:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'jolytree' .. highlight: bash jolytree ======== .. conda:recipe:: jolytree :replaces_section_title: :noindex: Fast alignment\-free phylogenetic reconstruction from genome sequences :homepage: https://research.pasteur.fr/fr/software/jolytree/ :license: GPL / GPLv3 :recipe: /`jolytree `_/`meta.yaml `_ .. conda:package:: jolytree |downloads_jolytree| |docker_jolytree| :versions: ``1.1b-1``,  ``1.1b-0`` :depends fastme: ``>=2.1.5`` :depends gawk: ``>=4.1.3`` :depends mash: ``>=1.0.2`` :depends req: ``>=v1.3.190304ac`` :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 jolytree and update with:: mamba update jolytree To create a new environment, run:: mamba create --name myenvname jolytree 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/jolytree: (see `jolytree/tags`_ for valid values for ````) .. |downloads_jolytree| image:: https://img.shields.io/conda/dn/bioconda/jolytree.svg?style=flat :target: https://anaconda.org/bioconda/jolytree :alt: (downloads) .. |docker_jolytree| image:: https://quay.io/repository/biocontainers/jolytree/status :target: https://quay.io/repository/biocontainers/jolytree .. _`jolytree/tags`: https://quay.io/repository/biocontainers/jolytree?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/jolytree/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/jolytree/README.html