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from __future__ import annotations
from typing import List, Optional
from pydantic import BaseModel, Field, ValidationError, model_validator
class Reagent(BaseModel):
name: str
amount: Optional[float] = Field(default=None, description="Numeric amount if known")
unit: Optional[str] = Field(default=None, description="Unit for amount, e.g., µL, mg, mM")
vendor: Optional[str] = None
catalog_number: Optional[str] = None
class Step(BaseModel):
number: int
description: str
duration_minutes: Optional[float] = None
temperature_c: Optional[float] = None
hazards: List[str] = []
class Protocol(BaseModel):
title: str
sources: List[str]
equipment: List[str] = []
reagents: List[Reagent] = []
steps: List[Step]
safety_notes: List[str] = []
ruo_disclaimer: str
@model_validator(mode="after")
def check_steps_sequential(self):
nums = [s.number for s in self.steps]
if nums != list(range(1, len(nums) + 1)):
raise ValueError("Steps must be sequential starting at 1")
return self
def validate_protocol(proto: Protocol) -> None:
"""Raises ValidationError if invalid."""
if not proto.ruo_disclaimer.lower().startswith("research use only"):
raise ValidationError([{"loc":("ruo_disclaimer",), "msg":"Missing RUO disclaimer"}], Protocol)
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