recipe varfish-cli

Command line interface to VarFish via REST API

Homepage:

https://github.com/bihealth/varfish-cli

License:

MIT / MIT

Recipe:

/varfish-cli/meta.yaml

package varfish-cli

versions:

0.6.4-0,  0.6.3-2,  0.6.3-1,  0.6.3-0,  0.6.2-0,  0.5.3-0,  0.5.2-0,  0.5.1-0,  0.4.0-0, 

0.6.4-0,  0.6.3-2,  0.6.3-1,  0.6.3-0,  0.6.2-0,  0.5.3-0,  0.5.2-0,  0.5.1-0,  0.4.0-0,  0.3.4-0,  0.3.3-0,  0.3.2-0,  0.3.0-0,  0.2.8-0,  0.2.7-1,  0.2.7-0,  0.2.6-0,  0.2.4-0

depends attrs:

depends cattrs:

depends jsonschema:

depends logzero:

depends polyleven:

depends pydantic:

>=2.0,<3.0

depends python:

>=3.9

depends python-dateutil:

depends requests:

depends simplejson:

depends tabulate:

depends toml:

depends tqdm:

depends typeguard:

depends typer:

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install varfish-cli

and update with::

   mamba update varfish-cli

To create a new environment, run:

mamba create --name myenvname varfish-cli

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull quay.io/biocontainers/varfish-cli:<tag>

(see `varfish-cli/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/varfish-cli/README.html)