_TOKEN }} - publish_dir: .github/pages - keep_files: true diff --git a/.github/workflows/periodic.yml b/.github/workflows/periodic.yml new file mode 100644 index 00000000..b5cc8ceb --- /dev/null +++ b/.github/workflows/periodic.yml @@ -0,0 +1,45 @@ +name: Periodic + +on: + workflow_dispatch: + schedule: + # Run weekly to check URL links still resolve + - cron: "0 8 * * WED" + +jobs: + linkcheck: + uses: ./.github/workflows/_tox.yml + with: + tox: docs -- -b linkcheck + + # Check that the master branches of various upstream dependencies are + # still compatible when used together + master_branch_test: + runs-on: "ubuntu-latest" + steps: + - name: Checkout + uses: actions/checkout@v7 + with: + # Need this to get version number from last tag + fetch-depth: 0 + # iocStats is needed to build the extension + submodules: true + + - name: Install uv + uses: astral-sh/setup-uv@v10.3.2 + + - name: Install master versions + run: | + uv venv + uv pip install --pre setuptools setuptools_scm setuptools_dso \ + git+https://github.com/epics-base/p4p.git \ + git+https://github.com/epics-base/pvxs.git \ + git+https://github.com/epics-base/epicscorelibs.git \ + git+https://github.com/DiamondLightSource/aioca \ + git+https://github.com/DiamondLightSource/cothread + # Build against the master epicscorelibs installed above + uv pip install --no-build-isolation -e . --group dev + uv pip freeze + + - name: Run tests + run: uv run --no-sync pytest diff --git a/.gitignore b/.gitignore index e3f4aeda..c4f0aed5 100644 --- a/.gitignore +++ b/.gitignore @@ -22,6 +22,7 @@ var/ *.egg-info/ .installed.cfg *.egg +**/_version.py # PyInstaller # Usually these files are written by a python script from a template @@ -41,16 +42,33 @@ htmlcov/ .cache nosetests.xml coverage.xml -*,cover -*.mypy_cache -*.pytest_cache cov.xml +.pytest_cache/ +.mypy_cache/ -# DLS build dir and virtual environment -/prefix/ -/venv/ -/lightweight-venv/ -/installed.files +# Translations +*.mo +*.pot + +# Django stuff: +*.log + +# Sphinx documentation +docs/_build/ +docs/_api + +# PyBuilder +target/ + +# likely venv names +.venv* +venv* + +# further build artifacts +lockfiles/ + +# ruff cache +.ruff_cache/ # Docs output /docs/papers/*/*.aux @@ -61,10 +79,6 @@ cov.xml /docs/papers/*/*.toc /docs/papers/*/*.vrb -# setup.py develop (via pipenv install) places this link here -# so editable installs work. Related: +# setup.py develop places this link here so editable installs work. Related: # https://github.com/mdavidsaver/setuptools_dso/issues/11 /epicscorelibs - -# VSCode -/.vscode/*.log diff --git a/.gitleaks.toml b/.gitleaks.toml new file mode 100644 index 00000000..9ecf1248 --- /dev/null +++ b/.gitleaks.toml @@ -0,0 +1,19 @@ +# This allow-list is limited to YAML/YML files to cut down SealedSecrets false positives. +# All gitleaks default rules still apply everywhere (useDefault = true). +# To broaden this allow-list to all files, comment out the 'paths' line below. + +[extend] +useDefault = true + +[[rules]] +id = "generic-api-key" + +# Pattern-only allowlist for long Ag… tokens in YAML +[[rules.allowlists]] +condition = "AND" +regexes = [ + # Boundary-safe Ag… token without lookarounds (RE2-safe) + '''(?:^|[^A-Za-z0-9+/=])(Ag[A-Za-z0-9+/]{500,}={0,2})(?:[^A-Za-z0-9+/=]|$)''' +] +# Limit to YAML only for now. Comment this out if you want it to apply everywhere. +paths = ['''(?i).*\.ya?ml$'''] diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml new file mode 100644 index 00000000..edaa46b6 --- /dev/null +++ b/.pre-commit-config.yaml @@ -0,0 +1,35 @@ +repos: + - repo: https://github.com/pre-commit/pre-commit-hooks + rev: v6.0.0 + hooks: + - id: check-added-large-files + exclude: ^uv.lock + - id: check-yaml + - id: check-merge-conflict + - id: end-of-file-fixer + # Leave test data files unchanged + exclude: ^tests/graph\.edl$ + + - repo: local + hooks: + - id: ruff + name: lint with ruff + language: system + entry: ruff check --force-exclude --fix + types: [python] + require_serial: true + + # The template's ruff-format hook is omitted: the codebase is not + # formatted with ruff + + - id: uv-sync + name: update uv.lock and venv + pass_filenames: false + language: system + entry: uv sync + files: ^(uv\.lock|pyproject\.toml)$ + + - repo: https://github.com/gitleaks/gitleaks + rev: v8.30.1 + hooks: + - id: gitleaks diff --git a/.python-version b/.python-version new file mode 100644 index 00000000..2c073331 --- /dev/null +++ b/.python-version @@ -0,0 +1 @@ +3.11 diff --git a/.vscode/extensions.json b/.vscode/extensions.json index fee986e8..933c580c 100644 --- a/.vscode/extensions.json +++ b/.vscode/extensions.json @@ -1,7 +1,5 @@ { "recommendations": [ - "ms-python.vscode-pylance", - "ms-python.python", - "ryanluker.vscode-coverage-gutters" + "ms-vscode-remote.remote-containers", ] } diff --git a/.vscode/launch.json b/.vscode/launch.json index 39175105..7d563e00 100644 --- a/.vscode/launch.json +++ b/.vscode/launch.json @@ -4,17 +4,9 @@ // For more information, visit: https://go.microsoft.com/fwlink/?linkid=830387 "version": "0.2.0", "configurations": [ - { - "name": "Python: Current File", - "type": "python", - "request": "launch", - "program": "${file}", - "console": "integratedTerminal", - "justMyCode": false, - }, { "name": "Debug Unit Test", - "type": "python", + "type": "debugpy", "request": "launch", "justMyCode": false, "program": "${file}", @@ -22,12 +14,6 @@ "debug-test" ], "console": "integratedTerminal", - "env": { - // The default config in setup.cfg's "[tool:pytest]" adds coverage. - // Cannot have coverage and debugging at the same time. - // https://github.com/microsoft/vscode-python/issues/693 - "PYTEST_ADDOPTS": "--no-cov" - }, } ] -} \ No newline at end of file +} diff --git a/.vscode/settings.json b/.vscode/settings.json index f21c98de..101c75fa 100644 --- a/.vscode/settings.json +++ b/.vscode/settings.json @@ -1,12 +1,12 @@ { - "editor.defaultFormatter": "ms-python.python", - "python.linting.pylintEnabled": false, - "python.linting.flake8Enabled": true, - "python.linting.enabled": true, - "python.testing.pytestArgs": [], "python.testing.unittestEnabled": false, "python.testing.pytestEnabled": true, - "python.languageServer": "Pylance", - "files.trimTrailingWhitespace": true, - "files.trimFinalNewlines": true, + "editor.formatOnSave": true, + "editor.codeActionsOnSave": { + "source.organizeImports": "explicit" + }, + "files.insertFinalNewline": true, + "[python]": { + "editor.defaultFormatter": "charliermarsh.ruff", + }, } diff --git a/.vscode/tasks.json b/.vscode/tasks.json index 82fa1ae6..c999e864 100644 --- a/.vscode/tasks.json +++ b/.vscode/tasks.json @@ -5,8 +5,8 @@ "tasks": [ { "type": "shell", - "label": "Tests with coverage", - "command": "pipenv run tests", + "label": "Tests, lint and docs", + "command": "tox -p", "options": { "cwd": "${workspaceRoot}" }, diff --git a/CHANGELOG.rst b/CHANGELOG.rst index 8d133aad..1bb06b6e 100644 --- a/CHANGELOG.rst +++ b/CHANGELOG.rst @@ -10,7 +10,19 @@ Versioning `_. Unreleased_ ----------- -Nothing yet! +Changed: + +- Adopt the `python-copier-template`_: pyproject.toml metadata, uv.lock + instead of Pipfile, ruff instead of flake8, pyright, pre-commit, tox, + pydata-sphinx-theme docs and a reusable-workflow CI layout. Wheels are + still built and tested with cibuildwheel. +- Version numbers are now calculated by setuptools_scm. + +Removed: + +- Support for Python 3.7 to 3.10. Python 3.11 or later is now required. + +.. _python-copier-template: https://github.com/DiamondLightSource/python-copier-template 4.7.2_ - 2026-09-11 ------------------- diff --git a/CONTRIBUTING.rst b/CONTRIBUTING.rst index d90071b8..d166f0a6 100644 --- a/CONTRIBUTING.rst +++ b/CONTRIBUTING.rst @@ -16,12 +16,23 @@ Running the tests To get the source source code and run the unit tests, run:: - $ git clone git://github.com/DiamondLightSource/pythonSoftIoc.git - $ cd pythonSoftIoc - $ git submodule init - $ git submodule update - $ pipenv install --dev - $ pipenv run tests + $ git clone --recurse-submodules https://github.com/DiamondLightSource/pythonSoftIOC.git + $ cd pythonSoftIOC + $ uv sync + $ uv run tox -e tests + +``uv sync`` builds the extension and installs it, with the ``dev`` dependency +group, into a virtual environment. ``uv run tox -p`` runs the tests, lint, type +checking and docs build in parallel. + +This project was created using the `python-copier-template`_; its +`how-to guides`_ describe common tasks such as setting up a developer +environment and installing the pre-commit hooks. + +.. _python-copier-template: + https://github.com/DiamondLightSource/python-copier-template +.. _how-to guides: + https://diamondlightsource.github.io/python-copier-template/5.5.0/how-to.html While 100% code coverage does not make a library bug-free, it significantly reduces the number of easily caught bugs! Please make sure coverage remains the @@ -36,22 +47,23 @@ C files and built libraries. If it is necessary to update any of them, the safest way to do that is:: $ Ensure all changes are committed/saved/backed up - $ pipenv run gitclean - $ pipenv --rm - $ rm Pipfile.lock - $ Update dependencies in setup.cfg / pyproject.toml - $ pipenv install --dev + $ git clean -fdX + $ Update dependencies in pyproject.toml / setup.py + $ uv lock --upgrade + $ uv sync Code Styling ------------ The code in this repository conforms to standards set by the following tools: -- flake8_ for style checks +- ruff_ for style checks +- pyright_ for type checks -.. _flake8: http://flake8.pycqa.org/en/latest/ +.. _ruff: https://docs.astral.sh/ruff/ +.. _pyright: https://microsoft.github.io/pyright/ -These tests will be run on code when running ``pipenv run tests`` and also +These are run by ``uv run tox -e pre-commit,type-checking`` and also automatically at check in. Please read the tool documentation for details on how to fix the errors it reports. @@ -75,7 +87,7 @@ Docs follow the underlining convention:: You can build the docs from the project directory by running:: - $ pipenv run docs + $ uv run tox -e docs $ firefox build/html/index.html @@ -90,5 +102,4 @@ To make a new release, please follow this checklist: - Push to github and the actions will make a release on pypi - Push to internal gitlab but do not release from there - Run ``dls-py3 download-one-dependency softioc `` -- Run ``cp Pipfile.lock /dls_sw/work/python3/RHEL7-x86_64/distributions/softioc-.Pipfile.lock`` - Run ``dls-release.py -a python3ext softioc `` diff --git a/Dockerfile b/Dockerfile new file mode 100644 index 00000000..7b1d7345 --- /dev/null +++ b/Dockerfile @@ -0,0 +1,8 @@ +# The devcontainer should use the developer target and run as root with podman +# or docker with user namespaces. +FROM ghcr.io/diamondlightsource/ubuntu-devcontainer:resolute AS developer + +# Add any system dependencies for the developer/build environment here +RUN apt-get update -y && apt-get install -y --no-install-recommends \ + graphviz \ + && apt-get dist-clean diff --git a/README.rst b/README.rst index 735dad85..7b3e70db 100644 --- a/README.rst +++ b/README.rst @@ -1,7 +1,7 @@ pythonSoftIOC ============= -|code_ci| |docs_ci| |coverage| |pypi_version| |license| +|ci| |coverage| |pypi_version| |license| This module allows an EPICS IOC with Python Device Support to be run from within @@ -47,13 +47,9 @@ A simple example of the use of this library: # Finally leave the IOC running with an interactive shell. softioc.interactive_ioc(globals()) -.. |code_ci| image:: https://github.com/DiamondLightSource/pythonSoftIOC/workflows/Code%20CI/badge.svg?branch=master - :target: https://github.com/DiamondLightSource/pythonSoftIOC/actions?query=workflow%3A%22Code+CI%22 - :alt: Code CI - -.. |docs_ci| image:: https://github.com/DiamondLightSource/pythonSoftIOC/workflows/Docs%20CI/badge.svg?branch=master - :target: https://github.com/DiamondLightSource/pythonSoftIOC/actions?query=workflow%3A%22Docs+CI%22 - :alt: Docs CI +.. |ci| image:: https://github.com/DiamondLightSource/pythonSoftIOC/actions/workflows/ci.yml/badge.svg?branch=master + :target: https://github.com/DiamondLightSource/pythonSoftIOC/actions/workflows/ci.yml + :alt: CI .. |coverage| image:: https://codecov.io/gh/DiamondLightSource/pythonSoftIOC/branch/master/graph/badge.svg :target: https://codecov.io/gh/DiamondLightSource/pythonSoftIOC diff --git a/catalog-info.yaml b/catalog-info.yaml new file mode 100644 index 00000000..ec82c2fc --- /dev/null +++ b/catalog-info.yaml @@ -0,0 +1,10 @@ +apiVersion: backstage.io/v1alpha1 +kind: Component +metadata: + name: softioc + title: pythonSoftIOC + description: Embed an EPICS IOC in a Python process +spec: + type: library + lifecycle: production + owner: group:default/accelerator-controls diff --git a/docs/_templates/custom-module-template.rst b/docs/_templates/custom-module-template.rst new file mode 100644 index 00000000..9aeca540 --- /dev/null +++ b/docs/_templates/custom-module-template.rst @@ -0,0 +1,37 @@ +{{ ('``' + fullname + '``') | underline }} + +{%- set filtered_members = [] %} +{%- for item in members %} + {%- if item in functions + classes + exceptions + attributes %} + {% set _ = filtered_members.append(item) %} + {%- endif %} +{%- endfor %} + +.. automodule:: {{ fullname }} + :members: + + {% block modules %} + {% if modules %} + .. rubric:: Submodules + + .. autosummary:: + :toctree: + :template: custom-module-template.rst + :recursive: + {% for item in modules %} + {{ item }} + {%- endfor %} + {% endif %} + {% endblock %} + + {% block members %} + {% if filtered_members %} + .. rubric:: Members + + .. autosummary:: + :nosignatures: + {% for item in filtered_members %} + {{ item }} + {%- endfor %} + {% endif %} + {% endblock %} diff --git a/docs/conf.py b/docs/conf.py index 23c31d99..8b1af3f0 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -1,47 +1,61 @@ -# -# Python Soft IOC documentation build configuration file, created by -# sphinx-quickstart on Fri May 14 13:06:33 2010. -# -# This file is execfile()d with the current directory set to its containing dir. -# -# Note that not all possible configuration values are present in this -# autogenerated file. -# -# All configuration values have a default; values that are commented out -# serve to show the default. +"""Configuration file for the Sphinx documentation builder. + +This file only contains a selection of the most common options. For a full +list see the documentation: +https://www.sphinx-doc.org/en/master/usage/configuration.html +""" + +import sys +from pathlib import Path +from subprocess import check_output + +import requests import softioc +# -- General configuration ------------------------------------------------ + # General information about the project. -project = u'pythonSoftIOC' -copyright = u'2008, Diamond Light Source' -author = 'Michael Abbott' +project = "pythonSoftIOC" +copyright = "2008, Diamond Light Source" +author = "Michael Abbott" # The full version, including alpha/beta/rc tags. release = softioc.__version__ # The short X.Y version. -if '+' in release: - # Not on a tag - version = 'master' +if "+" in release: + # Not on a tag, use branch name + root = Path(__file__).absolute().parent.parent + git_branch = check_output("git branch --show-current".split(), cwd=root) + version = git_branch.decode().strip() else: version = release -# -- General configuration ----------------------------------------------------- - -# Add any Sphinx extension module names here, as strings. They can be extensions -# coming with Sphinx (named 'sphinx.ext.*') or your custom ones. extensions = [ # Use this for generating API docs - 'sphinx.ext.autodoc', + "sphinx.ext.autodoc", + # and making summary tables at the top of API docs + "sphinx.ext.autosummary", # This can parse google style docstrings - 'sphinx.ext.napoleon', + "sphinx.ext.napoleon", # For linking to external sphinx documentation - 'sphinx.ext.intersphinx', + "sphinx.ext.intersphinx", # Add links to source code in API docs - 'sphinx.ext.viewcode', + "sphinx.ext.viewcode", + # Adds the inheritance-diagram generation directive + "sphinx.ext.inheritance_diagram", + # Add a copy button to each code block + "sphinx_copybutton", + # For the card element + "sphinx_design", + # So we can write markdown files + "myst_parser", ] +# So we can use the ::: syntax +myst_enable_extensions = ["colon_fence"] + # If true, Sphinx will warn about all references where the target cannot # be found. nitpicky = True @@ -50,67 +64,132 @@ # generating warnings in "nitpicky mode". Note that type should include the # domain name if present. Example entries would be ('py:func', 'int') or # ('envvar', 'LD_LIBRARY_PATH'). -nitpick_ignore = [('py:func', 'int')] +nitpick_ignore = [ + ("py:class", "NoneType"), + ("py:class", "'str'"), + ("py:class", "'float'"), + ("py:class", "'int'"), + ("py:class", "'bool'"), + ("py:class", "'object'"), + ("py:class", "'id'"), + ("py:class", "typing_extensions.Literal"), + ("py:func", "int"), +] # Both the class’ and the __init__ method’s docstring are concatenated and # inserted into the main body of the autoclass directive -autoclass_content = 'both' +autoclass_content = "both" # Order the members by the order they appear in the source code -autodoc_member_order = 'bysource' +autodoc_member_order = "bysource" # Don't inherit docstrings from baseclasses autodoc_inherit_docstrings = False -# The name of a reST role (builtin or Sphinx extension) to use as the default -# role, that is, for text marked up `like this` -default_role = 'any' +# Document only what is in __all__ +autosummary_ignore_module_all = False # Add any paths that contain templates here, relative to this directory. -templates_path = ['_templates'] +templates_path = ["_templates"] + +# Output graphviz directive produced images in a scalable format +graphviz_output_format = "svg" -# The suffix of source filenames. -source_suffix = '.rst' +# The name of a reST role (builtin or Sphinx extension) to use as the default +# role, that is, for text marked up `like this` +default_role = "any" # The master toctree document. -master_doc = 'index' +master_doc = "index" -# List of directories, relative to source directory, that shouldn't be searched -# for source files. -exclude_trees = ['_build'] +# List of patterns, relative to source directory, that match files and +# directories to ignore when looking for source files. +# These patterns also affect html_static_path and html_extra_path +exclude_patterns = ["_build", "papers"] # The name of the Pygments (syntax highlighting) style to use. -pygments_style = 'sphinx' +pygments_style = "sphinx" # This means you can link things like `str` and `asyncio` to the relevant # docs in the python documentation. -intersphinx_mapping = dict( - python=('https://docs.python.org/3/', None), - cothread=( - "https://diamondlightsource.github.io/cothread/master/", None +intersphinx_mapping = { + "python": ("https://docs.python.org/3/", None), + "cothread": ("https://diamondlightsource.github.io/cothread/master/", None), + "aioca": ("https://DiamondLightSource.github.io/aioca/master/", None), + "epicsdbbuilder": ( + "https://DiamondLightSource.github.io/epicsdbbuilder/master/", + None, ), - aioca=("https://DiamondLightSource.github.io/aioca/master/", None), - epicsdbbuilder=( - "https://DiamondLightSource.github.io/epicsdbbuilder/master/", None) -) +} -# -- Options for HTML output --------------------------------------------------- +# A dictionary of graphviz graph attributes for inheritance diagrams. +inheritance_graph_attrs = {"rankdir": "TB"} -# The theme to use for HTML and HTML Help pages. Major themes that come with -# Sphinx are currently 'default' and 'sphinxdoc'. -try: - import sphinx_rtd_theme_github_versions - html_theme = 'sphinx_rtd_theme_github_versions' -except ImportError: - html_theme = 'default' +# Ignore localhost links for periodic check that links in docs are valid +linkcheck_ignore = [r"http://localhost:\d+/"] -# Options for the sphinx rtd theme, use DLS blue -html_theme_options = dict(style_nav_header_background='rgb(7, 43, 93)') +# Set copy-button to ignore python and bash prompts +# https://sphinx-copybutton.readthedocs.io/en/latest/use.html#using-regexp-prompt-identifiers +copybutton_prompt_text = r">>> |\.\.\. |\$ |In \[\d*\]: | {2,5}\.\.\.: | {5,8}: " +copybutton_prompt_is_regexp = True -# Add any paths that contain custom static files (such as style sheets) here, -# relative to this directory. They are copied after the builtin static files, -# so a file named "default.css" will overwrite the builtin "default.css". -html_static_path = ['_static'] +# -- Options for HTML output ------------------------------------------------- + +# The theme to use for HTML and HTML Help pages. See the documentation for +# a list of builtin themes. +# +html_theme = "pydata_sphinx_theme" +github_repo = "pythonSoftIOC" +github_user = "DiamondLightSource" +switcher_json = f"https://{github_user}.github.io/{github_repo}/switcher.json" +switcher_exists = requests.get(switcher_json).ok +if not switcher_exists: + print( + "*** Can't read version switcher, is GitHub pages enabled? \n" + " Once Docs CI job has successfully run once, set the " + "Github pages source branch to be 'gh-pages' at:\n" + f" https://github.com/{github_user}/{github_repo}/settings/pages", + file=sys.stderr, + ) + +# Theme options for pydata_sphinx_theme +# We don't check switcher because there are 3 possible states for a repo: +# 1. New project, docs are not published so there is no switcher +# 2. Existing project with latest copier template, switcher exists and works +# 3. Existing project with old copier template that makes broken switcher, +# switcher exists but is broken +# Point 3 makes checking switcher difficult, because the updated copier template +# will fix the switcher at the end of the docs workflow, but never gets a chance +# to complete as the docs build warns and fails. +html_theme_options = { + "logo": { + "text": project, + }, + "use_edit_page_button": True, + "github_url": f"https://github.com/{github_user}/{github_repo}", + "icon_links": [ + { + "name": "PyPI", + "url": "https://pypi.org/project/softioc", + "icon": "fas fa-cube", + } + ], + "switcher": { + "json_url": switcher_json, + "version_match": version, + }, + "check_switcher": False, + "navbar_end": ["theme-switcher", "icon-links", "version-switcher"], + "navigation_with_keys": False, +} + +# A dictionary of values to pass into the template engine’s context for all pages +html_context = { + "github_user": github_user, + "github_repo": github_repo, + "github_version": version, + "doc_path": "docs", +} # If true, "Created using Sphinx" is shown in the HTML footer. Default is True. html_show_sphinx = False @@ -118,12 +197,17 @@ # If true, "(C) Copyright ..." is shown in the HTML footer. Default is True. html_show_copyright = True -# Add some CSS classes for columns and other tweaks in a custom css file -html_css_files = ['theme_overrides.css'] - # Logo -html_logo = 'images/softioc-logo.svg' -html_favicon = 'images/softioc-favicon.ico' +html_logo = "images/softioc-logo.svg" +html_favicon = "images/softioc-favicon.ico" + +# Add any paths that contain custom static files (such as style sheets) here, +# relative to this directory. They are copied after the builtin static files, +# so a file named "default.css" will overwrite the builtin "default.css". +html_static_path = ["_static"] + +# Add some CSS classes for columns and other tweaks in a custom css file +html_css_files = ["theme_overrides.css"] # Common links that should be available on every page rst_epilog = """ diff --git a/docs/explanations/asyncio-cothread-differences.rst b/docs/explanations/asyncio-cothread-differences.rst index 620cbabd..bfbe11ff 100644 --- a/docs/explanations/asyncio-cothread-differences.rst +++ b/docs/explanations/asyncio-cothread-differences.rst @@ -94,5 +94,3 @@ to mix `asyncio` and `cothread`, it's messy and tricky to get right. Better to keep to one if possible. .. _aio-libs: https://github.com/aio-libs - - diff --git a/docs/explanations/decisions.md b/docs/explanations/decisions.md new file mode 100644 index 00000000..0533b98d --- /dev/null +++ b/docs/explanations/decisions.md @@ -0,0 +1,12 @@ +# Architectural Decision Records + +Architectural decisions are made throughout a project's lifetime. As a way of keeping track of these decisions, we record these decisions in Architecture Decision Records (ADRs) listed below. + +```{toctree} +:glob: true +:maxdepth: 1 + +decisions/* +``` + +For more information on ADRs see this [blog by Michael Nygard](http://thinkrelevance.com/blog/2011/11/15/documenting-architecture-decisions). diff --git a/docs/explanations/decisions/0001-record-architecture-decisions.md b/docs/explanations/decisions/0001-record-architecture-decisions.md new file mode 100644 index 00000000..44d234ef --- /dev/null +++ b/docs/explanations/decisions/0001-record-architecture-decisions.md @@ -0,0 +1,18 @@ +# 1. Record architecture decisions + +## Status + +Accepted + +## Context + +We need to record the architectural decisions made on this project. + +## Decision + +We will use Architecture Decision Records, as [described by Michael Nygard](http://thinkrelevance.com/blog/2011/11/15/documenting-architecture-decisions). + +## Consequences + +See Michael Nygard's article, linked above. To create new ADRs we will copy and +paste from existing ones. diff --git a/docs/explanations/decisions/0002-switched-to-python-copier-template.md b/docs/explanations/decisions/0002-switched-to-python-copier-template.md new file mode 100644 index 00000000..66fe5d8b --- /dev/null +++ b/docs/explanations/decisions/0002-switched-to-python-copier-template.md @@ -0,0 +1,28 @@ +# 2. Adopt python-copier-template for project structure + +## Status + +Accepted + +## Context + +We should use the following [python-copier-template](https://github.com/DiamondLightSource/python-copier-template). +The template will ensure consistency in developer +environments and package management. + +## Decision + +We have switched to using the template. + +## Consequences + +This module will use a fixed set of tools as developed in `python-copier-template` +and can pull from this template to update the packaging to the latest techniques. + +As such, the developer environment may have changed, the following could be +different: + +- linting +- formatting +- pip venv setup +- CI/CD diff --git a/docs/explanations/decisions/COPYME b/docs/explanations/decisions/COPYME new file mode 100644 index 00000000..b466c792 --- /dev/null +++ b/docs/explanations/decisions/COPYME @@ -0,0 +1,19 @@ +# 3. Short descriptive title + +Date: Today's date + +## Status + +Accepted + +## Context + +Background to allow us to make the decision, to show how we arrived at our conclusions. + +## Decision + +What decision we made. + +## Consequences + +What we will do as a result of this decision. diff --git a/docs/how-to/make-publishable-ioc.rst b/docs/how-to/make-publishable-ioc.rst index 0ea26329..4508e4a4 100644 --- a/docs/how-to/make-publishable-ioc.rst +++ b/docs/how-to/make-publishable-ioc.rst @@ -32,4 +32,3 @@ To make the IOC publishable, a makefile is required: install: clean: - diff --git a/docs/index.rst b/docs/index.rst index b3f63861..3a222488 100644 --- a/docs/index.rst +++ b/docs/index.rst @@ -72,6 +72,7 @@ Table Of Contents explanations/why-use-pythonSoftIOC explanations/asyncio-cothread-differences + explanations/decisions .. toctree:: :caption: Reference diff --git a/docs/tutorials/installation.rst b/docs/tutorials/installation.rst index e0a48bab..efe1c708 100644 --- a/docs/tutorials/installation.rst +++ b/docs/tutorials/installation.rst @@ -4,7 +4,7 @@ Installation Tutorial .. note:: For installation inside DLS, please see the internal documentation on - ``dls-python3`` and ``pipenv``. Although these instructions will work + ``dls-python3``. Although these instructions will work inside DLS, they are intended for external use. If you want to contribute to the library itself, please following @@ -13,7 +13,7 @@ Installation Tutorial Check your version of python ---------------------------- -You will need python 3.7 or later. You can check your version of python by +You will need python 3.11 or later. You can check your version of python by typing into a terminal:: python3 --version @@ -43,7 +43,7 @@ the first tutorial:: If you require a feature that is not currently released you can also install from github:: - python3 -m pip install git+git://github.com/DiamondLightSource/pythonSoftIOC.git + python3 -m pip install git+https://github.com/DiamondLightSource/pythonSoftIOC.git The library should now be installed and the commandline interface on your path. You can check the version that has been installed by typing:: diff --git a/pyproject.toml b/pyproject.toml index f83a3dc9..fcf0b845 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,3 +1,237 @@ [build-system] -requires = ["setuptools", "wheel", "setuptools_dso>=2.1", "epicscorelibs>=7.0.7.99.1.1a3"] -build-backend = "setuptools.build_meta:__legacy__" +requires = [ + "setuptools>=64", + "setuptools_scm[toml]>=8", + "setuptools_dso>=2.1", + "epicscorelibs>=7.0.7.99.1.1a3", +] +build-backend = "setuptools.build_meta" + +[project] +name = "softioc" +classifiers = [ + "Development Status :: 5 - Production/Stable", + "License :: OSI Approved :: Apache Software License", + "Programming Language :: Python :: 3.11", + "Programming Language :: Python :: 3.12", + "Programming Language :: Python :: 3.13", + "Programming Language :: Python :: 3.14", +] +description = "Embed an EPICS IOC in a Python process" +# dependencies are set in setup.py as they include an epicscorelibs ABI pin +# computed at build time by epicscorelibs.version.abi_requires() +dynamic = ["version", "dependencies"] +license.file = "LICENSE" +readme = "README.rst" +requires-python = ">=3.11" + +[project.optional-dependencies] +# Useful extras for use at DLS +useful = ["cothread", "scipy", "aioca>=1.6"] + +[dependency-groups] +dev = [ + "aioca>=1.6", + "cothread; sys_platform != 'win32'", + "myst-parser", + "p4p>=4.2.0a2", + "pre-commit", + "pydata-sphinx-theme>=0.12", + "pyright", + "pytest", + "pytest-asyncio", + "ruff", + "sphinx-autobuild", + "sphinx-copybutton", + "sphinx-design", + "tox-uv", + "types-mock", +] + +[project.scripts] +pythonSoftIOC = "softioc.__main__:main" + +[project.urls] +GitHub = "https://github.com/DiamondLightSource/pythonSoftIOC" + +[[project.authors]] # Further authors may be added by duplicating this section +email = "Michael.Abbott@diamond.ac.uk" +name = "Michael Abbott" + +[tool.setuptools] +packages = ["softioc"] +# Only ship the package-data below in wheels, not every file in git +include-package-data = false +zip-safe = false # setuptools_dso is not compatible with eggs! + +[tool.setuptools.package-data] +softioc = [ + "access.acf", + "device.dbd", + "iocStats/devIocStats/*", + "iocStats/iocAdmin/Db/*", + # Include the OS specific files in the sdist, even + # if not packaged by setup.py (as we only build sdist on one arch) + "iocStats/devIocStats/os/default/*", + "iocStats/devIocStats/os/posix/*", + "iocStats/devIocStats/os/Darwin/*", + "iocStats/devIocStats/os/WIN32/*", + "iocStats/devIocStats/os/Linux/*", +] + +[tool.uv] +# Minimum uv to fix eMudhra CA cert incident (see discuss.python.org/t/109576) +required-version = ">=0.13.5" + +[tool.setuptools_scm] +version_file = "softioc/_version.py" + +[tool.pyright] +# The codebase is largely untyped, so use "basic" rather than the template's +# "standard" and turn off the rules it currently violates. +# Temporary: tighten this up in a follow-up PR +typeCheckingMode = "basic" +reportMissingImports = false # Ignore missing stubs in imported modules +# iocStats is a git submodule of third party code +exclude = ["softioc/iocStats"] +reportArgumentType = false +reportAssignmentType = false +reportAttributeAccessIssue = false +reportOperatorIssue = false +reportOptionalCall = false +reportOptionalMemberAccess = false +reportOptionalSubscript = false +reportUndefinedVariable = false # names from `from x import *` +reportUnusedExpression = false +reportWildcardImportFromLibrary = false + +[tool.pytest.ini_options] +# Run pytest with all our checkers, and don't spam us with massive tracebacks on error +addopts = """ + --tb=native -vv --doctest-modules --ignore=softioc/iocStats + """ +# Enables all discovered async tests and fixtures to be automatically marked as +# async, even if they don't have a specific marker +# https://github.com/pytest-dev/pytest-asyncio#auto-mode +asyncio_mode = "auto" +# The template's filterwarnings = "error" is not used yet as the tests raise +# warnings (e.g. unclosed files) that need fixing first +# Doctest python code in softioc docstrings, test functions in tests +testpaths = "softioc tests" + +[tool.tox] +skipsdist = true +# envs to runs automatically with tox -p +env_list = ["pre-commit", "type-checking", "tests", "docs"] + +[tool.tox.env_run_base] +# Pass all environment variables to the test environments +passenv = ["*"] + +[tool.tox.env.pre-commit] +description = "Run pre-commit on all files" +commands = [ + [ + "pre-commit", + "run", + "--all-files", + "--show-diff-on-failure", + { replace = "posargs", default = [ + ], extend = true }, + ], +] + +[tool.tox.env.type-checking] +description = "Run pyright" +commands = [ + [ + "pyright", + "--pythonpath", + "{env:VIRTUAL_ENV}/bin/python", + "softioc", + "tests", + { replace = "posargs", default = [ + ], extend = true }, + ], +] + +[tool.tox.env.tests] +# Coverage is not collected as it interferes with cothread, see +# https://github.com/DiamondLightSource/cothread/issues/73 +description = "Run tests" +commands = [ + [ + "pytest", + { replace = "posargs", default = [ + ], extend = true }, + ], +] + +[tool.tox.env.docs] +description = "Run docs build with clean environment" +commands = [ + [ + "sphinx-build", + "--fresh-env", + "--show-traceback", + "--fail-on-warning", + "--keep-going", + "docs", + "build/html", + { replace = "posargs", default = [ + ], extend = true }, + ], +] + +[tool.tox.env.docs-autobuild] +description = "Run docs with autobuild on change" +commands = [ + [ + "sphinx-autobuild", + "--show-traceback", + "--watch", + "README.rst", + "docs", + "build/html", + { replace = "posargs", default = [ + ], extend = true }, + ], +] + +[tool.ruff] +src = [".", "tests"] +line-length = 88 +lint.select = [ + "B", # flake8-bugbear - https://docs.astral.sh/ruff/rules/#flake8-bugbear-b + "C4", # flake8-comprehensions - https://docs.astral.sh/ruff/rules/#flake8-comprehensions-c4 + "E", # pycodestyle errors - https://docs.astral.sh/ruff/rules/#error-e + "F", # pyflakes rules - https://docs.astral.sh/ruff/rules/#pyflakes-f + "N", # pep8-naming - https://docs.astral.sh/ruff/rules/#pep8-naming-n + "W", # pycodestyle warnings - https://docs.astral.sh/ruff/rules/#warning-w + "I", # isort - https://docs.astral.sh/ruff/rules/#isort-i + "UP", # pyupgrade - https://docs.astral.sh/ruff/rules/#pyupgrade-up + "SLF", # self - https://docs.astral.sh/ruff/settings/#lintflake8-self +] +# iocStats is a git submodule of third party code +extend-exclude = ["softioc/iocStats"] +lint.ignore = [ + # Permanent: the public API uses camelCase names like aOut and SetDeviceName + "N", + # Permanent: allow `from module import *` re-exports, as under flake8 + "F401", + "F403", + "F405", + # Temporary, see #214: fix these in a follow-up PR then remove them here + "I001", + "UP", + "SLF001", + "B", + "C4", + "E721", +] + +[tool.ruff.lint.per-file-ignores] +# By default, private member access is allowed in tests +# See https://github.com/DiamondLightSource/python-copier-template/issues/154 +# Remove this line to forbid private member access in tests +"tests/**/*" = ["SLF001"] diff --git a/renovate.json b/renovate.json new file mode 100644 index 00000000..8fc35a48 --- /dev/null +++ b/renovate.json @@ -0,0 +1,48 @@ +{ + "$schema": "https://docs.renovatebot.com/renovate-schema.json", + "extends": [ + "config:recommended" + ], + "lockFileMaintenance": { + "description": "Keep uv.lock up to date, merging if tests pass", + "enabled": true, + "automerge": true + }, + "packageRules": [ + { + "description": "Disable python version as that is managed by python-copier-template", + "matchManagers": [ + "pyenv" + ], + "enabled": false + }, + { + "description": "Disable github actions that are managed by python-copier-template", + "matchPackageNames": [ + "actions/checkout", + "astral-sh/setup-uv", + "actions/upload-artifact", + "actions/download-artifact", + "softprops/action-gh-release", + "codecov/codecov-action", + "pypa/gh-action-pypi-publish", + "peaceiris/actions-gh-pages" + ], + "matchManagers": [ + "github-actions" + ], + "enabled": false + }, + { + "description": "Disable Dockerfile base images that are managed by python-copier-template", + "matchManagers": [ + "dockerfile" + ], + "matchDepNames": [ + "ubuntu", + "ghcr.io/diamondlightsource/ubuntu-devcontainer" + ], + "enabled": false + } + ] +} diff --git a/setup.cfg b/setup.cfg deleted file mode 100644 index 8a18f8f9..00000000 --- a/setup.cfg +++ /dev/null @@ -1,81 +0,0 @@ -[metadata] -name = softioc -description = Embed an EPICS IOC in a Python process -url = https://github.com/DiamondLightSource/pythonSoftIOC -author = Michael Abbott -author_email = Michael.Abbott@diamond.ac.uk -license = Apache License 2.0 -long_description = file: README.rst -long_description_content_type = text/x-rst -classifiers = - Development Status :: 5 - Production/Stable - License :: OSI Approved :: Apache Software License - Programming Language :: Python :: 3.7 - Programming Language :: Python :: 3.8 - Programming Language :: Python :: 3.9 - Programming Language :: Python :: 3.10 - -[options] -packages = softioc -python_requires = >=3.7 - -[options.entry_points] -# Include a command line script -console_scripts = - pythonSoftIOC = softioc.__main__:main - -[options.package_data] -softioc = - access.acf - device.dbd - iocStats/devIocStats/* - iocStats/iocAdmin/Db/* - # Include the OS specific files in the sdist, even - # if not packages by setup.py (as we only build sdist on one arch) - iocStats/devIocStats/os/default/* - iocStats/devIocStats/os/posix/* - iocStats/devIocStats/os/Darwin/* - iocStats/devIocStats/os/WIN32/* - iocStats/devIocStats/os/Linux/* - -[options.extras_require] -# Useful extras for use at DLS -useful = - cothread - scipy - aioca >=1.6 -# Dev and docs dependencies -dev = - # Pytest 9.1.0 deprecates some APIs that some of our plugins require - pytest<9.1.0 - pytest-flake8 - # Flake8 5.0 starts printing error, so pin to avoid it: - # AttributeError: module 'flake8.options.config' has no attribute 'ConfigFileFinder' - flake8 <5.0.0 - # Higher version of sphinx require importlib-metadata version that conflicts with other packages - sphinx ==4.3.2 - sphinx-rtd-theme ==1.0.0 - sphinx-rtd-theme-github-versions ==1.1 - pytest-asyncio - aioca >=1.6 - cothread; sys_platform != "win32" - p4p>=4.2.0a2 - -[flake8] -max-line-length = 80 -extend-ignore = - # Allow from module import * - F401 F403 F405 - # Allow call(param = value) - E251 - # Allow any number of blank lines - E301 E302 E303 E305 - -[tool:pytest] -# Run pytest with all our checkers, and don't spam us with massive tracebacks on error -# Don't do flake8 here as we need to separate it out for CI -addopts = - --tb=native -vv --doctest-modules --ignore=softioc/iocStats --ignore=epicscorelibs --ignore=docs -# Enables all discovered async tests and fixtures to be automatically marked as async, even if -# they don't have a specific marker https://github.com/pytest-dev/pytest-asyncio#auto-mode -asyncio_mode = auto diff --git a/setup.py b/setup.py index 97211b16..ec65f9f2 100644 --- a/setup.py +++ b/setup.py @@ -1,5 +1,7 @@ +# Metadata is in pyproject.toml, this file only defines the C extension and the +# dependencies that need computing at build time. +# The version is calculated by setuptools_scm. import os -import sys from setuptools.command.develop import develop import epicscorelibs.path @@ -7,14 +9,6 @@ from setuptools_dso import Extension, setup from epicscorelibs.config import get_config_var -# Place the directory containing _version_git on the path -TOP = os.path.dirname(os.path.abspath(__file__)) -for d in os.listdir(TOP): - if os.path.exists(os.path.join(TOP, d, "_version_git.py")): - sys.path.append(os.path.join(TOP, d)) - -from _version_git import __version__, get_cmdclass # noqa - sources = ['softioc/extension.c'] devIocStats_OSI = [ @@ -98,16 +92,16 @@ def install_for_development(self): setup( - cmdclass=dict(develop=Develop, **get_cmdclass()), - version=__version__, + cmdclass=dict(develop=Develop), ext_modules = [ext], + # Declared as dynamic in pyproject.toml install_requires = [ - # Dependency version declared in pyproject.toml + # Pin to the ABI of the epicscorelibs we were built against, the + # build-time requirement is declared in pyproject.toml epicscorelibs.version.abi_requires(), "pvxslibs>=1.3.2a2", "numpy", "epicsdbbuilder>=1.4", "pyyaml>=6.0" ], - zip_safe = False, # setuptools_dso is not compatible with eggs! ) diff --git a/softioc/__init__.py b/softioc/__init__.py index 11ec06a2..da7d11b1 100644 --- a/softioc/__init__.py +++ b/softioc/__init__.py @@ -12,7 +12,7 @@ # This import will also pull in the extension, which is needed # before we call iocshRegisterCommon from .imports import dbLoadDatabase, registerRecordDeviceDriver -from ._version_git import __version__ +from ._version import __version__ # Need to do this before calling anything in device.py iocshRegisterCommon() diff --git a/softioc/_version_git.py b/softioc/_version_git.py deleted file mode 100644 index efe15d0e..00000000 --- a/softioc/_version_git.py +++ /dev/null @@ -1,97 +0,0 @@ -# Compute a version number from a git repo or archive - -# This file is released into the public domain. Generated by: -# versiongit-1.0 (https://github.com/DiamondLightSource/versiongit) -import os -import re -import sys -from subprocess import STDOUT, CalledProcessError, check_output - -# These will be filled in if git archive is run or by setup.py cmdclasses -GIT_REFS = "$Format:%D$" -GIT_SHA1 = "$Format:%h$" - -# Git describe gives us sha1, last version-like tag, and commits since then -CMD = "git describe --tags --dirty --always --long --match=[0-9]*[-.][0-9]*" - - -def get_version_from_git(path=None): - """Try to parse version from git describe, fallback to git archive tags""" - tag, plus, suffix = "0.0", "untagged", "" - if not GIT_SHA1.startswith("$"): - # git archive or the cmdclasses below have filled in these strings - sha1 = GIT_SHA1 - for ref_name in GIT_REFS.split(", "): - if ref_name.startswith("tag: "): - # git from 1.8.3 onwards labels archive tags "tag: TAGNAME" - tag, plus = ref_name[5:], "0" - else: - if path is None: - # If no path to git repo, choose the directory this file is in - path = os.path.dirname(os.path.abspath(__file__)) - # output is TAG-NUM-gHEX[-dirty] or HEX[-dirty] - try: - cmd_out = check_output(CMD.split(), stderr=STDOUT, cwd=path) - except Exception as e: - sys.stderr.write("%s: %s\n" % (type(e).__name__, str(e))) - if isinstance(e, CalledProcessError): - sys.stderr.write("-> %s" % e.output.decode()) - return "0.0+unknown", None, e - else: - out = cmd_out.decode().strip() - if out.endswith("-dirty"): - out = out[:-6] - suffix = ".dirty" - if "-" in out: - # There is a tag, extract it and the other pieces - match = re.search(r"^(.+)-(\d+)-g([0-9a-f]+)$", out) - tag, plus, sha1 = match.groups() - else: - # No tag, just sha1 - sha1 = out - # Replace dashes in tag for dots - tag = tag.replace("-", ".") - if plus != "0" or suffix: - # Not on a tag, add additional info - tag = "%(tag)s+%(plus)s.g%(sha1)s%(suffix)s" % locals() - return tag, sha1, None - - -__version__, git_sha1, git_error = get_version_from_git() - - -def get_cmdclass(build_py=None, sdist=None): - """Create cmdclass dict to pass to setuptools.setup that will write a - _version_static.py file in our resultant sdist, wheel or egg""" - if build_py is None: - from setuptools.command.build_py import build_py - if sdist is None: - from setuptools.command.sdist import sdist - - def make_version_static(base_dir, pkg): - vg = os.path.join(base_dir, pkg.split(".")[0], "_version_git.py") - if os.path.isfile(vg): - lines = open(vg).readlines() - with open(vg, "w") as f: - for line in lines: - # Replace GIT_* with static versions - if line.startswith("GIT_SHA1 = "): - f.write("GIT_SHA1 = '%s'\n" % git_sha1) - elif line.startswith("GIT_REFS = "): - f.write("GIT_REFS = 'tag: %s'\n" % __version__) - else: - f.write(line) - - class BuildPy(build_py): - def run(self): - build_py.run(self) - for pkg in self.packages: - make_version_static(self.build_lib, pkg) - - class Sdist(sdist): - def make_release_tree(self, base_dir, files): - sdist.make_release_tree(self, base_dir, files) - for pkg in self.distribution.packages: - make_version_static(base_dir, pkg) - - return dict(build_py=BuildPy, sdist=Sdist) diff --git a/tests/test_cli.py b/tests/test_cli.py new file mode 100644 index 00000000..d23acc8e --- /dev/null +++ b/tests/test_cli.py @@ -0,0 +1,9 @@ +import subprocess +import sys + +from softioc import __version__ + + +def test_cli_version(): + cmd = [sys.executable, "-m", "softioc", "--version"] + assert subprocess.check_output(cmd).decode().strip() == __version__ From 5e5a55eddc9c4e7eaed7a6367dc9afb46e5b841c Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Tue, 10 Nov 2026 11:29:50 +0000 Subject: [PATCH 02/12] Replace Pipfile.lock with uv.lock Lock all dependencies, including the dev dependency group, at their latest versions with `uv lock`. pip-audit and `uv audit` report no known vulnerabilities in the locked packages (certifi is 2026.10.23). Supersedes #213. Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz5t8qhYupzSkLkFc5K --- Pipfile | 16 - Pipfile.lock | 1060 ---------------------------- uv.lock | 1911 ++++++++++++++++++++++++++++++++++++++++++++++++++ 3 files changed, 1911 insertions(+), 1076 deletions(-) delete mode 100644 Pipfile delete mode 100644 Pipfile.lock create mode 100644 uv.lock diff --git a/Pipfile b/Pipfile deleted file mode 100644 index 995b7733..00000000 --- a/Pipfile +++ /dev/null @@ -1,16 +0,0 @@ -[[source]] -name = "pypi" -url = "https://pypi.org/simple" -verify_ssl = true - -[dev-packages] -softioc = {editable = true, extras = ["dev"], path = "."} - -[packages] -softioc = {editable = true, extras = ["useful"], path = "."} - -[scripts] -# Do flake8 here so it doesn't happen in the container in CI -tests = "python -m pytest --flake8" -docs = "sphinx-build -EWT --keep-going docs build/html" -gitclean = "git clean -fdX" diff --git a/Pipfile.lock b/Pipfile.lock deleted file mode 100644 index a7ccccd7..00000000 --- a/Pipfile.lock +++ /dev/null @@ -1,1060 +0,0 @@ -{ - "_meta": { - "hash": { - "sha256": "3de736bf110af1d77f0f31569339aaa126619efb770d1269e4b0e90fce4bb32d" - }, - "pipfile-spec": 6, - "requires": {}, - "sources": [ - { - "name": "pypi", - "url": "https://pypi.org/simple", - "verify_ssl": true - } - ] - }, - "default": { - "aioca": { - "hashes": [ - "sha256:20668f356b5d8dc65e7f5026b0085499c5de0812d84c17e0cbbe80c46e915532", - "sha256:9b07598d59295d9ee701e0c83f151ca8e8da5cd2642390772ee5b988f54db12e" - ], - "version": "==1.7" - }, - "cothread": { - "hashes": [ - "sha256:2e2212ff28470a1100d4a837bf346576c87170e045a04afadcf71b3e62cdf7df", - "sha256:33b8598a4ab4ad0fd00249234daff6fdcde531cb4fa549dd65d8fd2f7284532b", - "sha256:3d9d12a70c29cf9c917ed0fccc29ac9ba737f79210f559ed7fa0f12b84c4c664", - "sha256:42d4dd73fcbf49a53ba08d905a0579d6e39aaebac558bdcce695c45add52ca50", - "sha256:4828567fb6ef35d034fb5e524df259278b8ce50b35fd53b70947dc679e6c1b11", - 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Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz5t8qhYupzSkLkFc5K --- CHANGELOG.rst | 3 +++ CONTRIBUTING.rst | 1 + docs/_static/theme_overrides.css | 14 -------------- pyproject.toml | 10 ++++++++-- uv.lock | 3 +++ 5 files changed, 15 insertions(+), 16 deletions(-) diff --git a/CHANGELOG.rst b/CHANGELOG.rst index 1bb06b6e..9e1a55d4 100644 --- a/CHANGELOG.rst +++ b/CHANGELOG.rst @@ -17,9 +17,12 @@ Changed: pydata-sphinx-theme docs and a reusable-workflow CI layout. Wheels are still built and tested with cibuildwheel. - Version numbers are now calculated by setuptools_scm. +- The ``dev`` extra is replaced by a ``dev`` dependency group: use ``uv sync`` + to install a development environment. Removed: +- The ``dev`` extra, see above. - Support for Python 3.7 to 3.10. Python 3.11 or later is now required. .. _python-copier-template: https://github.com/DiamondLightSource/python-copier-template diff --git a/CONTRIBUTING.rst b/CONTRIBUTING.rst index d166f0a6..6b195682 100644 --- a/CONTRIBUTING.rst +++ b/CONTRIBUTING.rst @@ -102,4 +102,5 @@ To make a new release, please follow this checklist: - Push to github and the actions will make a release on pypi - Push to internal gitlab but do not release from there - Run ``dls-py3 download-one-dependency softioc `` +- Run ``uv export --frozen --all-extras --no-hashes --no-emit-project > /dls_sw/work/python3/RHEL7-x86_64/distributions/softioc-.requirements.txt`` - Run ``dls-release.py -a python3ext softioc `` diff --git a/docs/_static/theme_overrides.css b/docs/_static/theme_overrides.css index e8151bee..8aa11727 100644 --- a/docs/_static/theme_overrides.css +++ b/docs/_static/theme_overrides.css @@ -1,17 +1,3 @@ -/* override table width restrictions */ -@media screen and (min-width: 639px) { - .wy-table-responsive table td { - /* !important prevents the common CSS stylesheets from - overriding this as on RTD they are loaded after this stylesheet */ - white-space: normal !important; - } -} - -/* override table padding */ -.rst-content table.docutils th, .rst-content table.docutils td { - padding: 4px 6px; -} - /* Add two-column option */ @media only screen and (min-width: 1000px) { .columns { diff --git a/pyproject.toml b/pyproject.toml index fcf0b845..4ef4f2e8 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -82,6 +82,12 @@ softioc = [ [tool.uv] # Minimum uv to fix eMudhra CA cert incident (see discuss.python.org/t/109576) required-version = ">=0.13.5" +# softioc's dependencies include an ABI pin computed by setup.py from the +# epicscorelibs it is built against. Pin that build-time epicscorelibs so the +# metadata recorded in uv.lock doesn't change whenever a new epicscorelibs is +# released, and the editable extension is built against the locked runtime +# version. Bump this together with epicscorelibs in uv.lock. +build-constraint-dependencies = ["epicscorelibs==7.0.10.99.0.2"] [tool.setuptools_scm] version_file = "softioc/_version.py" @@ -89,7 +95,7 @@ version_file = "softioc/_version.py" [tool.pyright] # The codebase is largely untyped, so use "basic" rather than the template's # "standard" and turn off the rules it currently violates. -# Temporary: tighten this up in a follow-up PR +# Temporary, see #215: tighten this up in a follow-up PR typeCheckingMode = "basic" reportMissingImports = false # Ignore missing stubs in imported modules # iocStats is a git submodule of third party code @@ -115,7 +121,7 @@ addopts = """ # https://github.com/pytest-dev/pytest-asyncio#auto-mode asyncio_mode = "auto" # The template's filterwarnings = "error" is not used yet as the tests raise -# warnings (e.g. unclosed files) that need fixing first +# warnings (e.g. unclosed files) that need fixing first, see #215 # Doctest python code in softioc docstrings, test functions in tests testpaths = "softioc tests" diff --git a/uv.lock b/uv.lock index 82cbb15a..152b8efa 100644 --- a/uv.lock +++ b/uv.lock @@ -8,6 +8,9 @@ resolution-markers = [ "python_full_version < '3.11.5'", ] +[manifest] +build-constraints = [{ name = "epicscorelibs", specifier = "==7.0.10.99.0.2" }] + [[package]] name = "accessible-pygments" version = "0.0.5" From 916aebcf58e9a03d804dabccc3b3bb2dc759b498 Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Tue, 10 Nov 2026 11:53:29 +0000 Subject: [PATCH 04/12] Address second round of review comments - .vscode: turn off format on save and organize imports, until #214, so saving a file doesn't reformat it. - CONTRIBUTING: export the DLS release requirements without the dev group, and document that the epicscorelibs build constraint must be bumped by hand. - Pass the pypi_token secret to _pypi.yml explicitly instead of inheriting all secrets. - Give the periodic master_branch_test job read-only permissions. Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz5t8qhYupzSkLkFc5K --- .github/workflows/_pypi.yml | 4 ++++ .github/workflows/ci.yml | 5 +++-- .github/workflows/periodic.yml | 2 ++ .vscode/settings.json | 5 +---- CONTRIBUTING.rst | 7 ++++++- 5 files changed, 16 insertions(+), 7 deletions(-) diff --git a/.github/workflows/_pypi.yml b/.github/workflows/_pypi.yml index 951e4203..c0132533 100644 --- a/.github/workflows/_pypi.yml +++ b/.github/workflows/_pypi.yml @@ -1,5 +1,9 @@ on: workflow_call: + secrets: + pypi_token: + description: PyPI API token, if unset trusted publishing is used + required: false jobs: upload: diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 4f379827..60090d41 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -41,8 +41,9 @@ jobs: uses: ./.github/workflows/_pypi.yml permissions: id-token: write - # Pass the pypi_token secret through, if it is unset trusted publishing is used - secrets: inherit + secrets: + # If unset, trusted publishing is used + pypi_token: ${{ secrets.pypi_token }} release: needs: [dist, test, docs] diff --git a/.github/workflows/periodic.yml b/.github/workflows/periodic.yml index b5cc8ceb..01abeea9 100644 --- a/.github/workflows/periodic.yml +++ b/.github/workflows/periodic.yml @@ -16,6 +16,8 @@ jobs: # still compatible when used together master_branch_test: runs-on: "ubuntu-latest" + permissions: + contents: read steps: - name: Checkout uses: actions/checkout@v7 diff --git a/.vscode/settings.json b/.vscode/settings.json index 101c75fa..71270739 100644 --- a/.vscode/settings.json +++ b/.vscode/settings.json @@ -1,10 +1,7 @@ { "python.testing.unittestEnabled": false, "python.testing.pytestEnabled": true, - "editor.formatOnSave": true, - "editor.codeActionsOnSave": { - "source.organizeImports": "explicit" - }, + "editor.formatOnSave": false, "files.insertFinalNewline": true, "[python]": { "editor.defaultFormatter": "charliermarsh.ruff", diff --git a/CONTRIBUTING.rst b/CONTRIBUTING.rst index 6b195682..45f0f64e 100644 --- a/CONTRIBUTING.rst +++ b/CONTRIBUTING.rst @@ -52,6 +52,11 @@ safest way to do that is:: $ uv lock --upgrade $ uv sync +The epicscorelibs version that the extension is built against is pinned by +``build-constraint-dependencies`` in the ``[tool.uv]`` section of +pyproject.toml. Renovate does not update it, so bump it by hand, then run +``uv lock``, when a new epicscorelibs series is wanted. + Code Styling ------------ @@ -102,5 +107,5 @@ To make a new release, please follow this checklist: - Push to github and the actions will make a release on pypi - Push to internal gitlab but do not release from there - Run ``dls-py3 download-one-dependency softioc `` -- Run ``uv export --frozen --all-extras --no-hashes --no-emit-project > /dls_sw/work/python3/RHEL7-x86_64/distributions/softioc-.requirements.txt`` +- Run ``uv export --frozen --no-dev --all-extras --no-hashes --no-emit-project > /dls_sw/work/python3/RHEL7-x86_64/distributions/softioc-.requirements.txt`` - Run ``dls-release.py -a python3ext softioc `` From dcc5e6bb278a37a732c956d441574bb057a7a603 Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Tue, 10 Nov 2026 12:16:07 +0000 Subject: [PATCH 05/12] CI: test with uv-managed python The ubuntu runner's system python 3.14 is 3.14.4, on which cothread segfaults in the tests; reproduced locally with uv's 3.14.4, while 3.14.5, 3.14.6 and 3.14.7 pass. Use uv-managed python so the latest patch release is tested. Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz5t8qhYupzSkLkFc5K --- .github/workflows/_test.yml | 3 +++ 1 file changed, 3 insertions(+) diff --git a/.github/workflows/_test.yml b/.github/workflows/_test.yml index a8ea1331..7dd4838d 100644 --- a/.github/workflows/_test.yml +++ b/.github/workflows/_test.yml @@ -14,6 +14,9 @@ env: # https://github.com/pytest-dev/pytest/issues/2042 PY_IGNORE_IMPORTMISMATCH: "1" UV_PYTHON: ${{ inputs.python-version }} + # Use the latest uv-managed patch release rather than the runner's system + # python: cothread segfaults in the tests on CPython 3.14.4 (fine on 3.14.5+) + UV_PYTHON_PREFERENCE: only-managed jobs: run: From b9de251f4f943058e19ca4c0a6629891e8cb7a48 Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Wed, 11 Nov 2026 07:42:59 +0000 Subject: [PATCH 06/12] Move to the template's src layout git mv softioc src/softioc, including the iocStats submodule, and point setup.py, pyproject.toml (package-dir, version_file, pytest, pyright, ruff) and .gitignore at the new paths. Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz8Ac6k38PshyLY6N1C --- .gitignore | 2 +- .gitmodules | 2 +- pyproject.toml | 17 +++++++++-------- setup.py | 4 ++-- {softioc => src/softioc}/README | 0 {softioc => src/softioc}/__init__.py | 0 {softioc => src/softioc}/__main__.py | 0 {softioc => src/softioc}/access.acf | 0 {softioc => src/softioc}/alarm.py | 0 {softioc => src/softioc}/asyncio_dispatcher.py | 0 {softioc => src/softioc}/autosave.py | 0 {softioc => src/softioc}/builder.py | 0 {softioc => src/softioc}/cothread_dispatcher.py | 0 {softioc => src/softioc}/device.dbd | 0 {softioc => src/softioc}/device.py | 0 {softioc => src/softioc}/device_core.py | 0 {softioc => src/softioc}/extension.c | 0 {softioc => src/softioc}/fields.py | 0 {softioc => src/softioc}/imports.py | 0 {softioc => src/softioc}/iocStats | 0 {softioc => src/softioc}/pvlog.py | 0 {softioc => src/softioc}/pythonSoftIoc.py | 0 {softioc => src/softioc}/softioc.py | 0 23 files changed, 13 insertions(+), 12 deletions(-) rename {softioc => src/softioc}/README (100%) rename {softioc => src/softioc}/__init__.py (100%) rename {softioc => src/softioc}/__main__.py (100%) rename {softioc => src/softioc}/access.acf (100%) rename {softioc => src/softioc}/alarm.py (100%) rename {softioc => src/softioc}/asyncio_dispatcher.py (100%) rename {softioc => src/softioc}/autosave.py (100%) rename {softioc => src/softioc}/builder.py (100%) rename {softioc => src/softioc}/cothread_dispatcher.py (100%) rename {softioc => src/softioc}/device.dbd (100%) rename {softioc => src/softioc}/device.py (100%) rename {softioc => src/softioc}/device_core.py (100%) rename {softioc => src/softioc}/extension.c (100%) rename {softioc => src/softioc}/fields.py (100%) rename {softioc => src/softioc}/imports.py (100%) rename {softioc => src/softioc}/iocStats (100%) rename {softioc => src/softioc}/pvlog.py (100%) rename {softioc => src/softioc}/pythonSoftIoc.py (100%) rename {softioc => src/softioc}/softioc.py (100%) diff --git a/.gitignore b/.gitignore index c4f0aed5..b3fddd86 100644 --- a/.gitignore +++ b/.gitignore @@ -81,4 +81,4 @@ lockfiles/ # setup.py develop places this link here so editable installs work. Related: # https://github.com/mdavidsaver/setuptools_dso/issues/11 -/epicscorelibs +/src/epicscorelibs diff --git a/.gitmodules b/.gitmodules index 4c41b1de..5c5cfc4c 100644 --- a/.gitmodules +++ b/.gitmodules @@ -1,3 +1,3 @@ [submodule "iocStats"] - path = softioc/iocStats + path = src/softioc/iocStats url = https://github.com/epics-modules/iocStats.git diff --git a/pyproject.toml b/pyproject.toml index 4ef4f2e8..2ee0f11c 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -60,6 +60,7 @@ name = "Michael Abbott" [tool.setuptools] packages = ["softioc"] +package-dir = { "" = "src" } # Only ship the package-data below in wheels, not every file in git include-package-data = false zip-safe = false # setuptools_dso is not compatible with eggs! @@ -90,7 +91,7 @@ required-version = ">=0.13.5" build-constraint-dependencies = ["epicscorelibs==7.0.10.99.0.2"] [tool.setuptools_scm] -version_file = "softioc/_version.py" +version_file = "src/softioc/_version.py" [tool.pyright] # The codebase is largely untyped, so use "basic" rather than the template's @@ -99,7 +100,7 @@ version_file = "softioc/_version.py" typeCheckingMode = "basic" reportMissingImports = false # Ignore missing stubs in imported modules # iocStats is a git submodule of third party code -exclude = ["softioc/iocStats"] +exclude = ["src/softioc/iocStats"] reportArgumentType = false reportAssignmentType = false reportAttributeAccessIssue = false @@ -114,7 +115,7 @@ reportWildcardImportFromLibrary = false [tool.pytest.ini_options] # Run pytest with all our checkers, and don't spam us with massive tracebacks on error addopts = """ - --tb=native -vv --doctest-modules --ignore=softioc/iocStats + --tb=native -vv --doctest-modules --ignore=src/softioc/iocStats """ # Enables all discovered async tests and fixtures to be automatically marked as # async, even if they don't have a specific marker @@ -122,8 +123,8 @@ addopts = """ asyncio_mode = "auto" # The template's filterwarnings = "error" is not used yet as the tests raise # warnings (e.g. unclosed files) that need fixing first, see #215 -# Doctest python code in softioc docstrings, test functions in tests -testpaths = "softioc tests" +# Doctest python code in src docstrings, test functions in tests +testpaths = "src tests" [tool.tox] skipsdist = true @@ -154,7 +155,7 @@ commands = [ "pyright", "--pythonpath", "{env:VIRTUAL_ENV}/bin/python", - "softioc", + "src", "tests", { replace = "posargs", default = [ ], extend = true }, @@ -205,7 +206,7 @@ commands = [ ] [tool.ruff] -src = [".", "tests"] +src = ["src", "tests"] line-length = 88 lint.select = [ "B", # flake8-bugbear - https://docs.astral.sh/ruff/rules/#flake8-bugbear-b @@ -219,7 +220,7 @@ lint.select = [ "SLF", # self - https://docs.astral.sh/ruff/settings/#lintflake8-self ] # iocStats is a git submodule of third party code -extend-exclude = ["softioc/iocStats"] +extend-exclude = ["src/softioc/iocStats"] lint.ignore = [ # Permanent: the public API uses camelCase names like aOut and SetDeviceName "N", diff --git a/setup.py b/setup.py index ec65f9f2..b415d81c 100644 --- a/setup.py +++ b/setup.py @@ -9,7 +9,7 @@ from setuptools_dso import Extension, setup from epicscorelibs.config import get_config_var -sources = ['softioc/extension.c'] +sources = ['src/softioc/extension.c'] devIocStats_OSI = [ "devIocStatsAnalog.c", @@ -34,7 +34,7 @@ "osdPIDInfo.c", ] -devIocStats_src = os.path.join("softioc", "iocStats", "devIocStats") +devIocStats_src = os.path.join("src", "softioc", "iocStats", "devIocStats") devIocStats_posix = os.path.join(devIocStats_src, "os", "posix") devIocStats_os = os.path.join(devIocStats_src, "os", get_config_var('OS_CLASS')) devIocStats_default = os.path.join(devIocStats_src, "os", "default") diff --git a/softioc/README b/src/softioc/README similarity index 100% rename from softioc/README rename to src/softioc/README diff --git a/softioc/__init__.py b/src/softioc/__init__.py similarity index 100% rename from softioc/__init__.py rename to src/softioc/__init__.py diff --git a/softioc/__main__.py b/src/softioc/__main__.py similarity index 100% rename from softioc/__main__.py rename to src/softioc/__main__.py diff --git a/softioc/access.acf b/src/softioc/access.acf similarity index 100% rename from softioc/access.acf rename to src/softioc/access.acf diff --git a/softioc/alarm.py b/src/softioc/alarm.py similarity index 100% rename from softioc/alarm.py rename to src/softioc/alarm.py diff --git a/softioc/asyncio_dispatcher.py b/src/softioc/asyncio_dispatcher.py similarity index 100% rename from softioc/asyncio_dispatcher.py rename to src/softioc/asyncio_dispatcher.py diff --git a/softioc/autosave.py b/src/softioc/autosave.py similarity index 100% rename from softioc/autosave.py rename to src/softioc/autosave.py diff --git a/softioc/builder.py b/src/softioc/builder.py similarity index 100% rename from softioc/builder.py rename to src/softioc/builder.py diff --git a/softioc/cothread_dispatcher.py b/src/softioc/cothread_dispatcher.py similarity index 100% rename from softioc/cothread_dispatcher.py rename to src/softioc/cothread_dispatcher.py diff --git a/softioc/device.dbd b/src/softioc/device.dbd similarity index 100% rename from softioc/device.dbd rename to src/softioc/device.dbd diff --git a/softioc/device.py b/src/softioc/device.py similarity index 100% rename from softioc/device.py rename to src/softioc/device.py diff --git a/softioc/device_core.py b/src/softioc/device_core.py similarity index 100% rename from softioc/device_core.py rename to src/softioc/device_core.py diff --git a/softioc/extension.c b/src/softioc/extension.c similarity index 100% rename from softioc/extension.c rename to src/softioc/extension.c diff --git a/softioc/fields.py b/src/softioc/fields.py similarity index 100% rename from softioc/fields.py rename to src/softioc/fields.py diff --git a/softioc/imports.py b/src/softioc/imports.py similarity index 100% rename from softioc/imports.py rename to src/softioc/imports.py diff --git a/softioc/iocStats b/src/softioc/iocStats similarity index 100% rename from softioc/iocStats rename to src/softioc/iocStats diff --git a/softioc/pvlog.py b/src/softioc/pvlog.py similarity index 100% rename from softioc/pvlog.py rename to src/softioc/pvlog.py diff --git a/softioc/pythonSoftIoc.py b/src/softioc/pythonSoftIoc.py similarity index 100% rename from softioc/pythonSoftIoc.py rename to src/softioc/pythonSoftIoc.py diff --git a/softioc/softioc.py b/src/softioc/softioc.py similarity index 100% rename from softioc/softioc.py rename to src/softioc/softioc.py From b30b48765ad33b6f135372ac9c00858112e16a3a Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Wed, 11 Nov 2026 07:43:49 +0000 Subject: [PATCH 07/12] Clarify the epicscorelibs build-constraint pin Released wheels follow the [build-system] requires floor and need no edit; the uv pin only affects uv.lock and the dev environment. Say how to bump it. Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz8Ac6k38PshyLY6N1C --- pyproject.toml | 12 ++++++++---- 1 file changed, 8 insertions(+), 4 deletions(-) diff --git a/pyproject.toml b/pyproject.toml index 2ee0f11c..702d348b 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -83,11 +83,15 @@ softioc = [ [tool.uv] # Minimum uv to fix eMudhra CA cert incident (see discuss.python.org/t/109576) required-version = ">=0.13.5" +# This pin only affects uv.lock and the uv dev environment (uv sync). +# Released wheels and sdists (cibuildwheel, pip) use the epicscorelibs floor in +# [build-system] requires, so they always build against the newest +# epicscorelibs and need no edit here. # softioc's dependencies include an ABI pin computed by setup.py from the -# epicscorelibs it is built against. Pin that build-time epicscorelibs so the -# metadata recorded in uv.lock doesn't change whenever a new epicscorelibs is -# released, and the editable extension is built against the locked runtime -# version. Bump this together with epicscorelibs in uv.lock. +# epicscorelibs it is built against, so without this pin uv.lock would change +# whenever a new epicscorelibs is released. +# To move the dev environment to a newer epicscorelibs, edit this one pin, then +# run `uv lock --upgrade-package epicscorelibs`. Renovate does not bump it. build-constraint-dependencies = ["epicscorelibs==7.0.10.99.0.2"] [tool.setuptools_scm] From 615d962a6a97646028e462890fef3eaf3e5df8c9 Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Wed, 11 Nov 2026 07:43:49 +0000 Subject: [PATCH 08/12] Freeze CHANGELOG.rst at 4.7.2 in favour of GitHub Releases Later releases are documented in GitHub Releases with notes generated from PR titles, as in the python-copier-template. The README links there. Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz8Ac6k38PshyLY6N1C --- CHANGELOG.rst | 28 ++++------------------------ README.rst | 2 +- 2 files changed, 5 insertions(+), 25 deletions(-) diff --git a/CHANGELOG.rst b/CHANGELOG.rst index 9e1a55d4..678a467e 100644 --- a/CHANGELOG.rst +++ b/CHANGELOG.rst @@ -1,32 +1,14 @@ Changelog ========= -All notable changes to this project will be documented in this file. +This file is frozen at 4.7.2. Releases after 4.7.2 are documented in +`GitHub Releases `_, +with release notes generated from the titles of the merged pull requests. -The format is based on `Keep a Changelog +The entries below follow the format of `Keep a Changelog `_, and this project adheres to `Semantic Versioning `_. -Unreleased_ ------------ - -Changed: - -- Adopt the `python-copier-template`_: pyproject.toml metadata, uv.lock - instead of Pipfile, ruff instead of flake8, pyright, pre-commit, tox, - pydata-sphinx-theme docs and a reusable-workflow CI layout. Wheels are - still built and tested with cibuildwheel. -- Version numbers are now calculated by setuptools_scm. -- The ``dev`` extra is replaced by a ``dev`` dependency group: use ``uv sync`` - to install a development environment. - -Removed: - -- The ``dev`` extra, see above. -- Support for Python 3.7 to 3.10. Python 3.11 or later is now required. - -.. _python-copier-template: https://github.com/DiamondLightSource/python-copier-template - 4.7.2_ - 2026-09-11 ------------------- @@ -274,8 +256,6 @@ Added: Last release as an EPICS module rather than a Python package -.. _Unreleased: - https://github.com/DiamondLightSource/pythonSoftIOC/compare/4.7.2...HEAD .. _4.7.2: https://github.com/DiamondLightSource/pythonSoftIOC/compare/4.7.1...4.7.2 .. _4.7.1: diff --git a/README.rst b/README.rst index 7b3e70db..116b6ad5 100644 --- a/README.rst +++ b/README.rst @@ -13,7 +13,7 @@ asyncio for concurrency. PVs are served over Channel Access and PVAccess. PyPI ``pip install softioc`` Source code https://github.com/DiamondLightSource/pythonSoftIOC Documentation https://DiamondLightSource.github.io/pythonSoftIOC -Changelog https://github.com/DiamondLightSource/pythonSoftIOC/blob/master/CHANGELOG.rst +Releases https://github.com/DiamondLightSource/pythonSoftIOC/releases ============== ============================================================== A simple example of the use of this library: From bc840fd0f2414c6f515064fa6ec85befa474bc63 Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Wed, 11 Nov 2026 07:45:59 +0000 Subject: [PATCH 09/12] Move CONTRIBUTING to the template's .github/CONTRIBUTING.md The template's text plus our sections (submodule clone, tests, updating dependencies and the epicscorelibs pin, DLS release steps) in Markdown. The stale coverage paragraph and the CHANGELOG release step are dropped. The docs reference page includes it as the template does. Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz8Ac6k38PshyLY6N1C --- .github/CONTRIBUTING.md | 118 ++++++++++++++++++++++++++++++++ CONTRIBUTING.rst | 111 ------------------------------ docs/reference/contributing.md | 4 ++ docs/reference/contributing.rst | 3 - 4 files changed, 122 insertions(+), 114 deletions(-) create mode 100644 .github/CONTRIBUTING.md delete mode 100644 CONTRIBUTING.rst create mode 100644 docs/reference/contributing.md delete mode 100644 docs/reference/contributing.rst diff --git a/.github/CONTRIBUTING.md b/.github/CONTRIBUTING.md new file mode 100644 index 00000000..9a655985 --- /dev/null +++ b/.github/CONTRIBUTING.md @@ -0,0 +1,118 @@ +# Contribute to the project + +Contributions and issues are most welcome! All issues and pull requests are +handled through [GitHub](https://github.com/DiamondLightSource/pythonSoftIOC/issues). Also, please check for any existing issues before +filing a new one. If you have a great idea but it involves big changes, please +file a ticket before making a pull request! We want to make sure you don't spend +your time coding something that might not fit the scope of the project. + +## Issue or Discussion? + +Github also offers [discussions](https://github.com/DiamondLightSource/pythonSoftIOC/discussions) as a place to ask questions and share ideas. If +your issue is open ended and it is not obvious when it can be "closed", please +raise it as a discussion instead. + +## Developer Information + +It is recommended that developers use a [vscode devcontainer](https://code.visualstudio.com/docs/devcontainers/containers). This repository contains configuration to set up a containerized development environment that suits its own needs. + +This project was created using the [Diamond Light Source Copier Template](https://github.com/DiamondLightSource/python-copier-template) for Python projects. + +For more information on common tasks like setting up a developer environment, running the tests, and setting a pre-commit hook, see the template's [How-to guides](https://diamondlightsource.github.io/python-copier-template/5.5.0/how-to.html). + +## Running the tests + +The iocStats sources are a git submodule that is needed to build the +extension, so clone with `--recurse-submodules`. To get the source code and +run the unit tests, run: + +``` +git clone --recurse-submodules https://github.com/DiamondLightSource/pythonSoftIOC.git +cd pythonSoftIOC +uv sync +uv run tox -e tests +``` + +`uv sync` builds the extension and installs it, with the `dev` dependency +group, into a virtual environment. `uv run tox -p` runs the tests, lint, type +checking and docs build in parallel. + +## Updating Dependencies + +pythonSoftIOC has a variety of types of dependencies, from Python modules to +C files and built libraries. If it is necessary to update any of them, the +safest way to do that is: + +``` +# Ensure all changes are committed/saved/backed up +git clean -fdX +# Update dependencies in pyproject.toml / setup.py +uv lock --upgrade +uv sync +``` + +### The epicscorelibs build pin + +The extension is built against epicscorelibs, and the epicscorelibs +dependency of the built package is pinned to the ABI of the version it was +built against. + +- Released wheels and sdists (built by cibuildwheel or pip) use the + epicscorelibs floor in `[build-system] requires` in `pyproject.toml`, so they + always build against the newest epicscorelibs. They need no edit. +- `uv.lock` and the development environment use the epicscorelibs version + pinned by `build-constraint-dependencies` in the `[tool.uv]` section of + `pyproject.toml`. That pin is the only one to change: edit it, then run + `uv lock --upgrade-package epicscorelibs` and `uv sync`. Renovate does not + bump it. + +## Code Styling + +The code in this repository conforms to standards set by the following tools: + +- [ruff](https://docs.astral.sh/ruff/) for style checks +- [pyright](https://microsoft.github.io/pyright/) for type checks + +These are run by `uv run tox -e pre-commit,type-checking` and also +automatically at check in. Please read the tool documentation for details +on how to fix the errors it reports. + +## Documentation + +Documentation is contained in the `docs` directory and extracted from +docstrings of the API. + +Docs follow the underlining convention: + +``` +Headling 1 (page title) +======================= + +Heading 2 +--------- + +Heading 3 +~~~~~~~~~ +``` + +You can build the docs from the project directory by running: + +``` +uv run tox -e docs +firefox build/html/index.html +``` + +## Release Process + +To make a new release, please follow this checklist: + +- Choose a new PEP440 compliant release number +- Git tag the version +- Push to github and the actions will make a release on pypi +- Push to internal gitlab but do not release from there +- Run `dls-py3 download-one-dependency softioc ` +- Run `uv export --frozen --no-dev --all-extras --no-hashes --no-emit-project > /dls_sw/work/python3/RHEL7-x86_64/distributions/softioc-.requirements.txt` +- Run `dls-release.py -a python3ext softioc ` + +Release notes are generated in GitHub Releases from the titles of the merged +pull requests; edit them there to add anything else, such as breaking changes. diff --git a/CONTRIBUTING.rst b/CONTRIBUTING.rst deleted file mode 100644 index 45f0f64e..00000000 --- a/CONTRIBUTING.rst +++ /dev/null @@ -1,111 +0,0 @@ -Contributing -============ - -Contributions and issues are most welcome! All issues and pull requests are -handled through github on the `dls_controls repository`_. Also, please check for -any existing issues before filing a new one. If you have a great idea but it -involves big changes, please file a ticket before making a pull request! We -want to make sure you don't spend your time coding something that might not fit -the scope of the project. - -.. _dls_controls repository: - https://github.com/DiamondLightSource/pythonSoftIOC/issues - -Running the tests ------------------ - -To get the source source code and run the unit tests, run:: - - $ git clone --recurse-submodules https://github.com/DiamondLightSource/pythonSoftIOC.git - $ cd pythonSoftIOC - $ uv sync - $ uv run tox -e tests - -``uv sync`` builds the extension and installs it, with the ``dev`` dependency -group, into a virtual environment. ``uv run tox -p`` runs the tests, lint, type -checking and docs build in parallel. - -This project was created using the `python-copier-template`_; its -`how-to guides`_ describe common tasks such as setting up a developer -environment and installing the pre-commit hooks. - -.. _python-copier-template: - https://github.com/DiamondLightSource/python-copier-template -.. _how-to guides: - https://diamondlightsource.github.io/python-copier-template/5.5.0/how-to.html - -While 100% code coverage does not make a library bug-free, it significantly -reduces the number of easily caught bugs! Please make sure coverage remains the -same or is improved by a pull request! - - -Updating Dependencies ---------------------- - -pythonSoftIoc has a variety of types of dependencies, from Python module to -C files and built libraries. If it is necessary to update any of them, the -safest way to do that is:: - - $ Ensure all changes are committed/saved/backed up - $ git clean -fdX - $ Update dependencies in pyproject.toml / setup.py - $ uv lock --upgrade - $ uv sync - -The epicscorelibs version that the extension is built against is pinned by -``build-constraint-dependencies`` in the ``[tool.uv]`` section of -pyproject.toml. Renovate does not update it, so bump it by hand, then run -``uv lock``, when a new epicscorelibs series is wanted. - -Code Styling ------------- - -The code in this repository conforms to standards set by the following tools: - -- ruff_ for style checks -- pyright_ for type checks - -.. _ruff: https://docs.astral.sh/ruff/ -.. _pyright: https://microsoft.github.io/pyright/ - -These are run by ``uv run tox -e pre-commit,type-checking`` and also -automatically at check in. Please read the tool documentation for details -on how to fix the errors it reports. - -Documentation -------------- - -Documentation is contained in the ``docs`` directory and extracted from -docstrings of the API. - -Docs follow the underlining convention:: - - Headling 1 (page title) - ======================= - - Heading 2 - --------- - - Heading 3 - ~~~~~~~~~ - - -You can build the docs from the project directory by running:: - - $ uv run tox -e docs - $ firefox build/html/index.html - - -Release Process ---------------- - -To make a new release, please follow this checklist: - -- Choose a new PEP440 compliant release number -- Add a release note in CHANGELOG.rst -- Git tag the version -- Push to github and the actions will make a release on pypi -- Push to internal gitlab but do not release from there -- Run ``dls-py3 download-one-dependency softioc `` -- Run ``uv export --frozen --no-dev --all-extras --no-hashes --no-emit-project > /dls_sw/work/python3/RHEL7-x86_64/distributions/softioc-.requirements.txt`` -- Run ``dls-release.py -a python3ext softioc `` diff --git a/docs/reference/contributing.md b/docs/reference/contributing.md new file mode 100644 index 00000000..3e0e18a0 --- /dev/null +++ b/docs/reference/contributing.md @@ -0,0 +1,4 @@ +(contributing)= + +```{include} ../../.github/CONTRIBUTING.md +``` diff --git a/docs/reference/contributing.rst b/docs/reference/contributing.rst deleted file mode 100644 index 2b6578f6..00000000 --- a/docs/reference/contributing.rst +++ /dev/null @@ -1,3 +0,0 @@ -.. _contributing: - -.. include:: ../../CONTRIBUTING.rst From 201df48bb0a24d3de09d868a02d996c23c736cb9 Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Wed, 11 Nov 2026 07:45:59 +0000 Subject: [PATCH 10/12] Adopt the template's docs index and section pages docs/index.md and tutorials/how-to/explanations/reference section pages with glob toctrees replace index.rst, so the pydata theme shows the four sections in the top bar and each section's pages in the sidebar. Content pages stay .rst. The two-column CSS only index.rst used is removed. Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz8Ac6k38PshyLY6N1C --- README.rst | 2 +- docs/_static/theme_overrides.css | 14 ------ docs/conf.py | 8 --- docs/explanations.md | 11 +++++ docs/genindex.md | 3 ++ docs/how-to.md | 10 ++++ docs/index.md | 57 +++++++++++++++++++++ docs/index.rst | 85 -------------------------------- docs/reference.md | 13 +++++ docs/tutorials.md | 11 +++++ 10 files changed, 106 insertions(+), 108 deletions(-) delete mode 100644 docs/_static/theme_overrides.css create mode 100644 docs/explanations.md create mode 100644 docs/genindex.md create mode 100644 docs/how-to.md create mode 100644 docs/index.md delete mode 100644 docs/index.rst create mode 100644 docs/reference.md create mode 100644 docs/tutorials.md diff --git a/README.rst b/README.rst index 116b6ad5..e7b7295b 100644 --- a/README.rst +++ b/README.rst @@ -65,6 +65,6 @@ A simple example of the use of this library: .. Anything below this line is used when viewing README.rst and will be replaced - when included in index.rst + when included in index.md See https://DiamondLightSource.github.io/pythonSoftIOC for more detailed documentation. diff --git a/docs/_static/theme_overrides.css b/docs/_static/theme_overrides.css deleted file mode 100644 index 8aa11727..00000000 --- a/docs/_static/theme_overrides.css +++ /dev/null @@ -1,14 +0,0 @@ -/* Add two-column option */ -@media only screen and (min-width: 1000px) { - .columns { - padding-left: 10px; - padding-right: 10px; - float: left; - width: 50%; - min-height: 145px; - } -} - -.endcolumns { - clear: both -} diff --git a/docs/conf.py b/docs/conf.py index 8b1af3f0..0b6b9759 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -201,14 +201,6 @@ html_logo = "images/softioc-logo.svg" html_favicon = "images/softioc-favicon.ico" -# Add any paths that contain custom static files (such as style sheets) here, -# relative to this directory. They are copied after the builtin static files, -# so a file named "default.css" will overwrite the builtin "default.css". -html_static_path = ["_static"] - -# Add some CSS classes for columns and other tweaks in a custom css file -html_css_files = ["theme_overrides.css"] - # Common links that should be available on every page rst_epilog = """ .. _epicscorelibs: https://github.com/mdavidsaver/epicscorelibs diff --git a/docs/explanations.md b/docs/explanations.md new file mode 100644 index 00000000..69b1e412 --- /dev/null +++ b/docs/explanations.md @@ -0,0 +1,11 @@ +# Explanations + +Explanations of how it works and why it works that way. + +```{toctree} +:maxdepth: 1 +:glob: + +explanations/why-use-pythonSoftIOC +explanations/* +``` diff --git a/docs/genindex.md b/docs/genindex.md new file mode 100644 index 00000000..73f1191b --- /dev/null +++ b/docs/genindex.md @@ -0,0 +1,3 @@ +# Index + + diff --git a/docs/how-to.md b/docs/how-to.md new file mode 100644 index 00000000..6b161417 --- /dev/null +++ b/docs/how-to.md @@ -0,0 +1,10 @@ +# How-to Guides + +Practical step-by-step guides for the more experienced user. + +```{toctree} +:maxdepth: 1 +:glob: + +how-to/* +``` diff --git a/docs/index.md b/docs/index.md new file mode 100644 index 00000000..4f4108ff --- /dev/null +++ b/docs/index.md @@ -0,0 +1,57 @@ +--- +html_theme.sidebar_secondary.remove: true +--- + +```{include} ../README.rst +:parser: rst +:end-before: when included in index.md +``` + + +How the documentation is structured +----------------------------------- + +Documentation is split into [four categories](https://diataxis.fr), also accessible from links in the top bar. + + + +::::{grid} 2 +:gutter: 4 + +:::{grid-item-card} {material-regular}`directions_walk;2em` +```{toctree} +:maxdepth: 2 +tutorials +``` ++++ +Tutorials for installation and typical usage. New users start here. +::: + +:::{grid-item-card} {material-regular}`directions;2em` +```{toctree} +:maxdepth: 2 +how-to +``` ++++ +Practical step-by-step guides for the more experienced user. +::: + +:::{grid-item-card} {material-regular}`info;2em` +```{toctree} +:maxdepth: 2 +explanations +``` ++++ +Explanations of how it works and why it works that way. +::: + +:::{grid-item-card} {material-regular}`menu_book;2em` +```{toctree} +:maxdepth: 2 +reference +``` ++++ +Technical reference material including APIs and release notes. +::: + +:::: diff --git a/docs/index.rst b/docs/index.rst deleted file mode 100644 index 3a222488..00000000 --- a/docs/index.rst +++ /dev/null @@ -1,85 +0,0 @@ -.. include:: ../README.rst - :end-before: when included in index.rst - -How the documentation is structured ------------------------------------ - -Documentation is split into four categories, accessible from links below or in -the side-bar. - -.. rst-class:: columns - -Tutorials -~~~~~~~~~ - -Tutorials for installation, library and commandline usage. New users start here. - -.. rst-class:: columns - -How-to Guides -~~~~~~~~~~~~~ - -Practical step-by-step guides for the more experienced user. - -.. rst-class:: columns - -Explanations -~~~~~~~~~~~~ - -Explanation of how the library works and why it works that way. - -.. rst-class:: columns - -Reference -~~~~~~~~~ - -Technical reference material, for classes, methods, APIs, commands, and contributing to the project. - -.. rst-class:: endcolumns - -About the documentation -~~~~~~~~~~~~~~~~~~~~~~~ - -`Why is the documentation structured this way? `_ - -Table Of Contents ------------------ - -.. toctree:: - :caption: Tutorials - :name: tutorials - :maxdepth: 1 - - tutorials/installation - tutorials/creating-an-ioc - -.. toctree:: - :caption: How-to Guides - :name: how-to - :maxdepth: 1 - - how-to/use-asyncio-in-an-ioc - how-to/use-autosave-in-an-ioc - how-to/make-publishable-ioc - how-to/read-data-from-ioc - how-to/use-soft-records - how-to/build-softioc-with-uv - -.. toctree:: - :caption: Explanations - :name: explanations - :maxdepth: 1 - - explanations/why-use-pythonSoftIOC - explanations/asyncio-cothread-differences - explanations/decisions - -.. toctree:: - :caption: Reference - :name: reference - :maxdepth: 1 - - reference/api - reference/contributing - reference/changelog - Index diff --git a/docs/reference.md b/docs/reference.md new file mode 100644 index 00000000..0887ada4 --- /dev/null +++ b/docs/reference.md @@ -0,0 +1,13 @@ +# Reference + +Technical reference material including APIs and release notes. + +```{toctree} +:maxdepth: 1 +:glob: + +reference/api +reference/* +genindex +Release Notes +``` diff --git a/docs/tutorials.md b/docs/tutorials.md new file mode 100644 index 00000000..bbed3cab --- /dev/null +++ b/docs/tutorials.md @@ -0,0 +1,11 @@ +# Tutorials + +Tutorials for installation and typical usage. New users start here. + +```{toctree} +:maxdepth: 1 +:glob: + +tutorials/installation +tutorials/* +``` From f71bbcc0285ce7552144c0db5c021f73284fd51b Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Wed, 11 Nov 2026 07:54:35 +0000 Subject: [PATCH 11/12] Keep the curated how-to order and fix a CONTRIBUTING typo Co-Authored-By: Claude Opus 5.5 (1M context) Claude-Session: https://claude.ai/code/session_01Uybqz8Ac6k38PshyLY6N1C --- .github/CONTRIBUTING.md | 2 +- docs/how-to.md | 5 +++++ 2 files changed, 6 insertions(+), 1 deletion(-) diff --git a/.github/CONTRIBUTING.md b/.github/CONTRIBUTING.md index 9a655985..8f5e1f71 100644 --- a/.github/CONTRIBUTING.md +++ b/.github/CONTRIBUTING.md @@ -85,7 +85,7 @@ docstrings of the API. Docs follow the underlining convention: ``` -Headling 1 (page title) +Heading 1 (page title) ======================= Heading 2 diff --git a/docs/how-to.md b/docs/how-to.md index 6b161417..17afd0d8 100644 --- a/docs/how-to.md +++ b/docs/how-to.md @@ -6,5 +6,10 @@ Practical step-by-step guides for the more experienced user. :maxdepth: 1 :glob: +how-to/use-asyncio-in-an-ioc +how-to/use-autosave-in-an-ioc +how-to/make-publishable-ioc +how-to/read-data-from-ioc +how-to/use-soft-records how-to/* ``` From 53d46bbc65b7bd9d7f185af42db5bab8edf666e2 Mon Sep 17 00:00:00 2001 From: Giles Knap Date: Wed, 11 Nov 2026 14:06:36 +0000 Subject: [PATCH 12/12] Include README.rst in index.md through eval-rst so it renders as RST MyST's {include} directive ignores the :parser: option and parsed the README as Markdown, so the rendered index page showed the RST source (|ci| badges, the ==== table and .. code:: block) as plain text. An eval-rst fence with a real docutils include parses it as RST, but MyST parses that fence in a scratch document, so substitution definitions in it never resolve and an RST title cannot nest the Markdown headings that follow. So the README now uses plain image directives for its badges (which render the same on GitHub and PyPI) and index.md supplies the H1 itself, including the README from a marker comment after its title. Co-Authored-By: Claude Fable 5.1 Claude-Session: https://claude.ai/code/session_01Uybqz3j1MXkGpuHVYNKjT5 --- README.rst | 35 ++++++++++++++++++----------------- docs/index.md | 9 ++++++--- 2 files changed, 24 insertions(+), 20 deletions(-) diff --git a/README.rst b/README.rst index e7b7295b..0901d8fb 100644 --- a/README.rst +++ b/README.rst @@ -1,7 +1,24 @@ pythonSoftIOC ============= -|ci| |coverage| |pypi_version| |license| +.. + Anything above this line is replaced by the title in docs/index.md + +.. image:: https://github.com/DiamondLightSource/pythonSoftIOC/actions/workflows/ci.yml/badge.svg?branch=master + :target: https://github.com/DiamondLightSource/pythonSoftIOC/actions/workflows/ci.yml + :alt: CI + +.. image:: https://codecov.io/gh/DiamondLightSource/pythonSoftIOC/branch/master/graph/badge.svg + :target: https://codecov.io/gh/DiamondLightSource/pythonSoftIOC + :alt: Test Coverage + +.. image:: https://img.shields.io/pypi/v/softioc.svg + :target: https://pypi.org/project/softioc + :alt: Latest PyPI version + +.. image:: https://img.shields.io/badge/License-Apache%202.0-blue.svg + :target: https://opensource.org/licenses/Apache-2.0 + :alt: Apache License This module allows an EPICS IOC with Python Device Support to be run from within @@ -47,22 +64,6 @@ A simple example of the use of this library: # Finally leave the IOC running with an interactive shell. softioc.interactive_ioc(globals()) -.. |ci| image:: https://github.com/DiamondLightSource/pythonSoftIOC/actions/workflows/ci.yml/badge.svg?branch=master - :target: https://github.com/DiamondLightSource/pythonSoftIOC/actions/workflows/ci.yml - :alt: CI - -.. |coverage| image:: https://codecov.io/gh/DiamondLightSource/pythonSoftIOC/branch/master/graph/badge.svg - :target: https://codecov.io/gh/DiamondLightSource/pythonSoftIOC - :alt: Test Coverage - -.. |pypi_version| image:: https://img.shields.io/pypi/v/softioc.svg - :target: https://pypi.org/project/softioc - :alt: Latest PyPI version - -.. |license| image:: https://img.shields.io/badge/License-Apache%202.0-blue.svg - :target: https://opensource.org/licenses/Apache-2.0 - :alt: Apache License - .. Anything below this line is used when viewing README.rst and will be replaced when included in index.md diff --git a/docs/index.md b/docs/index.md index 4f4108ff..bd672ea9 100644 --- a/docs/index.md +++ b/docs/index.md @@ -2,9 +2,12 @@ html_theme.sidebar_secondary.remove: true --- -```{include} ../README.rst -:parser: rst -:end-before: when included in index.md +# pythonSoftIOC + +```{eval-rst} +.. include:: ../README.rst + :start-after: replaced by the title in docs/index.md + :end-before: when included in index.md ```