Fix PLUMED: use API for plumed.dat check and preview (avoid cache); add update note on Protein Loading

Fix: Move superimposed viewer controls (Reset, Surface, Spin) inside the viewer box

Fix: Create combined ligand file (4_ligands_corrected.pdb) for separate ligand download

Fix: Properly handle errors from prepare_structure in API endpoint

Fix: Require chain selection for structure preparation (no default to all chains)

Fix: Use autodock-vina 1.1.2 from bioconda, add prody and numpy<2.0 deps

trigger rebuild

Rename project from AmberFlow to AmberPrep

Trigger rebuild

Add gemmi for Meeko; fix numpy conflict with PyMOL

Fix: use conda-forge::vina (not autodock-vina)

Trigger rebuild

Docker: use Miniforge instead of Miniconda to fix Anaconda ToS CI failures

Add Hugging Face Spaces YAML config to README

Sync with development: Dockerfile (meeko, vina, openbabel, PYTHONPATH), amberflow package, .gitignore. Exclude Test/ (binary .ncrst not allowed on HF Hub).

year changed

solvated viewer file permission error corrected

Fix viewer PDB file generation and loading

Fix solvated protein preview with dedicated viewer route

permission access added

pymol compatibility issue resolved

timeout command removed from docker file

Accept conda Terms of Service for build

Fix system dependencies for Debian Trixie compatibility

Fix conda installation for ambertools and pymol

YAML error fixed

Deploy AmberFlow to Hugging Face Spaces

initial commit