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biothings-0.9.1
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مشاهده بیشترتوضیحات
a toolkit for building high-performance data APIs in biology
| ویژگی | مقدار |
|---|---|
| سیستم عامل | - |
| نام فایل | biothings-0.9.1 |
| نام | biothings |
| نسخه کتابخانه | 0.9.1 |
| نگهدارنده | [] |
| ایمیل نگهدارنده | [] |
| نویسنده | Sebastien Lelong, Zhongchao Qian, Xinghua Zhou, Chunlei Wu |
| ایمیل نویسنده | cwu@scripps.edu |
| آدرس صفحه اصلی | https://github.com/biothings/biothings.api |
| آدرس اینترنتی | https://pypi.org/project/biothings/ |
| مجوز | Apache License, Version 2.0 |
[](https://pepy.tech/project/biothings)
[](https://pypi.python.org/pypi/biothings)
[](https://pypi.python.org/pypi/biothings)
[](https://pypi.python.org/pypi/biothings)
[](https://pypi.python.org/pypi/biothings)
[](CODE_OF_CONDUCT.md)
[](https://github.com/biothings/biothings.api/actions/workflows/test-build.yml)
[](https://github.com/biothings/biothings.api/actions/workflows/run-tests.yml)
[](https://docs.biothings.io/en/latest/?badge=latest)
# BioThings SDK
## Quick Summary
BioThings SDK provides a Python-based toolkit to build high-performance data APIs (or web services) from a single data source or multiple data sources. It has the particular focus on building data APIs for biomedical-related entities, a.k.a "BioThings" (such as genes, genetic variants, drugs, chemicals, diseases, etc.).
Documentation about BioThings SDK can be found at https://docs.biothings.io
## Introduction
### What's BioThings?
We use "**BioThings**" to refer to objects of any biomedical entity-type
represented in the biological knowledge space, such as genes, genetic
variants, drugs, chemicals, diseases, etc.
### BioThings SDK
SDK represents "Software Development Kit". BioThings SDK provides a
[Python-based](https://www.python.org/) toolkit to build
high-performance data APIs (or web services) from a single data source
or multiple data sources. It has the particular focus on building data
APIs for biomedical-related entities, a.k.a "*BioThings*", though it's
not necessarily limited to the biomedical scope. For any given
"*BioThings*" type, BioThings SDK helps developers to aggregate
annotations from multiple data sources, and expose them as a clean and
high-performance web API.
The BioThings SDK can be roughly divided into two main components: data
hub (or just "hub") component and web component. The hub component
allows developers to automate the process of monitoring, parsing and
uploading your data source to an
[Elasticsearch](https://www.elastic.co/products/elasticsearch) backend.
From here, the web component, built on the high-concurrency [Tornado Web
Server](http://www.tornadoweb.org/en/stable/) , allows you to easily
setup a live high-performance API. The API endpoints expose
simple-to-use yet powerful query features using [Elasticsearch's
full-text query capabilities and query
language](https://www.elastic.co/guide/en/elasticsearch/reference/2.4/query-dsl-query-string-query.html#query-string-syntax).
### BioThings API
We also use "*BioThings API*" (or *BioThings APIs*) to refer to an API
(or a collection of APIs) built with BioThings SDK. For example, both
our popular [MyGene.Info](http://mygene.info/) and
[MyVariant.Info](http://myvariant.info/) APIs are built and maintained
using this BioThings SDK.
### BioThings Studio
*BioThings Studio* is a buildin, pre-configured environment used to build and
administer a BioThings API. At its core is the *Hub*, a backend service responsible for maintaining data up-to-date, producing data releases and
update API frontends.
## Installing BioThings SDK
You can install the latest stable BioThings SDK release with pip from
[PyPI](https://pypi.python.org/pypi), like:
pip install biothings
You can install the latest development version of BioThings SDK directly
from our github repository like:
pip install git+https://github.com/biothings/biothings.api.git#egg=biothings
Alternatively, you can download the source code, or clone the [BioThings
SDK repository](https://github.com/biothings/biothings.api) and run:
python setup.py install
## Get started to build a BioThings API
We recommend to follow [this tutorial](https://docs.biothings.io/en/latest/tutorial/studio.html) to develop your first BioThings API in our pre-configured **BioThings Studio** development environment.
## Documentation
The latest documentation is available at https://docs.biothings.io.
## How to contribute
Please check out this [Contribution Guidelines](CONTRIBUTING.md) and [Code of Conduct](CODE_OF_CONDUCT.md) document.
نیازمندی
| مقدار | نام |
|---|---|
| - | boto3 |
| >=2.21.0 | requests |
| - | requests-aws4auth |
| >=3.1.0 | gitpython |
| <8,>=7 | elasticsearch[async] |
| <8,>=7 | elasticsearch-dsl |
| >=5.1 | PyYAML |
| >=3.6.1 | orjson |
| ==6.1.0 | tornado |
| - | dataclasses |
| - | singledispatchmethod |
| ==6.2.0 | tornado |
| >=0.6.1 | msgpack |
| >=1.5.3 | sentry-sdk |
| - | beautifulsoup4 |
| ==1.8 | aiocron |
| ==3.8.1 | aiohttp |
| ==2.11.0 | asyncssh |
| <5.0,>=4.1.0 | pymongo |
| - | psutil |
| - | jsonpointer |
| - | IPython |
| - | multiprocessing-on-dill |
| - | dill |
| - | prettytable |
| ==1.0.7 | sockjs-tornado |
| >=2.6.0 | jsonschema |
| - | pip |
| - | yapf |
| - | requests-aws4auth |
| <2.6,>=2.1 | networkx |
| >=0.2.6 | biothings-client |
| - | pytest |
| - | pytest-mock |
| ==2.17.0 | pre-commit |
| >=2.4.3 | sphinx |
| >=1.0.0 | sphinx-rtd-theme |
| >=0.0.1 | sphinx-reredirects |
| - | pyinotify |
| - | beautifulsoup4 |
| ==1.8 | aiocron |
| ==3.8.1 | aiohttp |
| ==2.11.0 | asyncssh |
| <5.0,>=4.1.0 | pymongo |
| - | psutil |
| - | jsonpointer |
| - | IPython |
| - | multiprocessing-on-dill |
| - | dill |
| - | prettytable |
| ==1.0.7 | sockjs-tornado |
| >=2.6.0 | jsonschema |
| - | pip |
| - | yapf |
| - | requests-aws4auth |
| <2.6,>=2.1 | networkx |
| >=0.2.6 | biothings-client |
| - | pyinotify |
| >=0.6.1 | msgpack |
| >=1.5.3 | sentry-sdk |
زبان مورد نیاز
| مقدار | نام |
|---|---|
| >=3.6 | Python |
نحوه نصب
نصب پکیج whl biothings-0.9.1:
pip install biothings-0.9.1.whl
نصب پکیج tar.gz biothings-0.9.1:
pip install biothings-0.9.1.tar.gz