Create hosted user annotations [1685] (#1726)

* add function to retrieve latest annotation from db, db updates

* read and write tiledb arrays

* adding tests
This commit is contained in:
Madison Dunitz
2020-08-13 19:07:17 -05:00
committed by GitHub
parent 1c4bb84f35
commit 2689d8d2c0
13 changed files with 469 additions and 180 deletions
+29 -2
View File
@@ -1,9 +1,10 @@
import typing
import uuid
from sqlalchemy import create_engine
from sqlalchemy.orm import sessionmaker
from server.db.cellxgene_orm import Base
from server.db.cellxgene_orm import Base, CellxGeneDataset, CellxGeneUser
class DbUtils:
@@ -34,7 +35,33 @@ class DbUtils:
)
def query_for_most_recent(self, table: Base, filter_args: typing.List[bool] = None) -> Base:
return self.session.query(table).filter(*filter_args).order_by(table.created_at.desc()).limit(1).all()[0]
try:
return self.session.query(table).filter(*filter_args).order_by(table.created_at.desc()).limit(1).all()[0]
except IndexError:
return None
def get_or_create_dataset(self, dataset_name):
try:
dataset_id = self.query(
table_args=[CellxGeneDataset], filter_args=[CellxGeneDataset.name == dataset_name]
)[0].id
except IndexError:
dataset_id = uuid.uuid4()
dataset = CellxGeneDataset(id=dataset_id, name=dataset_name)
self.session.add(dataset)
self.session.commit()
return str(dataset_id)
def get_or_create_user(self, user_id):
try:
user_id = self.query(
table_args=[CellxGeneUser], filter_args=[CellxGeneUser.id == user_id]
)[0].id
except IndexError:
user = CellxGeneUser(id=user_id)
self.session.add(user)
self.session.commit()
return str(user_id)
class DBSessionMaker: