recipe krakenuniq

Metagenomics classifier with unique k-mer counting for more specific results

Homepage:

https://github.com/fbreitwieser/krakenuniq

License:

GPLv3

Recipe:

/krakenuniq/meta.yaml

Links:

biotools: krakenhll

package krakenuniq

versions:

1.0.4-1,  1.0.4-0,  1.0.3-2,  1.0.3-1,  1.0.3-0,  1.0.2-0,  1.0.1a-1,  1.0.1a-0,  1.0.0-0, 

1.0.4-1,  1.0.4-0,  1.0.3-2,  1.0.3-1,  1.0.3-0,  1.0.2-0,  1.0.1a-1,  1.0.1a-0,  1.0.0-0,  0.7.3-0,  0.7.2-0,  0.7.1-0,  0.7-0,  0.6-2,  0.6-1,  0.6-0,  0.5.8-4,  0.5.8-3,  0.5.8-2,  0.5.8-1,  0.5.8-0,  0.5.7-0,  0.5.6-0,  0.5.5-0,  0.5.3-0,  0.5.2-0

depends _openmp_mutex:

>=4.5

depends bzip2:

>=1.0.8,<2.0a0

depends curl:

depends kmer-jellyfish:

>=1,<2

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

depends perl:

>=5.32.1,<5.33.0a0 *_perl5

depends perl-libwww-perl:

depends perl-lwp-protocol-https:

depends rsync:

depends tar:

depends wget:

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 krakenuniq

and update with::

   mamba update krakenuniq

To create a new environment, run:

mamba create --name myenvname krakenuniq

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/krakenuniq:<tag>

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

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