Merge pull request #276 from sartography/dependabot/pip/lxml-4.6.3

Bump lxml from 4.6.2 to 4.6.3

crc/api.yml

@@ -65,7 +65,8 @@ paths:
             application/json:
               schema:
                 type: array
-                $ref: "#/components/schemas/User"
+                items:
+                  $ref: "#/components/schemas/User"
   # /v1.0/study
   /study:
     get:
@@ -80,7 +81,8 @@ paths:
             application/json:
               schema:
                 type: array
-                $ref: "#/components/schemas/Study"
+                items:
+                  $ref: "#/components/schemas/Study"
     post:
       operationId: crc.api.study.add_study
       summary: Creates a new study with the given parameters.
@@ -159,6 +161,7 @@ paths:
   /workflow_sync/{workflow_spec_id}/spec:
     parameters:
       - name: workflow_spec_id
+        required: true
         in: path
         description: The unique id of an existing workflow specification to modify.
         schema:
@@ -392,7 +395,7 @@ paths:
     parameters:
       - name: spec_id
         in: path
-        required: false
+        required: true
         description: The unique id of an existing workflow specification to modify.
         schema:
           type: string
@@ -441,7 +444,7 @@ paths:
     parameters:
       - name: spec_id
         in: path
-        required: false
+        required: true
         description: The unique id of an existing workflow specification to validate.
         schema:
           type: string
@@ -497,7 +500,7 @@ paths:
     parameters:
       - name: cat_id
         in: path
-        required: false
+        required: true
         description: The unique id of an existing workflow spec category to modify.
         schema:
           type: string
@@ -1513,8 +1516,7 @@ components:
           example: "random_fact"
           x-nullable: true
         file:
-          type: file
+          type: string 
-          format: binary
     Workflow:
       properties:
         id:
@@ -1522,7 +1524,7 @@ components:
           type: integer
           format: int64
         status:
-          type: enum
+          type: string
           enum: ['new','user_input_required','waiting','complete']
         navigation:
           type: array
@@ -1576,7 +1578,7 @@ components:
         data:
           type: object
         multi_instance_type:
-          type: enum
+          type: string
           enum: ['none', 'looping', 'parallel', 'sequential']
         multi_instance_count:
           type: number
@@ -1709,7 +1711,7 @@ components:
           type: string
           readOnly: true
         type:
-          type: enum
+          type: string
           enum: ['string', 'long', 'boolean', 'date', 'enum']
           readOnly: true
         label:
@@ -1785,7 +1787,7 @@ components:
           type: string
           example: "Chuck Norris"
         data:
-          type: any
+          type: string
     NavigationItem:
       properties:
         id:
@@ -1815,7 +1817,7 @@ components:
           type: integer
           example: 4
         state:
-          type: enum
+          type: string
           enum: ['FUTURE', 'WAITING', 'READY', 'CANCELLED', 'COMPLETED','LIKELY','MAYBE']
           readOnly: true
         is_decision:

tests/base_test.py

@@ -166,8 +166,10 @@ class BaseTest(unittest.TestCase):
             study_model = StudyModel(**study_json)
             session.add(study_model)
             StudyService._add_all_workflow_specs_to_study(study_model)
-            session.execute(Sequence(StudyModel.__tablename__ + '_id_seq'))
+            session.commit()
-        session.commit()
+            update_seq = f"ALTER SEQUENCE %s RESTART WITH %s" % (StudyModel.__tablename__ + '_id_seq', study_model.id + 1)
+            print("Update Sequence." + update_seq)
+            session.execute(update_seq)
         session.flush()
 
         specs = session.query(WorkflowSpecModel).all()

tests/workflow/test_workflow_processor.py

@@ -253,10 +253,8 @@ class TestWorkflowProcessor(BaseTest):
         processor = self.get_processor(study, workflow_spec_model)
         self.assertTrue(processor.get_version_string().startswith('v2.1.1'))
 
-
     def test_hard_reset(self):
         self.load_example_data()
-
         # Start the two_forms workflow, and enter some data in the first form.
         study = session.query(StudyModel).first()
         workflow_spec_model = self.load_test_spec("two_forms")
@@ -275,6 +273,8 @@ class TestWorkflowProcessor(BaseTest):
 
         # Assure that creating a new processor doesn't cause any issues, and maintains the spec version.
         processor.workflow_model.bpmn_workflow_json = processor.serialize()
+        db.session.add(processor.workflow_model)  ## Assure this isn't transient, which was causing some errors.
+        self.assertIsNotNone(processor.workflow_model.bpmn_workflow_json)
         processor2 = WorkflowProcessor(processor.workflow_model)
         self.assertFalse(processor2.is_latest_spec) # Still at version 1.