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Ase Geometry Optimization Starter

ASecurity

Use this skill to optimize a tiny argon dimer with ASE and summarize the final geometry.

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  • Added September 8, 2026
ai-agentspythongobash

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Scanned September 8, 2026

npx -y skills add ma-compbio-lab/SkillFoundry --skill ase-geometry-optimization-starter --agent claude-code

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SKILL.md
# ASE Geometry Optimization Starter

Use this skill to optimize a tiny argon dimer with ASE and summarize the final geometry.

## What This Skill Does

- reads a small JSON specification for an `Ar2` starting geometry
- attaches a deterministic Lennard-Jones calculator
- runs ASE `BFGS` optimization
- reports initial and final distances plus energy improvement

## Run

```bash
./slurm/envs/chem-tools/bin/python skills/computational-chemistry-and-molecular-simulation/ase-geometry-optimization-starter/scripts/run_ase_geometry_optimization.py --input skills/computational-chemistry-and-molecular-simulation/ase-geometry-optimization-starter/examples/toy_argon_dimer.json --out scratch/chemistry/ase_geometry_optimization_summary.json
```

Files in this skill

  • SKILL.md741 B
  • assets/ase_geometry_optimization_summary.json358 B
  • examples/molecules.tsv85 B
  • examples/toy_argon_dimer.json67 B
  • metadata.yaml1.4 KB
  • refs.md132 B
  • scripts/run_ase_geometry_optimization.py2.1 KB
  • tests/test_run_ase_geometry_optimization.py1.4 KB

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