:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'iva' .. highlight: bash iva === .. conda:recipe:: iva :replaces_section_title: :noindex: Iterative Virus Assembler :homepage: https://github.com/sanger-pathogens/iva :license: GPL / GPLv3 :recipe: /`iva `_/`meta.yaml `_ .. conda:package:: iva |downloads_iva| |docker_iva| :versions: ``1.0.11-0``,  ``1.0.9-2``,  ``1.0.9-1``,  ``1.0.9-0``,  ``1.0.7-0``,  ``1.0.6-0`` :depends kmc: :depends mummer: :depends networkx: ``>=1.7`` :depends packaging: :depends pyfastaq: ``>=3.10.0`` :depends pysam: ``>=0.8.1`` :depends python: ``>=3`` :depends samtools: :depends smalt: :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 iva and update with:: mamba update iva To create a new environment, run:: mamba create --name myenvname iva 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/iva: (see `iva/tags`_ for valid values for ````) .. |downloads_iva| image:: https://img.shields.io/conda/dn/bioconda/iva.svg?style=flat :target: https://anaconda.org/bioconda/iva :alt: (downloads) .. |docker_iva| image:: https://quay.io/repository/biocontainers/iva/status :target: https://quay.io/repository/biocontainers/iva .. _`iva/tags`: https://quay.io/repository/biocontainers/iva?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/iva/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/iva/README.html