:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'mykatlas' .. highlight: bash mykatlas ======== .. conda:recipe:: mykatlas :replaces_section_title: :noindex: Assists in discoveries of antibiotic\-resistance with mykrobe :homepage: http://github.com/phelimb/atlas :license: MIT / MIT :recipe: /`mykatlas `_/`meta.yaml `_ .. conda:package:: mykatlas |downloads_mykatlas| |docker_mykatlas| :versions: ``0.6.1-6``,  ``0.6.1-5``,  ``0.6.1-4``,  ``0.6.1-3``,  ``0.6.1-2``,  ``0.6.1-1``,  ``0.6.1-0`` :depends biopython: :depends future: :depends ga4ghmongo: :depends mongoengine: :depends python: ``>=3.8,<3.9.0a0`` :depends python_abi: ``3.8.* *_cp38`` :depends pyvcf: :depends redis-py: :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`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 mykatlas and update with:: mamba update mykatlas To create a new environment, run:: mamba create --name myenvname mykatlas 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/mykatlas: (see `mykatlas/tags`_ for valid values for ````) .. |downloads_mykatlas| image:: https://img.shields.io/conda/dn/bioconda/mykatlas.svg?style=flat :target: https://anaconda.org/bioconda/mykatlas :alt: (downloads) .. |docker_mykatlas| image:: https://quay.io/repository/biocontainers/mykatlas/status :target: https://quay.io/repository/biocontainers/mykatlas .. _`mykatlas/tags`: https://quay.io/repository/biocontainers/mykatlas?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html Link to this page ----------------- Render an |install-with-bioconda| 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/mykatlas/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/mykatlas/README.html