diff options
Diffstat (limited to 'scripts')
| -rw-r--r-- | scripts/link_inbredsets.py | 32 |
1 files changed, 23 insertions, 9 deletions
diff --git a/scripts/link_inbredsets.py b/scripts/link_inbredsets.py index 2647fd0..49cb47c 100644 --- a/scripts/link_inbredsets.py +++ b/scripts/link_inbredsets.py @@ -1,6 +1,7 @@ """ Link any unlinked InbredSet groups. """ +import sys import uuid from pathlib import Path @@ -73,14 +74,27 @@ def build_resources(conn, new_linked): def own_resources(conn, group, resources): """Link new resources to admin group.""" with authdb.cursor(conn) as cursor: + params = tuple({ + "group_id": str(group.group_id), + **resource + } for resource in resources) cursor.executemany( "INSERT INTO resource_ownership VALUES " "(:group_id, :resource_id)", - tuple({ - "group_id": str(group.group_id), - **resource - } for resource in resources)) - return resources + params) + return params + +def assign_role_for_admin(conn, user, resources): + """Assign basic role to admin on the inbredset-group resources.""" + with authdb.cursor(conn) as cursor: + cursor.execute( + "SELECT * FROM roles WHERE role_name='inbredset-group-owner'") + role_id = cursor.fetchone()["role_id"] + cursor.executemany( + "INSERT INTO user_roles(user_id, role_id, resource_id) " + "VALUES (:user_id, :role_id, :resource_id)", + tuple({**rsc, "user_id": str(user.user_id), "role_id": role_id} + for rsc in resources)) @click.command() @click.argument("authdbpath") # "Path to the Auth(entic|oris)ation database" @@ -96,13 +110,13 @@ def run(authdbpath, mysqldburi): with (authdb.connection(authdbpath) as authconn, biodb.database_connection(mysqldburi) as bioconn): admin = select_sys_admin(sys_admins(authconn)) - unlinked = own_resources( + unlinked = assign_role_for_admin(authconn, admin, own_resources( authconn, admin_group(authconn, admin), build_resources( - authconn, link_unlinked( - authconn, - unlinked_inbredsets(bioconn, linked_inbredsets(authconn))))) + authconn, link_unlinked( + authconn, + unlinked_inbredsets(bioconn, linked_inbredsets(authconn)))))) if __name__ == "__main__": run() # pylint: disable=[no-value-for-parameter] |