recipe ratatoskr

Tool for collecting and downloading taxonomic type strain data.

Homepage:

https://github.com/Fabian-Bastiaanssen/Ratatoskr

License:

MIT

Recipe:

/ratatoskr/meta.yaml

package ratatoskr

versions:

1.0.2-0

depends async-dsmz:

>=2025.0.5

depends bacdive:

1.0.0

depends biopython:

>=1.86

depends loguru:

>=0.7.2

depends lpsn:

1.0.0

depends ncbi-datasets-cli:

>=18.10.2

depends polars:

>=1.32.2

depends pyarrow:

>=13.0.0

depends python:

>=3.12

depends rich-click:

>=1.8.8

depends tqdm:

>=4.66.1

requirements:

additional platforms:

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 ratatoskr

and update with::

   mamba update ratatoskr

To create a new environment, run:

mamba create --name myenvname ratatoskr

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/ratatoskr:<tag>

(see `ratatoskr/tags`_ for valid values for ``<tag>``)

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Link to this page

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