Merge pull request #1245 from Sage-Bionetworks/develop

Minor release v23.6.2

Author: linglp

.github/workflows/docker_build.yml

@@ -7,7 +7,7 @@ name: Create and publish a Docker image
 on:
   push:
     tags:
-      - '*beta*'
+      - 'v[0-9]+\.[0-9]+\.[0-9]+(?:-[a-zA-Z]+)?'
 
 env:
   REGISTRY: ghcr.io

schematic_api/api/openapi/api.yaml

@@ -329,6 +329,13 @@ paths:
             default: false
           description: If True, validation suite will only run with in-house validation rule. If False, the Great Expectations suite will be utilized and all rules will be available.
           required: true
+        - in: query
+          name: hide_blanks
+          schema:
+            type: boolean
+          description: If true, annotations with blank values will be hidden from a dataset's annotation list in Synaspe. If false, annotations with blank values will be displayed. Default to false
+          required: false
+          example: false
         - in: query
           name: access_token
           schema:

schematic_api/api/routes.py

@@ -370,7 +370,7 @@ def validate_manifest_route(schema_url, data_type, restrict_rules=None, json_str
 
 #####profile validate manifest route function 
 #@profile(sort_by='cumulative', strip_dirs=True)
-def submit_manifest_route(schema_url, asset_view=None, manifest_record_type=None, json_str=None, table_manipulation=None, data_type=None):
+def submit_manifest_route(schema_url, asset_view=None, manifest_record_type=None, json_str=None, table_manipulation=None, data_type=None, hide_blanks=False):
     # call config_handler()
     config_handler(asset_view = asset_view)
 
@@ -415,6 +415,7 @@ def submit_manifest_route(schema_url, asset_view=None, manifest_record_type=None
         access_token=access_token, 
         manifest_record_type = manifest_record_type, 
         restrict_rules = restrict_rules, 
+        hide_blanks=hide_blanks,
         table_manipulation = table_manipulation, 
         use_schema_label=use_schema_label)
 

tests/test_api.py

@@ -685,6 +685,7 @@ def test_submit_manifest_table_and_file_replace(self, client, syn_token, data_mo
             "schema_url": data_model_jsonld,
             "data_type": "Biospecimen",
             "restrict_rules": False, 
+            "hide_blanks": False, 
             "manifest_record_type": "table_and_file",
             "asset_view": "syn51514344",
             "dataset_id": "syn51514345",