fix!: Allow null value on externalIds in the Assay model (#647)

* fixed null externalIds error on sequencingGroups query

* Bump version: 6.6.1 → 6.6.2

* changed return type of externalIds to be a dict object instead of allowing null values

* cast None values for externalIds to an empty dict

.bumpversion.cfg

@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 6.6.1
+current_version = 6.6.2
 commit = True
 tag = False
 parse = (?P<major>\d+)\.(?P<minor>\d+)\.(?P<patch>[A-z0-9-]+)

api/graphql/schema.py

@@ -484,7 +484,7 @@ class GraphQLSequencingGroup:
     technology: str
     platform: str
     meta: strawberry.scalars.JSON
-    external_ids: strawberry.scalars.JSON | None
+    external_ids: strawberry.scalars.JSON
 
     internal_id: strawberry.Private[int]
     sample_id: strawberry.Private[int]
@@ -498,7 +498,7 @@ def from_internal(internal: SequencingGroupInternal) -> 'GraphQLSequencingGroup'
             technology=internal.technology,
             platform=internal.platform,
             meta=internal.meta,
-            external_ids=internal.external_ids,
+            external_ids=internal.external_ids or {},
             # internal
             internal_id=internal.id,
             sample_id=internal.sample_id,
@@ -575,7 +575,7 @@ def from_internal(internal: AssayInternal) -> 'GraphQLAssay':
             id=internal.id,
             type=internal.type,
             meta=internal.meta,
-            external_ids=internal.external_ids,
+            external_ids=internal.external_ids or {},
             # internal
             sample_id=internal.sample_id,
         )

api/server.py

@@ -20,7 +20,7 @@
 from api.settings import PROFILE_REQUESTS, SKIP_DATABASE_CONNECTION
 
 # This tag is automatically updated by bump2version
-_VERSION = '6.6.1'
+_VERSION = '6.6.2'
 
 logger = get_logger()
 

deploy/python/version.txt

@@ -1 +1 @@
-6.6.1
+6.6.2

models/models/assay.py

@@ -12,7 +12,7 @@ class AssayInternal(SMBase):
     sample_id: int
     meta: dict[str, Any] | None
     type: str
-    external_ids: dict[str, str] | None = None
+    external_ids: dict[str, str] | None = {}
 
     def __repr__(self):
         return ', '.join(f'{k}={v}' for k, v in vars(self).items())

models/models/sequencing_group.py

@@ -37,7 +37,7 @@ class SequencingGroupInternal(SMBase):
     platform: str | None = None
     meta: dict[str, str] | None = None
     sample_id: int | None = None
-    external_ids: dict[str, str] | None = None
+    external_ids: dict[str, str] | None = {}
     archived: bool | None = None
 
     project: int | None = None

setup.py

@@ -19,7 +19,7 @@
 setup(
     name=PKG,
     # This tag is automatically updated by bump2version
-    version='6.6.1',
+    version='6.6.2',
     description='Python API for interacting with the Sample API system',
     long_description=readme,
     long_description_content_type='text/markdown',

web/package.json

@@ -1,6 +1,6 @@
 {
     "name": "metamist",
-    "version": "6.6.1",
+    "version": "6.6.2",
     "private": true,
     "dependencies": {
         "@apollo/client": "^3.7.3",