recipe ganon

ganon2 classifies genomic sequences against large sets of references efficiently,

Homepage:

https://github.com/pirovc/ganon

License:

MIT / MIT License

Recipe:

/ganon/meta.yaml

Links:

doi: 10.1101/406017

ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more

package ganon

versions:

2.1.0-2,  2.1.0-1,  2.1.0-0,  2.0.1-0,  2.0.0-0,  1.9.0-0,  1.8.0-0,  1.7.0-0,  1.6.0-0, 

2.1.0-2,  2.1.0-1,  2.1.0-0,  2.0.1-0,  2.0.0-0,  1.9.0-0,  1.8.0-0,  1.7.0-0,  1.6.0-0,  1.5.1-0,  1.5.0-0,  1.4.0-0,  1.3.0-0,  1.2.0-0,  1.1.2-1,  1.1.2-0,  1.1.1-0,  1.1.0-0,  1.0.0-0,  0.4.1-0,  0.4.0-1,  0.4.0-0,  0.3.4-0,  0.3.3-1,  0.3.3-0,  0.3.2-0,  0.3.1-0,  0.3.0-0,  0.2.3-0,  0.2.2-0,  0.2.1-0,  0.2.0-0,  0.1.5-1,  0.1.5-0,  0.1.4-0,  0.1.3-1,  0.1.3-0,  0.1.2-0

depends bzip2:

>=1.0.8,<2.0a0

depends coreutils:

depends curl:

depends diffutils:

depends genome_updater:

>=0.6.3

depends grep:

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends multitax:

>=1.3.1

depends pandas:

>=1.2.0

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

depends raptor:

3.*

depends raptor:

>=3.0.1,<4.0a0

depends seqan3:

>=3.3.0,<4.0a0

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 ganon

and update with::

   mamba update ganon

To create a new environment, run:

mamba create --name myenvname ganon

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/ganon:<tag>

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

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