Fix canonicalallele catvar id in notebook

clingen-data-model · Jul 15, 2024 · 858b8dd · 858b8dd
1 parent d1195b3
commit 858b8dd
Showing 1 changed file with 34 additions and 5 deletions.
diff --git a/notebooks/ASHG-clinvar-GKS-python.ipynb b/notebooks/ASHG-clinvar-GKS-python.ipynb
@@ -4,7 +4,36 @@
    "cell_type": "code",
    "execution_count": 1,
    "metadata": {},
-   "outputs": [],
+   "outputs": [
+    {
+     "name": "stderr",
+     "output_type": "stream",
+     "text": [
+      "2024-07-15 12:28:21 - gcs - INFO - Downloading gs://clinvar-gk-pilot/2024-04-07/dev/combined-catvar_output.ndjson.gz to buckets/clinvar-gk-pilot/2024-04-07/dev/combined-catvar_output.ndjson.gz\n"
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "Downloading gs://clinvar-gk-pilot/2024-04-07/dev/combined-catvar_output.ndjson.gz to buckets/clinvar-gk-pilot/2024-04-07/dev/combined-catvar_output.ndjson.gz\n"
+     ]
+    },
+    {
+     "name": "stderr",
+     "output_type": "stream",
+     "text": [
+      "2024-07-15 12:30:27 - gcs - INFO - Downloading gs://clinvar-gk-pilot/2024-04-07/dev/combined-scv_output.ndjson.gz to buckets/clinvar-gk-pilot/2024-04-07/dev/combined-scv_output.ndjson.gz\n"
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "Downloading gs://clinvar-gk-pilot/2024-04-07/dev/combined-scv_output.ndjson.gz to buckets/clinvar-gk-pilot/2024-04-07/dev/combined-scv_output.ndjson.gz\n"
+     ]
+    }
+   ],
    "source": [
     "from clinvar_gk_pilot.gcs import (\n",
     "    _local_file_path_for,\n",
@@ -96,7 +125,7 @@
     "################################\n",
     "# A CanonicalAllele\n",
     "## For searching based on the GKS Categorical Variation (CatVrs) ID\n",
-    "clinvar_id_canonicalallele = \"563765\"\n",
+    "clinvar_id_canonicalallele = \"2769522\"\n",
     "catvar_id_canonicalallele = f\"clinvar:{clinvar_id_canonicalallele}\"\n",
     "## For searching based on the GA4GH VRS Variation ID\n",
     "vrs_id_canonicalallele = \"ga4gh:VA.hf_va4AnlG99NuOjtaXJzh_XvszWWOO9\"\n",
@@ -254,9 +283,9 @@
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "SCV: SCV000810762.1 \n",
-      "  Classification: Pathogenic\n",
-      "  Condition: not provided\n",
+      "SCV: SCV004334569.1 \n",
+      "  Classification: Likely benign\n",
+      "  Condition: BAP1-related tumor predisposition syndrome\n",
       "\n"
      ]
     }