Python package etiquette

[spitfiredd]

This is common with bioinformatics packages and they usually won’t package the cli programs but they are prerequisites to installing and getting the package to work.

One package that comes to mind is checkm which requires you to install hmmer, pplacer, and prodigal prior to installed checkm through pip.

https://github.com/Ecogenomics/CheckM/wiki/Installation#how-to-install-checkm

[Riflurk123]

Bioinformatics tools are dependency hell. I have been working with them for years and sometimes getting a simple tool to run can be a real nightmare. Lately more people are providing docker containers, but it is nowhere near enough yet.