:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'eukcc' .. highlight: bash eukcc ===== .. conda:recipe:: eukcc :replaces_section_title: :noindex: Check eukaryotic genomes or MAGs for completeness and contamination :homepage: https://github.com/Finn-Lab/EukCC/ :documentation: https://eukcc.readthedocs.io/en/latest/ :license: GPL3 / GNU General Public v3 (GPLv3) :recipe: /`eukcc `_/`meta.yaml `_ .. conda:package:: eukcc |downloads_eukcc| |docker_eukcc| :versions: ``2.1.0-0``,  ``2.0-0``,  ``0.3-0``,  ``0.2-1``,  ``0.2-0``,  ``0.1.5.1-0``,  ``0.1.4.6-0`` :depends bwa: :depends configargparse: :depends epa-ng: ``0.3.8.*`` :depends ete3: :depends hmmer: ``3.3.*`` :depends jsonpickle: :depends metaeuk: ``4.a0f584d.*`` :depends numpy: :depends pplacer: :depends pysam: :depends python: :depends python: ``>=3.6`` :depends samtools: ``>=1.12`` :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 eukcc and update with:: mamba update eukcc To create a new environment, run:: mamba create --name myenvname eukcc 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/eukcc: (see `eukcc/tags`_ for valid values for ````) .. |downloads_eukcc| image:: https://img.shields.io/conda/dn/bioconda/eukcc.svg?style=flat :target: https://anaconda.org/bioconda/eukcc :alt: (downloads) .. |docker_eukcc| image:: https://quay.io/repository/biocontainers/eukcc/status :target: https://quay.io/repository/biocontainers/eukcc .. _`eukcc/tags`: https://quay.io/repository/biocontainers/eukcc?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/eukcc/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/eukcc/README.html