recipe nf-core

Python package with helper tools for the nf-core community.

Homepage:

https://nf-co.re

Developer docs:

https://github.com/nf-core/tools

License:

MIT / MIT

Recipe:

/nf-core/meta.yaml

Links:

doi: 10.1038/s41587-020-0439-x

package nf-core

versions:

3.0.2-1,  3.0.2-0,  3.0.1-0,  3.0.0-0,  2.14.1-1,  2.14.1-0,  2.13.1-0,  2.13-0,  2.12.1-0, 

3.0.2-1,  3.0.2-0,  3.0.1-0,  3.0.0-0,  2.14.1-1,  2.14.1-0,  2.13.1-0,  2.13-0,  2.12.1-0,  2.12-0,  2.11.1-0,  2.11-0,  2.10-0,  2.9-0,  2.8-0,  2.7.2-0,  2.7.1-1,  2.7.1-0,  2.6-1,  2.6-0,  2.5.1-0,  2.5-0,  2.4.1-1,  2.4.1-0,  2.3.2-0,  2.3.1-0,  2.3-0,  2.2-1,  2.2-0,  2.1-0,  2.0.1-0,  1.14-0,  1.13.3-0,  1.13.2-0,  1.13.1-0,  1.13-0,  1.12.1-0,  1.12-0,  1.11-0,  1.10.2-0,  1.9-0,  1.8-0,  1.7-0,  1.6-0,  1.5-0,  1.4-0,  1.3-0,  1.2-0,  1.1-0

depends click:

depends filetype:

depends git:

depends gitpython:

depends jinja2:

depends jsonschema:

>=4.0

depends linkify-it-py:

>=1,<3

depends markdown:

>=3.3

depends nextflow:

>=24.04.4

depends nf-test:

depends packaging:

depends pillow:

depends pre-commit:

depends prompt_toolkit:

>=3.0.36

depends pydantic:

>=2.2.1

depends pygithub:

depends python:

>=3.8

depends pyyaml:

depends questionary:

>=2.0.1

depends refgenie:

depends requests:

depends requests-cache:

depends rich:

>=13.3.1

depends rich-click:

1.8.*

depends ruamel.yaml:

depends tabulate:

depends textual:

0.71.0

depends trogon:

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 nf-core

and update with::

   mamba update nf-core

To create a new environment, run:

mamba create --name myenvname nf-core

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/nf-core:<tag>

(see `nf-core/tags`_ for valid values for ``<tag>``)

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