Commit History

feat(md): verified force field/solvent menu (ff14SB/ff15ipq/ff19SB/amberfb15/CHARMM36 x OBC1/OBC2/GBN2) with alanine-dipeptide createSystem startup probe; explicit errors for invalid combos; dynamic frontend menu
2583376

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fix(md): raise production budget to 25 min so runs aren't clamped to ~3 ps
35104cd

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fix(md): don't abandon long jobs after 5 min + trim workload
c6b3385

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feat(md): clay simulation-parameter controls (force field, solvent, run length)
09fc54e

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fix(md): reflect OXT across C-CA axis so GBSA stops NaNing on Linux CPU
d040f58

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fix(md): surface real OpenMM error message + traceback in fallback diagnostics
13c2094

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fix(md): add missing C-terminal OXT so unterminated termini (1TIM HIS 248) build in OpenMM
a28c4bb

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fix(md): BioPython fallback crash on Atom.element.name ('str' object has no attribute 'name')
be32f12

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feat(md): temperature/KE, Rg and SASA traces; fix OpenMM in deployed image
8e3419e

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feat(md): real OpenMM production runs with accurate Ca RMSD
cbef588

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fix: ADMET import error + MD secondary structure accuracy
ec85a6b

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debug: add OpenMM verification steps + startup check so we can see what fails
b281340

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fix: remove invalid has_anisou call from BioPython fallback
498fe95

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fix: remove invalid CaPPD import from BioPython fallback
a623185

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fix: OpenMM via micromamba + BioPython structural fallback, real error messages
bd95b9f

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feat: scientifically accurate MD simulation with OBC2 solvent, Kabsch RMSD, per-residue RMSF
3fba508

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Fix MD simulation: OpenMM fallback, PDB ID propagation, better error handling
d9d71ff

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Phase 3a/4/5: ADMET descriptors (RDKit), MD simulation (OpenMM), function prediction (DeepFRI-inspired) — backend + frontend
99fb209

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