recipe pcdl

physicell data loader (pcdl) provides a platform independent, python3 based, pip installable interface to transform output, generated with the PhysiCell agent based modeling framework, into standard formats.

Homepage:

https://github.com/elmbeech/physicelldataloader

Documentation:

https://github.com/elmbeech/physicelldataloader/blob/v3.3.7/README.md

License:

BSD / BSD-3-Clause

Recipe:

/pcdl/meta.yaml

package pcdl

(downloads) docker_pcdl

versions:

3.3.7-0,  3.3.6-0

depends anndata:

>=0.10.8

depends ffmpeg:

depends imagemagick:

depends matplotlib-base:

depends numpy:

depends pandas:

>=2.2.2

depends python:

>=3.8,<4.0

depends requests:

depends scipy:

>=1.13.0

depends vtk:

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 pcdl

and update with::

   mamba update pcdl

To create a new environment, run:

mamba create --name myenvname pcdl

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/pcdl:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/pcdl/README.html)