fixes

.env.local.deb

@@ -0,0 +1,56 @@
+COMPOSE_PROJECT_NAME=agr-literature-test
+
+REG=100225593120.dkr.ecr.us-east-1.amazonaws.com
+TAG=latest
+ALLIANCE_RELEASE=latest
+
+RESOURCE_DESCRIPTOR_URL='https://raw.githubusercontent.com/alliance-genome/agr_schemas/master/resourceDescriptors.yaml'
+
+OKTA_DOMAIN='dev-30456587.okta.com/oauth2/default'
+OKTA_API_AUDIENCE='api://default'
+
+# Envstate should either be build or prod
+ENV_STATE=test
+HOST=agr_literature
+
+PSQL_USERNAME=postgres
+PSQL_PASSWORD=postgres
+# postgres as internal to docker network
+PSQL_HOST=postgres
+PSQL_PORT=5433
+PSQL_DATABASE=literature_subset
+
+[email protected]
+PGADMIN_DEFAULT_PASSWORD=password
+PGADMIN_PORT=8882
+
+SCHEMA='/path/to/schema.json'
+
+ELASTICSEARCH_HOST=elasticsearch
+ELASTICSEARCH_PORT=9200
+ELASTICSEARCH_INDEX=test_references_index
+
+REDIS_HOST=redis
+REDIS_PORT=6379
+REDIS_DB=0
+REDIS_AUTH=password
+
+API_PORT=8080
+API_SERVER=literature_api
+
+DEBEZIUM_VERSION=1.9
+DEBEZIUM_CONNECTOR_HOST=dbz_connector
+DEBEZIUM_CONNECTOR_PORT=8083
+DEBEZIUM_INDEX_NAME=test_references_index
+DEBEZIUM_KSQLDB_HOST=dbz_ksql_server
+DEBEZIUM_KSQLDB_PORT=8088
+
+OKTA_CLIENT_ID=
+OKTA_CLIENT_SECRET=
+
+TEST_CLEANUP=true
+
+ALLIANCE_FMS_RELEASE=5.2.2
+ID_MATI_URL=
+LOG_PATH=./
+XML_PATH=./

tests/api/test_search_dates.py

@@ -24,7 +24,7 @@ def initialize_elasticsearch():
     date5_str = '2022-12-31'
     date1 = int(datetime.strptime(date1_str, '%Y-%m-%d').timestamp()) * 1000000
     date2 = int(datetime.strptime(date2_str, '%Y-%m-%d').timestamp()) * 1000000
-    date3 = int(datetime.strptime(date3_str, '%Y-%m-%d').timestamp()) * 1000000
+    # date3 = int(datetime.strptime(date3_str, '%Y-%m-%d').timestamp()) * 1000000
     date4 = int(datetime.strptime(date4_str, '%Y-%m-%d').timestamp()) * 1000000
     date5 = int(datetime.strptime(date5_str, '%Y-%m-%d').timestamp()) * 1000000
     doc1 = {
@@ -107,14 +107,14 @@ def test_search_references_with_date_pubmed_arrive(self, initialize_elasticsearc
         with TestClient(app) as client:
             search_data = {
                 "query": "",
-                "facets_limits":{"pubmed_types.keyword":10,
-                                 "category.keyword":10,
-                                 "pubmed_publication_status.keyword":10,
-                                 "authors.name.keyword":10},
-                "author_filter":"",
-                "query_fields":"All",
-                "date_pubmed_arrive":["2022-01-01T00:00:00.000Z",
-                                      "2022-03-31T03:59:59.999Z"]
+                "facets_limits": {"pubmed_types.keyword": 10,
+                                  "category.keyword": 10,
+                                  "pubmed_publication_status.keyword": 10,
+                                  "authors.name.keyword": 10},
+                "author_filter": "",
+                "query_fields": "All",
+                "date_pubmed_arrive": ["2022-01-01T00:00:00.000Z",
+                                       "2022-03-31T03:59:59.999Z"]
             }
             res = client.post(url="/search/references/", json=search_data, headers=auth_headers).json()
             assert "hits" in res