recipe phytest

Quality control for phylogenetic pipelines using pytest

Homepage:

https://github.com/phytest-devs/phytest

Documentation:

https://phytest-devs.github.io/phytest/

License:

MIT

Recipe:

/phytest/meta.yaml

package phytest

versions:

1.4.1-0,  1.4.0-0

depends biopython:

>=1.79

depends numpy:

>=1.22.3

depends pytest:

>=7.1.1

depends pytest-html:

>=3.1.1

depends pytest-sugar:

>=0.9.4

depends pytest-xdist:

>=3.2.0

depends python:

>=3.8,<=3.11

depends scipy:

>=1.8.0

depends treetime:

>=0.8.6

depends typer:

>=0.4.1

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 phytest

and update with::

   mamba update phytest

To create a new environment, run:

mamba create --name myenvname phytest

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/phytest:<tag>

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

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