physistool 0.1.1

Open-source PhysisFold client — CLI + SDK for constraint-guided all-atom protein folding via a remote (Nitro Enclave) endpoint.

physistool

The open-source PhysisFold client — a thin, auditable CLI + SDK that speaks HTTP+JSON to a remote PhysisFold folding endpoint (the engine runs server-side inside an AWS Nitro Enclave; there is no protected IP in this package).

physistool is the umbrella command: physistool fold ... today, with sibling verbs (engineer, msa, search, ...) joining the same command as more tools ship.

Install

pip install physistool

SDK

The pip package is physistool; the import module is physis (scikit-learn -> sklearn convention).

from physis import fold, FoldError

try:
    report = fold("input.fasta", out_path="result.pdb",
                  endpoint="http://127.0.0.1:8787")
except FoldError as e:
    ...

CLI

physistool fold input.fasta --out result.pdb --endpoint http://127.0.0.1:8787
# equivalently, the flat flag surface:
physistool --sequence input.fasta --out result.pdb

Run physistool --help for the full flag set (best-of seeds, helix prior, Stage-C --encrypt, metering, attestation --expected-pcr0, ...).

Security model

Before any input leaves your machine the client fetches and verifies the endpoint's AWS Nitro attestation (signature chain to the pinned Nitro root + published PCR0) and only then trusts the enclave public key. See the module docstrings in physis/attestation.py and physis/envelope.py.

License

MIT. See LICENSE.