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894 Commits

Author SHA1 Message Date
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
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
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
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
Kelly McDonald
116bf5e7aa Merge branch 'dev' into 263-optimize-dashboard 
# Conflicts:
#	crc/services/study_service.py
 2021-03-31 10:20:33 -04:00
Kelly McDonald
9084866015 Update error message - it may be that we should spend a bit and see if we can make the Box error 2021-03-31 10:17:08 -04:00
Kelly McDonald
60f5be1aef Check in - pending change from @cullerton 2021-03-30 12:10:49 -04:00
Dan Funk
b5d4df595f
Merge pull request #271 from sartography/master-workflow-status-messages-222 
Master workflow status messages 222
 2021-03-26 20:52:24 -04:00
Dan
ded11ddd82 fixing a code smell 2021-03-26 20:25:34 -04:00
Dan Funk
e79e810ae1
Merge pull request #273 from sartography/modify-email-template-215 
Change location of `CR Connect` string. Move it left, closer to the logo
 2021-03-26 19:50:16 -04:00
Dan Funk
123ec50912
Merge pull request #272 from sartography/infinite-validations-262 
Infinite validations 262
 2021-03-26 19:49:42 -04:00
Dan
b64b52e7cb Assure that we properly return the new status message over the api calls. 2021-03-26 19:47:31 -04:00
Dan
ac4877fecf Merge remote-tracking branch 'origin/dev' into master-workflow-status-messages-222 2021-03-26 17:47:57 -04:00
mike cullerton
d9bf2a8a81 Change location of CR Connect string. Move it left, closer to the logo 2021-03-23 13:12:13 -04:00
Kelly McDonald
f1ca44a0e1 Add primitive cache on the fileservice is_review, halves the time of loading the list on the primary dashboard 2021-03-23 10:17:48 -04:00
mike cullerton
a201e49d21 The master workflow now generates a dictionary of dictionaries, rather than a dictionary of strings. 
Each entry in status is a dictionary with 'status' and 'message' keys.
We updated the StudyService._update_status_of_workflow_meta method to accommodate the master workflow changes.

Changed the order of some if statements so we move forward while we have good data, and run all the error states at the end.
Added some comments to explain the cascading if statements

We changed the names of private methods to begin with one underscore, so they work in the test environment.
Changed  some internal calls to accommodate the underscore change.
 2021-03-22 17:46:39 -04:00
Dan Funk
6ab98c1dee
Merge pull request #267 from sartography/get-study-associates-validation-242 
The `do_task_validate_only` method in the `get_study_associates` scri…
 2021-03-19 15:41:46 -04:00
Dan Funk
544f4a4418
Merge pull request #266 from sartography/study-associated-email-207-223 
We now perform an LDAP lookup for the associated user email addresses…
 2021-03-19 15:40:31 -04:00
mike cullerton
938079cf59 Lowered count ceiling to 100, from 1000. This significantly increased validation time, from about 3 minutes to about 10 seconds. 
Changed ApiError call to from_task, instead of from_workflow_exception.
 2021-03-17 14:52:19 -04:00
mike cullerton
e2ba19748d Added department chair to the mocked data for study_info script. 
The missing department chair caused an infinite loop in a workflow that checked for a department chair.
 2021-03-16 13:36:55 -04:00
mike cullerton
529bfc34b3 We now check for an infinite loop during validation. 
This happened when testing for a Department Chair in a workflow.
Our mocked data for study_info script did not have a Department Chair
 2021-03-16 13:35:51 -04:00