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import json
import requests
from flask import g, current_app as app
from wqflask.database import database_connection
from base import webqtlConfig
from utility.redis_tools import (get_redis_conn,
get_resource_info,
get_resource_id,
add_resource)
from utility.tools import get_setting
Redis = get_redis_conn()
def check_resource_availability(dataset, user_id, trait_id=None):
# At least for now assume temporary entered traits are accessible
if type(dataset) == str or dataset.type == "Temp":
return webqtlConfig.DEFAULT_PRIVILEGES
resource_id = get_resource_id(dataset, trait_id)
# ZS: This should never be false, but it's technically possible if
# a non-Temp dataset somehow had a type other than
# Publish/ProbeSet/Geno
if resource_id:
resource_info = get_resource_info(resource_id)
# If resource isn't already in redis, add it with default
# privileges
if not resource_info:
resource_info = add_new_resource(dataset, trait_id)
# Check if super-user - we should probably come up with some
# way to integrate this into the proxy
if user_id in Redis.smembers("super_users"):
return webqtlConfig.SUPER_PRIVILEGES
response = None
the_url = f"{get_setting(app, 'GN_PROXY_URL')}available?resource={resource_id}&user={user_id}"
try:
response = json.loads(requests.get(the_url).content)
except:
response = resource_info['default_mask']
return response
def add_new_resource(dataset, trait_id=None):
resource_ob = {
'owner_id': "none", # webqtlConfig.DEFAULT_OWNER_ID,
'default_mask': webqtlConfig.DEFAULT_PRIVILEGES,
'group_masks': {}
}
if dataset.type == "Publish":
group_code = get_group_code(dataset)
if group_code is None:
group_code = ""
resource_ob['name'] = group_code + "_" + str(trait_id)
resource_ob['data'] = {
'dataset': dataset.id,
'trait': trait_id
}
resource_ob['type'] = 'dataset-publish'
elif dataset.type == "Geno":
resource_ob['name'] = dataset.name
resource_ob['data'] = {
'dataset': dataset.id
}
resource_ob['type'] = 'dataset-geno'
else:
resource_ob['name'] = dataset.name
resource_ob['data'] = {
'dataset': dataset.id
}
resource_ob['type'] = 'dataset-probeset'
resource_info = add_resource(resource_ob, update=False)
return resource_info
def get_group_code(dataset):
with database_connection() as conn, conn.cursor() as cursor:
cursor.execute(
"SELECT InbredSetCode FROM InbredSet WHERE Name=%s",
(dataset.group.name,)
)
if results := cursor.fetchone():
return results[0]
return ""
def check_admin(resource_id=None):
the_url = get_setting('GN_PROXY_URL') + "available?resource={}&user={}".format(
resource_id, g.user_session.user_id)
try:
response = json.loads(requests.get(the_url).content)['admin']
except:
resource_info = get_resource_info(resource_id)
response = resource_info['default_mask']['admin']
if type(response) is list:
if 'edit-admins' in response:
return 'edit_admins'
elif 'edit-access' in response:
return 'edit-access'
return response
def check_owner(dataset=None, trait_id=None, resource_id=None):
if resource_id:
resource_info = get_resource_info(resource_id)
if g.user_session.user_id == resource_info['owner_id']:
return resource_id
else:
resource_id = get_resource_id(dataset, trait_id)
if resource_id:
resource_info = get_resource_info(resource_id)
if g.user_session.user_id == resource_info['owner_id']:
return resource_id
return False
def check_owner_or_admin(dataset=None, trait_id=None, resource_id=None):
if not resource_id:
if dataset.type == "Temp":
return "not-admin"
else:
resource_id = get_resource_id(dataset, trait_id)
try:
user_id = g.user_session.user_id.encode('utf-8')
except:
user_id = g.user_session.user_id
if user_id in Redis.smembers("super_users"):
return "owner"
resource_info = get_resource_info(resource_id)
if resource_info:
if user_id == resource_info['owner_id']:
return "owner"
else:
return check_admin(resource_id)
return "not-admin"
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