recipe eukcc

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

package 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:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see 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:<tag>

(see `eukcc/tags`_ for valid values for ``<tag>``)

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