:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'sonlib' .. highlight: bash sonlib ====== .. conda:recipe:: sonlib :replaces_section_title: :noindex: Small general purpose library for C and Python with focus on bioinformatics. :homepage: https://github.com/ComparativeGenomicsToolkit/sonLib :license: MIT :recipe: /`sonlib `_/`meta.yaml `_ .. conda:package:: sonlib |downloads_sonlib| |docker_sonlib| :versions: ``2.0.dev88-0``,  ``1.1.0-2``,  ``1.1.0-1``,  ``1.1.0-0`` :depends libgcc-ng: ``>=12`` :depends libzlib: ``>=1.2.13,<1.3.0a0`` :depends networkx: :depends python: ``>=3.10,<3.11.0a0`` :depends python_abi: ``3.10.* *_cp310`` :depends quicktree: ``>=2.5,<3.0a0`` :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 sonlib and update with:: mamba update sonlib To create a new environment, run:: mamba create --name myenvname sonlib 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/sonlib: (see `sonlib/tags`_ for valid values for ````) .. |downloads_sonlib| image:: https://img.shields.io/conda/dn/bioconda/sonlib.svg?style=flat :target: https://anaconda.org/bioconda/sonlib :alt: (downloads) .. |docker_sonlib| image:: https://quay.io/repository/biocontainers/sonlib/status :target: https://quay.io/repository/biocontainers/sonlib .. _`sonlib/tags`: https://quay.io/repository/biocontainers/sonlib?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/sonlib/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/sonlib/README.html