About Protocols

A protocol defines a workflow for the BioLM server: inputs, tasks (model or gather), and optional MLflow outputs. Validate with the Python client (e.g. biolmai protocol validate).

Minimal example:

name: my-protocol
inputs:
  sequences:
    type: list_of_str
    label: Sequences
    required: true
tasks:
  - slug: esmfold
    action: predict
    request_body:
      items: "{{ inputs.sequences }}"

Required top-level keys: name, inputs (map of input names to InputSpec — see Inputs (InputSpec)), and tasks (array of model or gather tasks — see Task forms and Execution).

Optional: description, example_inputs, progress, ranking, writing, concurrency, outputs (MLflow), schema_version (default 1).

See Full JSON Schema for the full JSON Schema.