recipe genome-uploader

Python script to upload bins and MAGs in fasta format to ENA (European Nucleotide Archive).

Homepage:

https://github.com/EBI-Metagenomics/genome_uploader

License:

APACHE / Apache-2.0

Recipe:

/genome-uploader/meta.yaml

package genome-uploader

versions:

2.3.4-0

depends click:

8.1.7

depends ena-webin-cli:

depends numpy:

1.24.4

depends pandas:

1.4.1

depends python:

>=3.8

depends python-dotenv:

1.0.1

depends requests:

2.26.0

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 genome-uploader

and update with::

   mamba update genome-uploader

To create a new environment, run:

mamba create --name myenvname genome-uploader

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/genome-uploader:<tag>

(see `genome-uploader/tags`_ for valid values for ``<tag>``)

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