Metadata-Version: 2.1
Name: cg
Version: 36.0.1
Summary: Clinical Genomics command center
Home-page: https://github.com/Clinical-Genomics/cg
Author: Clinical Genomics
Author-email: support@clinicalgenomics.se
License: UNKNOWN
Description: 
        # cg
        ![Build Status - Github][gh-actions-badge]
        [![Coverage Status][coveralls-image]][coveralls-url]
        [![GitHub issues-closed][closed-issues-img]][closed-issues-url]
        [![Average time to resolve an issue][ismaintained-resolve-img]][ismaintained-resolve-url]
        [![Percentage of issues still open][ismaintained-open-rate-img]][ismaintained-open-rate-url]
        [![CodeFactor][codefactor-badge]][codefactor-url]
        [![Code style: black][black-image]][black-url]
        
        
        `cg` stands for _Clinical Genomics_; a clinical sequencing platform under [SciLifeLab][scilife]
        
        In this context, `cg` provides the interface between these tools to facilitate automation and other necessary cross-talk. It also exposes some APIs:
        
        - HTTP REST for powering the web portal: [clinical.scilifelab.se][portal]
        - CLI for interactions on the command line
        
        ### Contributing
        
        Please check out our [guide for contributing to cg](CONTRIBUTING.md)
        
        ## Installation
        
        Cg written in Python 3.6+ and is available on the [Python Package Index][pypi] (PyPI).
        
        ```bash
        pip install cg
        ```
        
        If you would like to install the latest development version:
        
        ```bash
        git clone https://github.com/Clinical-Genomics/cg
        cd cg
        ```
        To install CG either use pipenv (as described in contributing) and run
        ```
        pipenv install -e .
        ```
        
        or (without pipenv)
        
        ```
        pip install -r requirements-dev.txt --editable .
        ```
        
        
        [portal]: https://clinical.scilifelab.se/
        [trailblazer]: https://github.com/Clinical-Genomics/trailblazer
        [housekeeper]: https://github.com/Clinical-Genomics/housekeeper
        [genotype]: https://github.com/Clinical-Genomics/genotype
        [scilife]: https://www.scilifelab.se/
        [pypi]: https://pypi.org/
        
        
        [black]: https://black.readthedocs.io/en/stable/
        
        <!-- badges -->
        
        [coveralls-url]: https://coveralls.io/github/Clinical-Genomics/cg
        [coveralls-image]: https://coveralls.io/repos/github/Clinical-Genomics/cg/badge.svg?branch=master
        
        [gh-actions-badge]: https://github.com/Clinical-Genomics/cg/workflows/Tests%20and%20coveralls/badge.svg
        [closed-issues-img]: https://img.shields.io/github/issues-closed/Clinical-Genomics/cg.svg
        [closed-issues-url]: https://GitHub.com/Clinical-Genomics/cg/issues?q=is%3Aissue+is%3Aclosed
        [ismaintained-resolve-img]: http://isitmaintained.com/badge/resolution/Clinical-Genomics/cg.svg
        [ismaintained-resolve-url]: http://isitmaintained.com/project/Clinical-Genomics/cg
        [ismaintained-open-rate-img]: http://isitmaintained.com/badge/open/Clinical-Genomics/cg.svg
        [ismaintained-open-rate-url]: http://isitmaintained.com/project/Clinical-Genomics/cg
        [codefactor-badge]: https://www.codefactor.io/repository/github/clinical-genomics/cg/badge
        [codefactor-url]: https://www.codefactor.io/repository/github/clinical-genomics/cg
        [black-image]: https://img.shields.io/badge/code%20style-black-000000.svg
        [black-url]: https://github.com/psf/black
        
Platform: UNKNOWN
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3.6
Classifier: Programming Language :: Python :: Implementation :: CPython
Description-Content-Type: text/markdown
