Step 6:受试者(Subject)+ 访视(Visit)+ 随访进度

This commit is contained in:
Cheng Zhou
2025-12-16 17:43:11 +08:00
parent a9e15faedc
commit c77b20f932
69 changed files with 468 additions and 1 deletions
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import uuid
from datetime import date, timedelta
from typing import Sequence
from sqlalchemy import select, update as sa_update
from sqlalchemy.ext.asyncio import AsyncSession
from app.crud import visit as visit_crud
from app.models.site import Site
from app.models.subject import Subject
from app.schemas.subject import SubjectCreate, SubjectUpdate
async def _validate_site(db: AsyncSession, study_id: uuid.UUID, site_id: uuid.UUID) -> None:
result = await db.execute(select(Site).where(Site.id == site_id))
site = result.scalar_one_or_none()
if not site or site.study_id != study_id:
raise ValueError("Site not found in study")
async def create_subject(db: AsyncSession, study_id: uuid.UUID, subject_in: SubjectCreate) -> Subject:
await _validate_site(db, study_id, subject_in.site_id)
subject = Subject(
study_id=study_id,
site_id=subject_in.site_id,
subject_no=subject_in.subject_no,
status="SCREENING",
screening_date=subject_in.screening_date,
enrollment_date=None,
completion_date=None,
drop_reason=None,
)
db.add(subject)
await db.commit()
await db.refresh(subject)
# initial visit: Screening (V0)
await visit_crud.create_visit(
db,
study_id=study_id,
visit_in=None,
subject=subject,
visit_code="V0",
visit_name="Screening",
planned_date=subject.screening_date,
)
return subject
async def get_subject(db: AsyncSession, subject_id: uuid.UUID) -> Subject | None:
result = await db.execute(select(Subject).where(Subject.id == subject_id))
return result.scalar_one_or_none()
async def list_subjects(
db: AsyncSession,
study_id: uuid.UUID,
site_id: uuid.UUID | None = None,
status: str | None = None,
) -> Sequence[Subject]:
stmt = select(Subject).where(Subject.study_id == study_id)
if site_id:
stmt = stmt.where(Subject.site_id == site_id)
if status:
stmt = stmt.where(Subject.status == status)
result = await db.execute(stmt)
return result.scalars().all()
async def generate_default_visits(db: AsyncSession, subject: Subject) -> None:
# Baseline + Follow-up visits based on enrollment_date
if not subject.enrollment_date:
return
baseline_date = subject.enrollment_date
follow1 = baseline_date + timedelta(days=30)
follow2 = baseline_date + timedelta(days=60)
visits_data = [
("V1", "Baseline", baseline_date),
("FU1", "Follow-up 1", follow1),
("FU2", "Follow-up 2", follow2),
]
for code, name, plan_date in visits_data:
await visit_crud.create_visit(
db,
study_id=subject.study_id,
visit_in=None,
subject=subject,
visit_code=code,
visit_name=name,
planned_date=plan_date,
)
async def update_subject(db: AsyncSession, subject: Subject, subject_in: SubjectUpdate) -> Subject:
update_data = subject_in.model_dump(exclude_unset=True)
if update_data:
await db.execute(
sa_update(Subject)
.where(Subject.id == subject.id)
.values(**update_data)
)
await db.commit()
await db.refresh(subject)
return subject
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import uuid
from typing import Sequence
from sqlalchemy import select, update as sa_update
from sqlalchemy.ext.asyncio import AsyncSession
from app.models.subject import Subject
from app.models.visit import Visit
from app.schemas.visit import VisitCreate, VisitUpdate
async def create_visit(
db: AsyncSession,
*,
study_id: uuid.UUID,
visit_in: VisitCreate | None,
subject: Subject,
visit_code: str,
visit_name: str,
planned_date,
) -> Visit:
visit = Visit(
study_id=study_id,
subject_id=subject.id,
visit_code=visit_code,
visit_name=visit_name,
planned_date=planned_date,
actual_date=None,
status="PLANNED",
window_start=visit_in.window_start if visit_in else None,
window_end=visit_in.window_end if visit_in else None,
notes=None,
)
db.add(visit)
await db.commit()
await db.refresh(visit)
return visit
async def list_visits(db: AsyncSession, subject_id: uuid.UUID) -> Sequence[Visit]:
result = await db.execute(select(Visit).where(Visit.subject_id == subject_id).order_by(Visit.planned_date))
return result.scalars().all()
async def get_visit(db: AsyncSession, visit_id: uuid.UUID) -> Visit | None:
result = await db.execute(select(Visit).where(Visit.id == visit_id))
return result.scalar_one_or_none()
async def update_visit(db: AsyncSession, visit: Visit, visit_in: VisitUpdate) -> Visit:
update_data = visit_in.model_dump(exclude_unset=True)
if update_data:
await db.execute(
sa_update(Visit)
.where(Visit.id == visit.id)
.values(**update_data)
)
await db.commit()
await db.refresh(visit)
return visit