From e19b01571ce61e01f482a1dadeeb2fd835fda939 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Thu, 14 Sep 2023 12:06:23 +0300
Subject: Move `groups` package under `resources` package

With user groups being resources that users can act on (with the
recent changes), this commit moves the `groups` module to under the
`resources` module.

It also renames the `*_resources.py` modules by dropping the
`_resources` part since the code is under the `resources` module
anyway.
---
 gn_auth/auth/authorisation/resources/mrna.py | 66 ++++++++++++++++++++++++++++
 1 file changed, 66 insertions(+)
 create mode 100644 gn_auth/auth/authorisation/resources/mrna.py

(limited to 'gn_auth/auth/authorisation/resources/mrna.py')

diff --git a/gn_auth/auth/authorisation/resources/mrna.py b/gn_auth/auth/authorisation/resources/mrna.py
new file mode 100644
index 0000000..7fce227
--- /dev/null
+++ b/gn_auth/auth/authorisation/resources/mrna.py
@@ -0,0 +1,66 @@
+"""mRNA data resources functions and utilities"""
+import uuid
+from typing import Optional, Sequence
+
+import sqlite3
+
+import gn_auth.auth.db.sqlite3 as db
+
+from .base import Resource
+from .data import __attach_data__
+
+def resource_data(cursor: db.DbCursor,
+                  resource_id: uuid.UUID,
+                  offset: int = 0,
+                  limit: Optional[int] = None) -> Sequence[sqlite3.Row]:
+    """Fetch data linked to a mRNA resource"""
+    cursor.execute(
+        (("SELECT * FROM mrna_resources AS mr "
+          "INNER JOIN linked_mrna_data AS lmr "
+          "ON mr.data_link_id=lmr.data_link_id "
+          "WHERE mr.resource_id=?") + (
+              f" LIMIT {limit} OFFSET {offset}" if bool(limit) else "")),
+        (str(resource_id),))
+    return cursor.fetchall()
+
+def link_data_to_resource(
+        conn: db.DbConnection,
+        resource: Resource,
+        data_link_id: uuid.UUID) -> dict:
+    """Link mRNA Assay data with a resource."""
+    with db.cursor(conn) as cursor:
+        params = {
+            "resource_id": str(resource.resource_id),
+            "data_link_id": str(data_link_id)
+        }
+        cursor.execute(
+            "INSERT INTO mrna_resources VALUES"
+            "(:resource_id, :data_link_id)",
+            params)
+        return params
+
+def unlink_data_from_resource(
+        conn: db.DbConnection,
+        resource: Resource,
+        data_link_id: uuid.UUID) -> dict:
+    """Unlink data from mRNA Assay resources"""
+    with db.cursor(conn) as cursor:
+        cursor.execute("DELETE FROM mrna_resources "
+                       "WHERE resource_id=? AND data_link_id=?",
+                       (str(resource.resource_id), str(data_link_id)))
+        return {
+            "resource_id": str(resource.resource_id),
+            "dataset_type": resource.resource_category.resource_category_key,
+            "data_link_id": data_link_id
+        }
+
+def attach_resources_data(
+        cursor, resources: Sequence[Resource]) -> Sequence[Resource]:
+    """Attach linked data to mRNA Assay resources"""
+    placeholders = ", ".join(["?"] * len(resources))
+    cursor.execute(
+        "SELECT * FROM mrna_resources AS mr INNER JOIN linked_mrna_data AS lmd"
+        " ON mr.data_link_id=lmd.data_link_id "
+        f"WHERE mr.resource_id IN ({placeholders})",
+        tuple(str(resource.resource_id) for resource in resources))
+    return __attach_data__(cursor.fetchall(), resources)
-- 
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