Package Recipe 'mpa-portable'

recipe mpa-portable

MPA Portable is a light-weight and stand-alone software for the identification of proteins and in-depth analysis of metaproteomics (and also proteomics) data.

Homepage:: https://github.com/compomics/meta-proteome-analyzer
License:: APACHE / Apache License, Version 2.0
Recipe:: /mpa-portable/meta.yaml

package mpa-portable¶

Versions:

2.0.0-3, 2.0.0-2, 2.0.0-1, 2.0.0-0, 1.9.0-0, 1.4.1-2, 1.4.1-1, 1.4.1-0

Depends:

on comet-ms 2016013
on fontconfig
on fonts-conda-ecosystem
on openjdk
on python
on xtandem 15.12.15.2

Additional platforms:

Installation¶

You need a conda-compatible package manager (currently either pixi, conda, or micromamba) and the Bioconda channel already activated (see Usage). Below, we show how to install with either pixi or conda (for micromamba and mamba, commands are essentially the same as with conda).

Pixi¶

With pixi installed and the Bioconda channel set up (see Usage), to install globally, run:

pixi global install mpa-portable

to add into an existing workspace instead, run:

pixi add mpa-portable

In the latter case, make sure to first add bioconda and conda-forge to the channels considered by the workspace:

pixi workspace channel add conda-forge
pixi workspace channel add bioconda

Conda¶

With conda installed and the Bioconda channel set up (see Usage), to install into an existing and activated environment, run:

conda install mpa-portable

Alternatively, to install into a new environment, run:

conda create -n envname mpa-portable

with envname being the name of the desired environment.

Container¶

Alternatively, every Bioconda package is available as a container image for usage with your preferred container runtime. For e.g. docker, run:

docker pull quay.io/biocontainers/mpa-portable:<tag>

(see mpa-portable/tags for valid values for <tag>).

Integrated deployment¶

Finally, note that many scientific workflow management systems directly integrate both conda and container based software deployment. Thus, workflow steps can be often directly annotated to use the package, leading to automatic deployment by the respective workflow management system, thereby improving reproducibility and transparency. Check the documentation of your workflow management system to find out about the integration.

Notes¶

mpa-protable is Java program that comes with a custom wrapper Python script.

Download stats¶

Link to this page¶

Render an 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/mpa-portable/README.html)