sartography/cr-connect-workflow
1
0
Fork 0
mirror of https://github.com/sartography/cr-connect-workflow.git synced 2025-02-23 05:08:32 +00:00
Code Issues Packages Projects Releases Wiki Activity
1,905 Commits 14 Branches 0 Tags 9 MiB
Commit Graph

1061 Commits

Author SHA1 Message Date
mike cullerton
804926dbac Fixed problem where WorkflowService.make_test_workflow did not add a study to the workflow_model 2021-05-01 15:55:20 -04:00
mike cullerton
060ee5076d New script to get IRB Info for a study 2021-05-01 15:52:41 -04:00
mike cullerton
22b3230243 Added service get_irb_info to crc.services.protocol_builder.ProtocolBuilderService 
Added environment variable `PB_IRB_INFO_URL` for new `get_irb_info` service
 2021-05-01 15:20:47 -04:00
Dan
a719cf4bf9 When retrieving the study, only update the status of underlying workflows if specifically requested. 
Record the size of a file in the database for quick access (this helps with a frontend refactor, so it isn't downloading the file just to see it's size)
Cleaning up the timing/performance metric reporting to make it easier to read.
Fixing a bug that prevented non-admins for getting the document-directory
 2021-04-30 11:55:12 -04:00
Kelly McDonald
7608a889fb Add default capability to file_data_get 
script
 2021-04-30 10:11:50 -04:00
mike cullerton
24c818bf31 Added study_id to workflow_api 2021-04-29 14:29:21 -04:00
Kelly McDonald
2b9cee6b89 Update database to include timezone and change all points where we set the time on an event to be utc time. If we get something in the database with a timezone, it will display properly on the front end, but by default everything will be put in the database in UTC 2021-04-29 10:25:28 -04:00
Kelly McDonald
cc77a9182c Add filename to files listing. 
Fixes #297
 2021-04-28 10:37:14 -04:00
Kelly McDonald
dc6f1cc80d Emulate checks on keyword arguments and then return. Validate only should have no side effects so the previous behavior was a bug. 2021-04-28 10:03:52 -04:00
Kelly McDonald
c029dad688 Convert some datetime columns to include timezone 2021-04-28 10:00:22 -04:00
Kelly McDonald
71a63c049d Merge remote-tracking branch 'origin/dev' into dev 2021-04-27 12:16:36 -04:00
Dan
248ca6a33a Don't require people to be admins just so they can see the list of documents, or we get recursive loads on Kelly's non admin account (and everyone elsees) 
todo: Create a ticket to assure we don't get in an infinite loading loop.
 2021-04-27 12:14:37 -04:00
Kelly McDonald
799747d638 Add filter for non-active studies so that the events for them do not get returned to the front end for the 'InProgress' data pane. 2021-04-27 12:13:49 -04:00
Dan Funk
21e95b106d
Merge pull request #295 from sartography/299-document-datastore 
Add file_data_get and file_data_set functions that can be accessed in…
 2021-04-26 12:49:46 -04:00
Dan
047c68b2b5 Just some quick tidying up. Dropping commented out code, and using the SQLAlchemyAutoSchema to handle serializing db models 2021-04-26 12:31:22 -04:00
Mike Cullerton
39fcab3730
Merge branch 'dev' into launch-workflow-outside-study-204 2021-04-26 10:27:32 -04:00
Kelly McDonald
40ee20ecca Add file_data_get and file_data_set functions that can be accessed in a bpmn script function 
Fixes #299
 2021-04-26 09:55:28 -04:00
Kelly McDonald
d3d7eeb309 Add file_data_get and file_data_set functions that can be accessed in a bpmn script function 
Fixes #299
 2021-04-26 09:41:14 -04:00
mike cullerton
077b68c1e2 When creating a workflow for a study, set the user_id to None 2021-04-26 08:46:19 -04:00
mike cullerton
f17a9dc0f4 Modified get_users_assigned_to_task. 
If we are running a standalone workflow, only return the current user.
 2021-04-26 08:45:08 -04:00
mike cullerton
b6f5001687 Added methods for the 2 new api endpoints 2021-04-26 08:43:14 -04:00
mike cullerton
22432aaf2c study_id is no longer required for task events 2021-04-26 08:36:09 -04:00
mike cullerton
c0655c9d03 Added standalone column to workflow_spec 
Added `user_id` column to workflow
 2021-04-26 08:33:55 -04:00
mike cullerton
fa818bd751 Code for the 2 new api endpoints 
Also modified `update_task` so that it no longer requires a study_id
 2021-04-26 08:31:12 -04:00
mike cullerton
5936b2e8ef Created 2 api endpoints; one to get a workflow from a workflow spec, and one to list all standalone workflow specs. 
Also added `standalone` argument to workflow_spec schema properties
 2021-04-26 08:27:24 -04:00
Dan
dd7c5fd1c1 Fixes #306 assure that we take the doc_code into account if passed in as an argument to the API for get_files. 2021-04-23 16:16:19 -04:00
Dan
cf051a7d4f Merge branch 'dev' into 277-Document-pane 
# Conflicts:
#	crc/api/file.py
 2021-04-21 14:09:44 -04:00
Dan
ecff7d20d3 Adding a test for the new endpoint and cleaning up the API documenation 2021-04-21 14:00:19 -04:00
Kelly McDonald
19e94da6b6 Fix slight bug in expansion code, 
a non-expanded node was causing all parent levels to not expand.
 2021-04-20 11:11:11 -04:00
Kelly McDonald
e2197ddab9 Changes to support the frontend data pane 
fixes #277 and requires frontend branch 277-document-pane
 2021-04-20 08:12:27 -04:00
Dan Funk
277beb345f
Merge pull request #290 from sartography/auto-set-primary-bpmn-142 
Auto set primary bpmn #142
 2021-04-16 13:36:02 -04:00
mike cullerton
2374400542 Automatically set the first workflow for a workflow_spec to primary 2021-04-15 12:39:12 -04:00
mike cullerton
91e80d01bc Added delete_files argument to the workflow_processor reset method. 
Added code to delete the files when delete_files is True.
 2021-04-15 11:25:58 -04:00
mike cullerton
3332b9c7c0 Added delete_files argument to the restart_workflow api method, and pass it along to WorkflowProcessor.reset 2021-04-15 11:23:20 -04:00
mike cullerton
4615649938 Added delete_files argument to the workflow restart api endpoint 2021-04-15 11:21:51 -04:00
Kelly McDonald
949f3be403 give an endpoint to return all files associated with a study 2021-04-12 12:23:33 -04:00
Dan
6427a54d74 Set the correct default value on enumerations - if it is a multi-select enum (checkbox is set) then it should return a default value of an empty array, and not a dictionary. 2021-04-09 08:40:58 -04:00
Dan
41310b6879 Allow both a keyword argument, a single argument when calling delete_file. And call it "delete_file" to be more conssitent with existing scripts. 2021-04-08 13:42:17 -04:00
Dan Funk
611c72f431
Merge pull request #284 from sartography/delete-uploaded-file-script-283 
Delete uploaded file script #283
 2021-04-08 12:42:30 -04:00
mike cullerton
f8428378e2 You can now delete a document or list of documents. 
Also, refactored the fancy bits into `process_document_deletion`
 2021-04-05 15:11:06 -04:00
mike cullerton
f0f5cff8d7 Added some checks to do_task to look for valid irb_doc_code and whether or not we found a file 
Added code for do_task_validate
 2021-04-05 13:15:09 -04:00
Dan
4fd8fd13f8 Remove approvals from the study_info script. It was broken, and isn't really possible in this way anymore 2021-04-05 12:52:23 -04:00
Dan
501487b31c Assure we convert to box for validations as well, and test the bloodly snot out of this. 2021-04-05 12:47:50 -04:00
Dan
727aa72e18 Fix a bug from recent performance improvments - be sure that our study info script returns dicts that can be referenced immediately with dot notation, as this is a common pattern in our bpmn script tasks. 2021-04-05 11:31:06 -04:00
mike cullerton
9317e49e65 Merge branch 'dev' into delete-uploaded-file-script-283 2021-04-05 10:40:33 -04:00
mike cullerton
0eb6291740 Script to delete an IRB document. Takes an irb_document argument. 
Deletes all files associated with the workflow with that IRB document code
 2021-04-05 08:55:02 -04:00
Dan
dcb4e7b736 fixing an error by taking a bit of the magic out of one of Mike's regex hinting tools. I figure the hint is still good, and a little less bittle, and all the information is already there if people need to dig. 2021-04-02 17:58:27 -04:00
Dan
3ad3a086ba Merge branch 'dev' into 263-optimize-dashboard 2021-04-02 17:12:02 -04:00
Dan
2100f27976 fixing the api.yml file which was starting to throw errors when updating the libraries. 
Seems that sqlalchemy now has a hard time incrementing sequences, so putting in a fix for this.
Upgrading many of our libraries, to avoid any disconnects as we try to handle security patches from these automated bumps.
 2021-04-02 17:10:05 -04:00
mike cullerton
d7894f43b6 These changes relate to changes in PB Mock ticket 273, where we removed Q_COMPLETE as a column in the PB Mock Study table. It is now a relationship. 
Here, we removed Q_COMPLETE from ProtocolBuilderStudy and ProtocolBuilderStudySchema definitions to accommodate the PB Mock changes.

***This push will need to be coordinated with ticket 273***
 2021-04-02 12:01:00 -04:00