change actions to positional argument

matsengrp / linearham

A Bayesian Phylo-HMM for B cell receptor sequence analysis

http://matsengrp.github.io/linearham

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change actions to positional argument #71

Closed psathyrella closed 4 years ago

psathyrella commented 4 years ago

As far as i can tell there's a variety of boolean commands to specify which action to run, --run-partis, --run-linearham, --build-partis-linearham. This is pretty confusing.