recipe physiofit

Calculate extracellular fluxes from metabolite concentrations and biomass data

Homepage:

https://github.com/MetaSys-LISBP/PhysioFit

Documentation:

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

License:

GPL3 / GPL-3.0-only

Recipe:

/physiofit/meta.yaml

Links:

doi: 10.1101/2023.10.12.561695

package physiofit

versions:

3.3.6-0,  3.3.5-0,  3.3.4-0,  3.3.3-0,  3.3.2-0,  3.3.1-0,  3.3.0-0,  3.2.0-0,  3.1.1-0, 

3.3.6-0,  3.3.5-0,  3.3.4-0,  3.3.3-0,  3.3.2-0,  3.3.1-0,  3.3.0-0,  3.2.0-0,  3.1.1-0,  3.1.0-1,  3.1.0-0

depends matplotlib-base:

>=3.7.1

depends numpy:

>=1.24.2

depends pandas:

>=2.0.1

depends pyarrow:

>=14.0.1,<15.0.0

depends python:

>=3.8,<3.9.7|>3.9.7,<3.12

depends pyyaml:

>=6.0.0

depends scipy:

>=1.10.1

depends streamlit:

>=1.20.0

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 physiofit

and update with::

   mamba update physiofit

To create a new environment, run:

mamba create --name myenvname physiofit

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/physiofit:<tag>

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

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