insilichem/ommprotocol

ommprotocol is a legacy utility tool that has largely been superseded by modern molecular dynamics (MD) workflow managers. With only 40 stars over a nearly 10-year lifespan and zero recent commit velocity, the project exhibits signs of abandonment or extreme niche usage within a single research group. Its primary function—providing a CLI for OpenMM—is now natively addressed by OpenMM's own improved Python API, 'OpenMM-Setup' interactive tools, and more robust orchestration frameworks like MDAnalysis, GROMACS, or specialized cloud platforms like NVIDIA BioNeMo. The defensibility is near zero as it is a thin wrapper around a standard library (OpenMM) that any computational chemist could replicate or replace with a modern workflow engine like Snakemake or Nextflow. While frontier labs are not building CLI wrappers for 10-year-old MD engines, the project is at high risk of total displacement by the evolution of the underlying OpenMM library itself and the move toward containerized, reproducible bio-simulation pipelines.