Merge pull request #92 from ssi-dk/fix/bioapi

fix: changed docker compose bio api hostname to match cluster

docker-compose.yml

@@ -42,7 +42,7 @@ services:
     command: ["/bin/sh", "-c", "/app/start.sh"]
     depends_on:
       - "keycloak"
-      - "bio_api"
+      - "bioapi"
     restart: on-failure
 
     environment:
@@ -160,7 +160,7 @@ services:
       - ./auth/pg/pg-init:/docker-entrypoint-initdb.d
       - ${PG_DATA_DIR}:/var/lib/postgresql/data/
 
-  bio_api:
+  bioapi:
     image: ghcr.io/ssi-dk/bio_api:latest
     user: ${CURRENT_UID}
     ports:

web/src/SAP/src/controllers/MicroreactController.py

@@ -20,7 +20,7 @@ def send_to_microreact(user, token_info, body):
     tree_calcs=[]
     samples = list(map(lambda s: s["id"], workspace["samples"]))
 
-    with ApiClient(Configuration(host="http://bio_api:8000")) as api_client:
+    with ApiClient(Configuration(host="http://bioapi:8000")) as api_client:
         # Distance
         api_instance = DistancesApi(api_client)
         request = DistanceMatrixRequest("samples", "categories.sample_info.summary.sofi_sequence_id", "categories.cgmlst.report.alleles", samples)

web/src/SAP/src/controllers/NearestNeighborsController.py

@@ -14,7 +14,7 @@
 def post(user, token, body: NearestNeighborsRequest):
     assert_user_has("search", token)
 
-    with ApiClient(Configuration(host="http://bio_api:8000")) as api_client:
+    with ApiClient(Configuration(host="http://bioapi:8000")) as api_client:
         sample = get_single_sample(body.id)
         detected_species = sample["categories"]["species_detection"]["summary"]["detected_species"]