:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'gatb' .. highlight: bash gatb ==== .. conda:recipe:: gatb :replaces_section_title: :noindex: The Genome Analysis Toolbox with de\-Bruijn graph :homepage: https://gatb.inria.fr/ :license: AGPL 3.0 :recipe: /`gatb `_/`meta.yaml `_ .. conda:package:: gatb |downloads_gatb| |docker_gatb| :versions: ``1.4.2-3``,  ``1.4.2-2``,  ``1.4.2-1``,  ``1.4.2-0``,  ``1.4.1-3``,  ``1.4.1-2``,  ``1.4.1-1``,  ``1.4.1-0`` :depends boost: ``>=1.78.0,<1.78.1.0a0`` :depends hdf5: ``>=1.12.2,<1.12.3.0a0`` :depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :depends libzlib: ``>=1.2.13,<1.3.0a0`` :depends zlib: :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 gatb and update with:: mamba update gatb To create a new environment, run:: mamba create --name myenvname gatb 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/gatb: (see `gatb/tags`_ for valid values for ````) .. |downloads_gatb| image:: https://img.shields.io/conda/dn/bioconda/gatb.svg?style=flat :target: https://anaconda.org/bioconda/gatb :alt: (downloads) .. |docker_gatb| image:: https://quay.io/repository/biocontainers/gatb/status :target: https://quay.io/repository/biocontainers/gatb .. _`gatb/tags`: https://quay.io/repository/biocontainers/gatb?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/gatb/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/gatb/README.html