recipe gmsc-mapper

GMSC-mapper is a command line tool to query the Global Microbial smORFs Catalog (GMSC).

Homepage:

https://github.com/BigDataBiology/GMSC-mapper

License:

MIT / MIT

Recipe:

/gmsc-mapper/meta.yaml

package gmsc-mapper

versions:

0.1.0-0

depends atomicwrites:

depends biopython:

depends bottleneck:

depends certifi:

depends diamond:

>=2.0.13

depends mmseqs2:

depends numexpr:

depends numpy:

depends packaging:

depends pandas:

depends pyparsing:

depends pyrodigal:

depends python:

>=3.7

depends python-dateutil:

depends pytz:

depends six:

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 gmsc-mapper

and update with::

   mamba update gmsc-mapper

To create a new environment, run:

mamba create --name myenvname gmsc-mapper

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/gmsc-mapper:<tag>

(see `gmsc-mapper/tags`_ for valid values for ``<tag>``)

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