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توضیحات

A client for interacting with APICURON

ویژگی	مقدار
سیستم عامل	OS Independent
نام فایل	apicuron-client-0.1.3
نام	apicuron-client
نسخه کتابخانه	0.1.3
نگهدارنده	['Charles Tapley Hoyt']
ایمیل نگهدارنده	['cthoyt@gmail.com']
نویسنده	Charles Tapley Hoyt
ایمیل نویسنده	cthoyt@gmail.com
آدرس صفحه اصلی	https://github.com/cthoyt/apicuron-client
آدرس اینترنتی	https://pypi.org/project/apicuron-client/
مجوز	MIT

<h1 align="center"> APICURON Client </h1> <p align="center"> <a href="https://github.com/cthoyt/apicuron-client/actions?query=workflow%3ATests"> <img alt="Tests" src="https://github.com/cthoyt/apicuron-client/workflows/Tests/badge.svg" /> </a> <a href="https://github.com/cthoyt/cookiecutter-python-package"> <img alt="Cookiecutter template from @cthoyt" src="https://img.shields.io/badge/Cookiecutter-snekpack-blue" /> </a> <a href="https://pypi.org/project/apicuron_client"> <img alt="PyPI" src="https://img.shields.io/pypi/v/apicuron_client" /> </a> <a href="https://pypi.org/project/apicuron_client"> <img alt="PyPI - Python Version" src="https://img.shields.io/pypi/pyversions/apicuron_client" /> </a> <a href="https://github.com/cthoyt/apicuron-client/blob/main/LICENSE"> <img alt="PyPI - License" src="https://img.shields.io/pypi/l/apicuron-client" /> </a> <a href='https://apicuron-client.readthedocs.io/en/latest/'> <img src='https://readthedocs.org/projects/apicuron_client/badge/?version=latest' alt='Documentation Status' /> </a> <a href="https://zenodo.org/badge/latestdoi/399071637"> <img src="https://zenodo.org/badge/399071637.svg" alt="DOI"> </a> <a href='https://github.com/psf/black'> <img src='https://img.shields.io/badge/code%20style-black-000000.svg' alt='Code style: black' /> </a> </p> An unofficial client for interacting with the [APICURON](https://apicuron.org/) curation metadatabase. ## 💪 Getting Started The following example shows how you can prepare a submission of a new resource to APICURON. Because `apicuron_client` uses PyDantic under the hood, the JSON is validated and automatically converted into programmatic models. The `Description.update_remote()` function takes care of interacting with the API and loading the `APICURON_TOKEN` from the environment or a config file with [`pystow`](https://github.com/cthoyt/pystow). ```python from apicuron_client import Description payload = { "resource_id": "Biomappings", "resource_name": "Biomappings", "resource_uri": "https://biomappings.github.io/biomappings/", "resource_url": "https://biomappings.github.io/biomappings/", "resource_long_name": "Biomappings", "resource_description": "Community curated and predicted equivalences and related mappings between named biological entities that are not available from primary sources.", "terms_def": [ { "activity_term": "novel_curation", "activity_name": "Curated novel mapping", "activity_category": "generation", "score": 50, "description": "Curated a novel mapping between two entities" }, { "activity_term": "validate_prediction", "activity_name": "Validate predicted mapping", "activity_category": "generation", "score": 50, "description": "Affirmed the correctness of a predicted mapping" }, { "activity_term": "invalidate_prediction", "activity_name": "Invalidate predicted mapping", "activity_category": "generation", "score": 50, "description": "Affirmed the incorrectness of a predicted mapping" } ], "achievements_def": [ { "category": "1", "name": "Newbie curator", "count_threshold": 10, "type": "badge", "list_terms": [ "novel_curation", "validate_prediction", "invalidate_prediction" ], "color_code": "#055701" } ] } description = Description(**payload) description.update_remote() ``` The results can then be seen on the APICURON website at https://apicuron.org/database?resource_uri=https:%2F%2Fbiomappings.github.io%2Fbiomappings%2F.  ## 🚀 Installation The most recent release can be installed from [PyPI](https://pypi.org/project/apicuron_client/) with: ```bash $ pip install apicuron_client ``` The most recent code and data can be installed directly from GitHub with: ```bash $ pip install git+https://github.com/cthoyt/apicuron-client.git ``` To install in development mode, use the following: ```bash $ git clone git+https://github.com/cthoyt/apicuron-client.git $ cd apicuron-client $ pip install -e . ``` ## 👐 Contributing Contributions, whether filing an issue, making a pull request, or forking, are appreciated. See [CONTRIBUTING.rst](https://github.com/cthoyt/apicuron-client/blob/master/CONTRIBUTING.rst) for more information on getting involved. ## 👀 Attribution ### ⚖️ License The code in this package is licensed under the MIT License. ### 📖 Citation This project isn't officially from the APICURON team, but if you like it, please cite their paper: ```bibtex @article{Hatos2021, author = {Hatos, Andr{\'{a}}s and Quaglia, Federica and Piovesan, Damiano and Tosatto, Silvio C E}, doi = {10.1093/database/baab019}, issn = {1758-0463}, journal = {Database}, month = {apr}, title = {{APICURON: a database to credit and acknowledge the work of biocurators}}, url = {https://academic.oup.com/database/article/doi/10.1093/database/baab019/6244733}, volume = {2021}, year = {2021} } ``` ## Acknowledgements   ### 🍪 Cookiecutter This package was created with [@audreyfeldroy](https://github.com/audreyfeldroy)'s [cookiecutter](https://github.com/cookiecutter/cookiecutter) package using [@cthoyt](https://github.com/cthoyt)'s [cookiecutter-snekpack](https://github.com/cthoyt/cookiecutter-snekpack) template. ## 🛠️ For Developers The final section of the README is for if you want to get involved by making a code contribution. ### ❓ Testing After cloning the repository and installing `tox` with `pip install tox`, the unit tests in the `tests/` folder can be run reproducibly with: ```shell $ tox ``` Additionally, these tests are automatically re-run with each commit in a [GitHub Action](https://github.com/cthoyt/apicuron-client/actions?query=workflow%3ATests). ### 📦 Making a Release After installing the package in development mode and installing `tox` with `pip install tox`, the commands for making a new release are contained within the `finish` environment in `tox.ini`. Run the following from the shell: ```shell $ tox -e finish ``` This script does the following: 1. Uses BumpVersion to switch the version number in the `setup.cfg` and `src/apicuron_client/version.py` to not have the `-dev` suffix 2. Packages the code in both a tar archive and a wheel 3. Uploads to PyPI using `twine`. Be sure to have a `.pypirc` file configured to avoid the need for manual input at this step 4. Push to GitHub. You'll need to make a release going with the commit where the version was bumped. 5. Bump the version to the next patch. If you made big changes and want to bump the version by minor, you can use `tox -e bumpversion minor` after.

نیازمندی

مقدار	نام
-	click
-	more-click
-	pystow
-	pydantic
-	requests
-	sphinx
-	sphinx-rtd-theme
-	sphinx-click
-	sphinx-autodoc-typehints
-	sphinx-automodapi
-	pytest
-	coverage

زبان مورد نیاز

مقدار	نام
>=3.6	Python

نحوه نصب

نصب پکیج whl apicuron-client-0.1.3:

pip install apicuron-client-0.1.3.whl

نصب پکیج tar.gz apicuron-client-0.1.3:

pip install apicuron-client-0.1.3.tar.gz