From 93900c38754ff7ddbd119b84858c84db39da6330 Mon Sep 17 00:00:00 2001 From: Benoit Seignovert Date: Mon, 29 Jan 2024 11:31:49 +0100 Subject: [PATCH] Initial commit --- .gitignore | 176 ++++ .pre-commit-config.yaml | 10 + LICENSE.md | 29 + README.md | 23 + poetry.lock | 1398 ++++++++++++++++++++++++++++++++ pyproject.toml | 56 ++ src/glicid_spawner/__init__.py | 7 + 7 files changed, 1699 insertions(+) create mode 100644 .gitignore create mode 100644 .pre-commit-config.yaml create mode 100644 LICENSE.md create mode 100644 README.md create mode 100644 poetry.lock create mode 100644 pyproject.toml create mode 100644 src/glicid_spawner/__init__.py diff --git a/.gitignore b/.gitignore new file mode 100644 index 0000000..ad4a1f1 --- /dev/null +++ b/.gitignore @@ -0,0 +1,176 @@ +# Created by https://www.toptal.com/developers/gitignore/api/python +# Edit at https://www.toptal.com/developers/gitignore?templates=python + +### Python ### +# Byte-compiled / optimized / DLL files +__pycache__/ +*.py[cod] +*$py.class + +# C extensions +*.so + +# Distribution / packaging +.Python +build/ +develop-eggs/ +dist/ +downloads/ +eggs/ +.eggs/ +lib/ +lib64/ +parts/ +sdist/ +var/ +wheels/ +share/python-wheels/ +*.egg-info/ +.installed.cfg +*.egg +MANIFEST + +# PyInstaller +# Usually these files are written by a python script from a template +# before PyInstaller builds the exe, so as to inject date/other infos into it. +*.manifest +*.spec + +# Installer logs +pip-log.txt +pip-delete-this-directory.txt + +# Unit test / coverage reports +htmlcov/ +.tox/ +.nox/ +.coverage +.coverage.* +.cache +nosetests.xml +coverage.xml +*.cover +*.py,cover +.hypothesis/ +.pytest_cache/ +cover/ + +# Translations +*.mo +*.pot + +# Django stuff: +*.log +local_settings.py +db.sqlite3 +db.sqlite3-journal + +# Flask stuff: +instance/ +.webassets-cache + +# Scrapy stuff: +.scrapy + +# Sphinx documentation +docs/_build/ + +# PyBuilder +.pybuilder/ +target/ + +# Jupyter Notebook +.ipynb_checkpoints + +# IPython +profile_default/ +ipython_config.py + +# pyenv +# For a library or package, you might want to ignore these files since the code is +# intended to run in multiple environments; otherwise, check them in: +# .python-version + +# pipenv +# According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control. +# However, in case of collaboration, if having platform-specific dependencies or dependencies +# having no cross-platform support, pipenv may install dependencies that don't work, or not +# install all needed dependencies. +#Pipfile.lock + +# poetry +# Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control. +# This is especially recommended for binary packages to ensure reproducibility, and is more +# commonly ignored for libraries. +# https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control +#poetry.lock + +# pdm +# Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control. +#pdm.lock +# pdm stores project-wide configurations in .pdm.toml, but it is recommended to not include it +# in version control. +# https://pdm.fming.dev/#use-with-ide +.pdm.toml + +# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm +__pypackages__/ + +# Celery stuff +celerybeat-schedule +celerybeat.pid + +# SageMath parsed files +*.sage.py + +# Environments +.env +.venv +env/ +venv/ +ENV/ +env.bak/ +venv.bak/ + +# Spyder project settings +.spyderproject +.spyproject + +# Rope project settings +.ropeproject + +# mkdocs documentation +/site + +# mypy +.mypy_cache/ +.dmypy.json +dmypy.json + +# Pyre type checker +.pyre/ + +# pytype static type analyzer +.pytype/ + +# Cython debug symbols +cython_debug/ + +# PyCharm +# JetBrains specific template is maintained in a separate JetBrains.gitignore that can +# be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore +# and can be added to the global gitignore or merged into this file. For a more nuclear +# option (not recommended) you can uncomment the following to ignore the entire idea folder. +#.idea/ + +### Python Patch ### +# Poetry local configuration file - https://python-poetry.org/docs/configuration/#local-configuration +poetry.toml + +# ruff +.ruff_cache/ + +# LSP config files +pyrightconfig.json + +# End of https://www.toptal.com/developers/gitignore/api/python diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml new file mode 100644 index 0000000..890226e --- /dev/null +++ b/.pre-commit-config.yaml @@ -0,0 +1,10 @@ +repos: +- repo: https://github.com/astral-sh/ruff-pre-commit + # Ruff version. + rev: v0.1.14 + hooks: + # Run the linter. + - id: ruff + args: [ --fix ] + # Run the formatter. + - id: ruff-format diff --git a/LICENSE.md b/LICENSE.md new file mode 100644 index 0000000..ec44a9a --- /dev/null +++ b/LICENSE.md @@ -0,0 +1,29 @@ +BSD 3-Clause License + +Copyright (c) 2024, GLiCID / Osuna / Nantes Université / CNRS +All rights reserved. + +Redistribution and use in source and binary forms, with or without +modification, are permitted provided that the following conditions are met: + +* Redistributions of source code must retain the above copyright notice, this + list of conditions and the following disclaimer. + +* Redistributions in binary form must reproduce the above copyright notice, + this list of conditions and the following disclaimer in the documentation + and/or other materials provided with the distribution. + +* Neither the name of the copyright holder nor the names of its + contributors may be used to endorse or promote products derived from + this software without specific prior written permission. + +THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" +AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE +IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE +DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE +FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL +DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR +SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER +CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, +OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE +OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. diff --git a/README.md b/README.md new file mode 100644 index 0000000..35694c6 --- /dev/null +++ b/README.md @@ -0,0 +1,23 @@ +JupyterHub Batch Spawner for GLiCID +=================================== + +Setup +----- +This package is managed by [Poetry](https://python-poetry.org/): +```bash +git clone https://gitlab.univ-nantes.fr/glicid/jupyter/spawner glicid-spawner +cd glicid-spawner +poetry install +poetry run pre-commit install +``` +To activate the virtual environement: +```bash +source .venv/bin/activate +``` + + +External ressources +------------------- +- https://gitlab.com/ifb-elixirfr/cluster/utils/slurmspawner/ +- https://gitlab.com/idris-cnrs/jupyter/jupyter-jeanzay-spawner/ +- https://github.com/jupyterhub/batchspawner diff --git a/poetry.lock b/poetry.lock new file mode 100644 index 0000000..1323031 --- /dev/null +++ b/poetry.lock @@ -0,0 +1,1398 @@ +# This file is automatically @generated by Poetry 1.7.1 and should not be changed by hand. + +[[package]] +name = "alembic" +version = "1.13.1" +description = "A database migration tool for SQLAlchemy." +optional = false +python-versions = ">=3.8" +files = [ + {file = "alembic-1.13.1-py3-none-any.whl", hash = "sha256:2edcc97bed0bd3272611ce3a98d98279e9c209e7186e43e75bbb1b2bdfdbcc43"}, + {file = "alembic-1.13.1.tar.gz", hash = "sha256:4932c8558bf68f2ee92b9bbcb8218671c627064d5b08939437af6d77dc05e595"}, +] + +[package.dependencies] +Mako = "*" +SQLAlchemy = ">=1.3.0" +typing-extensions = ">=4" + 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"60f3a95324878520ad093a1ca89718e8edc1f61743943c46698f7fcc79823d9b" diff --git a/pyproject.toml b/pyproject.toml new file mode 100644 index 0000000..755aaab --- /dev/null +++ b/pyproject.toml @@ -0,0 +1,56 @@ +[tool.poetry] +name = "glicid-spawner" +version = "0.0.1" +description = "JupyterHub Batch Spawner for GLiCID" +authors = ["Benoit Seignovert "] +license = "BSD 3-Clause License" +readme = "README.md" +repository = "https://gitlab.univ-nantes.fr/glicid/jupyter/spawner" +packages = [{ include = "glicid_spawner", from = "src"}] + +[tool.poetry.dependencies] +python = "^3.10" +jupyterhub = "^4.0" +batchspawner = {git = "https://github.com/jupyterhub/batchspawner.git", rev = "main"} + +[tool.poetry.group.dev.dependencies] +pre-commit = "^3.6.0" +pytest = "^8.0.0" +ruff = "^0.1.14" + +[tool.ruff] +line-length = 100 + +[tool.ruff.lint] +select = [ + "F", # Pyflakes + "E", # pycodestyle + "W", # pycodestyle + "PL", # Pylint + "I", # isort + "N", # pep8-naming + "C90", # mccabe + "UP", # pyupgrade + "S", # flake8-bandit + "A", # flake8-builtins + "B", # flake8-bugbear + "SIM", # flake8-simplify + "COM", # flake8-commas + "C4", # flake8-comprehensions + "T20", # flake8-print + "Q", # flake8-quotes + "RSE", # flake8-raise + "RET", # flake8-return +] +ignore = ["COM812"] # disable ruff format warning + +[tool.ruff.format] +quote-style = "single" + +[tool.ruff.lint.flake8-quotes] +inline-quotes = "single" +docstring-quotes = "double" + +[build-system] +requires = ["poetry-core"] +build-backend = "poetry.core.masonry.api" diff --git a/src/glicid_spawner/__init__.py b/src/glicid_spawner/__init__.py new file mode 100644 index 0000000..8b6606c --- /dev/null +++ b/src/glicid_spawner/__init__.py @@ -0,0 +1,7 @@ +"""GLiCID spawner module.""" + +from importlib.metadata import version + +__all__ = [] + +__version__ = version('glicid-spawner')