recipe megahit

MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph

Homepage:

https://github.com/voutcn/megahit

License:

GPL / GPL-3.0

Recipe:

/megahit/meta.yaml

Links:

biotools: megahit, doi: 10.1093/bioinformatics/btv033

package megahit

versions:

1.2.9-4,  1.2.9-3,  1.2.9-2,  1.2.9-1,  1.2.9-0,  1.2.8-0,  1.2.7-0,  1.2.6-0,  1.1.3-0, 

1.2.9-4,  1.2.9-3,  1.2.9-2,  1.2.9-1,  1.2.9-0,  1.2.8-0,  1.2.7-0,  1.2.6-0,  1.1.3-0,  1.1.2-1,  1.1.2-0,  1.1.1-0,  1.0.6-1,  1.0.3-1,  1.0.3-0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

depends python:

depends zlib:

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 megahit

and update with::

   mamba update megahit

To create a new environment, run:

mamba create --name myenvname megahit

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/megahit:<tag>

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

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