7d31bc24eb
Attempting to address "FutureWarning: Implicit (flask) JSON serialization" warning
2020-03-16 13:24:15 -04:00
a98251237b
Adds workflow spec category to API
2020-03-16 12:10:32 -04:00
6af1693bdc
Fixes SonarCloud issue L23. Verifies that study ids match.
2020-03-16 10:37:06 -04:00
0cc98616fd
Merge branch 'master' into feature/workflow_spec_categories
2020-03-16 10:25:03 -04:00
3885bc7624
Merge remote-tracking branch 'origin/master' into feature/delete_study
2020-03-16 08:49:44 -04:00
cd6a70b747
Fixes code smell issues identified by SonarCloud
2020-03-16 08:31:19 -04:00
f9dbbefe89
Adds status spec to study when workflow is added.
2020-03-16 08:05:30 -04:00
bdd07685c6
Adds status spec when adding a study, and adds/removes workflows from study based on output data from status spec.
2020-03-15 15:54:13 -04:00
e4af6f77d0
Adds is_status flag to workflow_spec, status_spec_id & version to study, and is_active flag to WorkflowApi
2020-03-15 15:52:59 -04:00
902dba7191
Adds is_status flag to workflow specs
2020-03-13 14:56:46 -04:00
05b39df745
Fixes #12 : Catching some specific common errors and re-raising as APIErrors with detailed codes and descriptions to improve debugging. In doing so, improving the error handling in the event a soft-reset causes an immediate error - and resetting to the original version of the specification in these events, to allow users the chance to try a hard reset instead.
2020-03-11 16:33:18 -04:00
f177e33ad6
Tiny tweak
2020-03-11 15:31:23 -04:00
3262833102
Requires login
2020-03-11 15:27:22 -04:00
e977ee9e0d
Updates task counts when getting workflow
2020-03-11 15:16:42 -04:00
bbfe9291e0
Adds endpoint to get workflow stats. Adds a test for the endpoint.
2020-03-11 14:28:53 -04:00
be17c2159c
Adds workflow stats and task events models and schemas. Updates workflow stats and logs task completion when task data is updated.
2020-03-10 21:29:57 -04:00
f1b6718068
Adds task counts
2020-03-10 15:46:14 -04:00
e91d7aff2f
Fixes #11 : adding a delete endpoint for studies. It won't delete studies that have workflows, you have to delete those first)
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Removing the "default" error response from the api.yml, it was all noise.
2020-03-09 15:12:40 -04:00
95750d4fb0
Merge branch 'feature/pb_services' of github.com:sartography/cr-connect-workflow into feature/pb_services
2020-03-09 12:41:42 -04:00
3b39f3875d
Fix data being over-written in the study_info.
2020-03-09 12:41:35 -04:00
acad0023d2
Fixes a bug in get_study_workflows and adds a test covering it
2020-03-06 10:52:41 -05:00
9fcd6f38f4
Merge remote-tracking branch 'origin/master' into feature/pb_services
2020-03-05 17:13:41 -05:00
e501fb31fd
Cleaning up swagger docs.
2020-03-05 17:10:00 -05:00
906bacff6a
Expose a flag on the workflow model in the api to shown if it is using the latest spec. Added a soft_reset and hard_reset onto the workflow endpoint that will allow you to cause a hard or soft reset.
2020-03-05 16:45:44 -05:00
7b21b78987
Workflow Processor will deserialize workflows using the version of the BPMN files used during creation, but allows for both a soft and hard reset - soft resets will use the new workflow without a restart and will retain full history. A hard-reset will restart the workflow from scratch, but will retain the data from the last completed task. Workflows have a complex version number associated with them that is used during the deserialization to find the correct files.
2020-03-05 15:38:30 -05:00
e07ad8d21c
Updates training session BPMN files. Fixes PB status enums.
2020-03-05 14:21:03 -05:00
697d930eab
Modify the workflow processor to accept a workflow model - so it can take on more of the responsibilities of updating this model and managing versions.
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Changing the version information so that it includes the numbers of the files used to generate the serialized workflow.
2020-03-05 13:25:28 -05:00
70611e2c1d
Adding the version of the specification used to create a workflow to the workflow api endpoint. Though the exact content of this version is likely to change.
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Split the API specific models out from the workflow models to help me keep this straight.
Added tests to help me understand the errors thrown the and resolution path when a workflow specification changes in the midst of a running workflow.
2020-03-05 11:18:20 -05:00
78b6f040eb
Add the ability to forcibly restart a workflow, while retaining that workflows data.
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A workflow specification knows it's version number, which is generated by the version of the files that make it up.
A workflow specification version number is the primary file (the lead BPMN) followed by a consistency ordered version each extra file associated with the workflow. A change in any file modifies the specifications version.
2020-03-04 17:08:45 -05:00
c5cee4761e
Improve version handling of files. Consolidate more of this logic in FileService. Place the version on the actual data model, not the file model, so the file model remains the same, and we just version the data associated with it.
2020-03-04 13:40:25 -05:00
f258090a0b
Fixes broken unit test
2020-03-04 09:54:00 -05:00
8cbd6f892f
WIP: Mocks study details PB endpoint response
2020-03-03 20:56:46 -05:00
01720a8bbf
Replaces migration and fixes broken tests
2020-03-03 16:02:01 -05:00
93168482c2
Merge remote-tracking branch 'origin/master'
2020-03-03 15:46:24 -05:00
668de6c4dc
Edits Protocol Builder statuses
2020-03-03 15:46:20 -05:00
94f828dfd6
Adding a simple endpoint that describes what scripts are currently available, along with a brief description.
2020-03-03 15:30:42 -05:00
7194d7d374
Standardizing the script tasks that can be executed on the server, adding tons of error messages for when things go wrong. All scripts must exist in side of the crc/scripts directory.
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Adding a new script that script tasks can use to add in data about the study.
Moving all the test workflow specifications out of the main load.
fixing a pile of tests so they can find workflow specs that are now moved into the test directory.
2020-03-03 13:52:45 -05:00
f7416065da
Merge remote-tracking branch 'origin/master'
2020-03-02 13:16:43 -05:00
a24b67d5db
Updates DSP BPMN
2020-03-02 13:16:36 -05:00
b0c4996fb3
Populates documentation.
2020-03-02 13:14:03 -05:00
5e3fdaaa94
New set of "Tools" api endpoints, that provides a way to quickly render markdown or word documents by uploading json data and a template to populate.
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Improved Error messages / Error processing. You can now just throw an APIError anywhere, and it will be properly serialized and returned.
2020-02-29 17:22:38 -05:00
5f944af0d7
Adds CR Connect training workflow specs
2020-02-28 15:39:44 -05:00
8611a23ad3
Renaming to snake case for consistency
2020-02-28 11:54:11 -05:00
f4a0c32cec
Fixes path to testing config file
2020-02-28 11:33:08 -05:00
dc53939eb1
Merge remote-tracking branch 'origin/master' into feature/protocol-builder
2020-02-28 11:17:17 -05:00
4534b0c2df
Updates study model to better match Protocol Builder. Deletes all migrations and starts over, since Alembic has problems migrating changes to existing column constraints.
2020-02-28 11:14:30 -05:00
0cc59d0974
Adds study inactive flag. Sets study to inactive if not found in Protocol Builder.
2020-02-27 11:17:58 -05:00
f3068e68db
Adds user to example data. Requires login before adding/updating a study.
2020-02-27 10:30:16 -05:00
27d7afb656
Adds Protocol Builder models and schemas. Reorganizes and cleans up some files.
2020-02-27 09:54:46 -05:00
3ef4860391
Adds user_uid and investigator_ids fields to Study. Gets studies from protocol builder and adds them if they aren't already in the database
2020-02-26 18:06:51 -05:00
Aaron Louie
Dan Funk