Dan Funk 4a916c1ee3 Created a "StudyService" and moved all complex logic around study manipulation out of the study api, and this service, as things were getting complicated. The Workflow Processor no longer creates the WorkflowModel, the study object handles that, and only passes the model into the workflow processor when it is ready to start the workflow. ... Created a Study object (seperate from the StudyModel) that can cronstructed on request, and contains a different data structure than we store in the DB. This allows us to return underlying Categories and Workflows in a clean way. Added a new status to workflows called "not_started", meaning we have not yet instantiated a processor or created a BPMN, they have no version yet and no stored data, just the possiblity of being started. The Top Level Workflow or "Master" workflow is now a part of the sample data, and loaded at all times. Removed the ability to "add a workflow to a study" and "remove a workflow from a study", a study contains all possible workflows by definition. Example data no longer creates users or studies, it just creates the specs.		2020-03-30 08:00:16 -04:00
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__init__.py	Refactor models into seperate directories	2019-12-31 16:32:47 -05:00
api_models.py	fixing a stupid mistake.	2020-03-27 14:55:53 -04:00
file.py	Merge remote-tracking branch 'origin/master' into feature/reference_files	2020-03-20 11:07:55 -04:00
protocol_builder.py	WIP: Adds default workflow spec categories	2020-03-27 15:32:07 -04:00
stats.py	Resolves marshmallow_sqlalchemy.ModelSchema deprecation warning	2020-03-16 13:37:31 -04:00
study.py	Created a "StudyService" and moved all complex logic around study manipulation out of the study api, and this service, as things were getting complicated. The Workflow Processor no longer creates the WorkflowModel, the study object handles that, and only passes the model into the workflow processor when it is ready to start the workflow.	2020-03-30 08:00:16 -04:00
user.py	It became impossible to use the Swagger ui when we started adding authentication to all of the calls. I discovered Connexion and Swagger have a default way of handing JTW authentication and this cleans up our code quite a bit, moves the securing of endpoints into the API Definition, which is quite nice, and removes a whole library dependency (I never get to do that!) I added a SWAGGER_AUTH_KEY that can be used in non-production environments to allow users to quickly authenticate from the Swagger ui. I also removed all api calls to simple little happy api services, because that is just mean and pointless.	2020-03-24 14:15:21 -04:00
workflow.py	Created a "StudyService" and moved all complex logic around study manipulation out of the study api, and this service, as things were getting complicated. The Workflow Processor no longer creates the WorkflowModel, the study object handles that, and only passes the model into the workflow processor when it is ready to start the workflow.	2020-03-30 08:00:16 -04:00