:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'paragraph' .. highlight: bash paragraph ========= .. conda:recipe:: paragraph :replaces_section_title: :noindex: Graph realignment tools for structural variants :homepage: https://github.com/Illumina/paragraph :license: Apache License 2.0 :recipe: /`paragraph `_/`meta.yaml `_ .. conda:package:: paragraph |downloads_paragraph| |docker_paragraph| :versions: ``2.3-1``,  ``2.3-0``,  ``2.2b-0``,  ``2.2a-0`` :depends bzip2: ``>=1.0.8,<2.0a0`` :depends htslib: ``>=1.10.2,<1.20.0a0`` :depends intervaltree: :depends jsonschema: :depends libgcc-ng: ``>=7.5.0`` :depends libstdcxx-ng: ``>=7.5.0`` :depends pysam: :depends python: ``>=3`` :depends zlib: ``>=1.2.11,<1.3.0a0`` :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 paragraph and update with:: mamba update paragraph To create a new environment, run:: mamba create --name myenvname paragraph 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/paragraph: (see `paragraph/tags`_ for valid values for ````) .. |downloads_paragraph| image:: https://img.shields.io/conda/dn/bioconda/paragraph.svg?style=flat :target: https://anaconda.org/bioconda/paragraph :alt: (downloads) .. |docker_paragraph| image:: https://quay.io/repository/biocontainers/paragraph/status :target: https://quay.io/repository/biocontainers/paragraph .. _`paragraph/tags`: https://quay.io/repository/biocontainers/paragraph?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/paragraph/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/paragraph/README.html