recipe carveme

CarveMe: automated genome-scale metabolic model reconstruction

Homepage:

https://github.com/cdanielmachado/carveme

Documentation:

https://carveme.readthedocs.io/en/latest

License:

APACHE / Apache-2.0

Recipe:

/carveme/meta.yaml

package carveme

versions:

1.6.2-0,  1.6.1-0

depends diamond:

depends numpy:

depends pandas:

depends pyscipopt:

depends python:

>=3.8

depends reframed:

>=1.5.1

depends requests:

depends scip:

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 carveme

and update with::

   mamba update carveme

To create a new environment, run:

mamba create --name myenvname carveme

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/carveme:<tag>

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

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Link to this page

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