recipe datma

DistributedAuTomaticMetagenomicAssembly andAnnotation framework

Homepage:

https://github.com/andvides/DATMA

License:

GPL / GPL-3.0

Recipe:

/datma/meta.yaml

package datma

versions:

2.0-0,  1.0-0

depends blast:

depends bwa:

depends checkm-genome:

depends clame:

1.*

depends flash2:

depends kaiju:

depends krona:

depends matplotlib-base:

depends megahit:

depends mergenotcombined:

depends numpy:

depends prodigal:

depends python:

depends quast:

depends rapifilt:

depends rdp_classifier:

depends samtools:

depends sdsl-lite:

depends selectfasta:

depends spades:

depends trimmomatic:

depends velvet:

requirements:

additional platforms:

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 datma

and update with::

   mamba update datma

To create a new environment, run:

mamba create --name myenvname datma

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/datma:<tag>

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

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