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 Samad14 commited on Aug 3
fix(md): raise production budget to 25 min so runs aren't clamped to ~3 ps 35104cd Samad14 commited on Aug 2
feat(md): clay simulation-parameter controls (force field, solvent, run length) 09fc54e Samad14 commited on Aug 2
fix(md): reflect OXT across C-CA axis so GBSA stops NaNing on Linux CPU d040f58 Samad14 commited on Aug 1
fix(md): surface real OpenMM error message + traceback in fallback diagnostics 13c2094 Samad14 commited on Aug 1
fix(md): add missing C-terminal OXT so unterminated termini (1TIM HIS 248) build in OpenMM a28c4bb Samad14 commited on Aug 1
fix(md): BioPython fallback crash on Atom.element.name ('str' object has no attribute 'name') be32f12 Samad14 commited on Jul 31
feat(md): temperature/KE, Rg and SASA traces; fix OpenMM in deployed image 8e3419e Samad14 commited on Jul 31
debug: add OpenMM verification steps + startup check so we can see what fails b281340 Samad14 commited on Jul 17
fix: OpenMM via micromamba + BioPython structural fallback, real error messages bd95b9f Samad14 commited on Jul 17
feat: scientifically accurate MD simulation with OBC2 solvent, Kabsch RMSD, per-residue RMSF 3fba508 Samad14 commited on Jul 17
Fix MD simulation: OpenMM fallback, PDB ID propagation, better error handling d9d71ff Samad14 commited on Jul 16
Phase 3a/4/5: ADMET descriptors (RDKit), MD simulation (OpenMM), function prediction (DeepFRI-inspired) — backend + frontend 99fb209 Samad14 commited on Jul 16