recipe gatb

The Genome Analysis Toolbox with de-Bruijn graph

Homepage:

https://gatb.inria.fr/

License:

AGPL 3.0

Recipe:

/gatb/meta.yaml

package gatb

versions:

1.4.2-5,  1.4.2-4,  1.4.2-3,  1.4.2-2,  1.4.2-1,  1.4.2-0,  1.4.1-3,  1.4.1-2,  1.4.1-1, 

1.4.2-5,  1.4.2-4,  1.4.2-3,  1.4.2-2,  1.4.2-1,  1.4.2-0,  1.4.1-3,  1.4.1-2,  1.4.1-1,  1.4.1-0

depends boost:

depends hdf5:

>=1.14.3,<1.14.4.0a0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends zlib:

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 gatb

and update with::

   mamba update gatb

To create a new environment, run:

mamba create --name myenvname gatb

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/gatb:<tag>

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

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Link to this page

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