From a112c99cae0c5422a38e3a35e843a82db764316a Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Mon, 7 Aug 2023 08:40:50 +0300
Subject: Add missing modules

Copy over missing modules and functions to completely disconnect
gn-auth from GN3.
---
 gn_auth/auth/authorisation/data/views.py | 30 +++++++++++++++++++++++++++++-
 1 file changed, 29 insertions(+), 1 deletion(-)

(limited to 'gn_auth/auth/authorisation/data/views.py')

diff --git a/gn_auth/auth/authorisation/data/views.py b/gn_auth/auth/authorisation/data/views.py
index 9e55dd8..03b416f 100644
--- a/gn_auth/auth/authorisation/data/views.py
+++ b/gn_auth/auth/authorisation/data/views.py
@@ -11,9 +11,9 @@ from authlib.integrations.flask_oauth2.errors import _HTTPException
 from flask import request, jsonify, Response, Blueprint, current_app as app
 
 import gn_auth.auth.db.mariadb as gn3db
+
 from gn_auth import jobs
 from gn_auth.commands import run_async_cmd
-from gn_auth.db.traits import build_trait_name
 
 from gn_auth.auth.db import sqlite3 as db
 from gn_auth.auth.db.sqlite3 import with_db_connection
@@ -39,6 +39,34 @@ from gn_auth.auth.authorisation.data.genotypes import (
 
 data = Blueprint("data", __name__)
 
+def build_trait_name(trait_fullname):
+    """
+    Initialises the trait's name, and other values from the search data provided
+
+    This is a copy of `gn3.db.traits.build_trait_name` function.
+    """
+    def dataset_type(dset_name):
+        if dset_name.find('Temp') >= 0:
+            return "Temp"
+        if dset_name.find('Geno') >= 0:
+            return "Geno"
+        if dset_name.find('Publish') >= 0:
+            return "Publish"
+        return "ProbeSet"
+
+    name_parts = trait_fullname.split("::")
+    assert len(name_parts) >= 2, f"Name format error: '{trait_fullname}'"
+    dataset_name = name_parts[0]
+    dataset_type = dataset_type(dataset_name)
+    return {
+        "db": {
+            "dataset_name": dataset_name,
+            "dataset_type": dataset_type},
+        "trait_fullname": trait_fullname,
+        "trait_name": name_parts[1],
+        "cellid": name_parts[2] if len(name_parts) == 3 else ""
+    }
+
 @data.route("species")
 def list_species() -> Response:
     """List all available species information."""
-- 
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