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1167 Commits

Author SHA1 Message Date
Dan Funk
710921cfe1
Merge pull request #314 from sartography/deprecate-study-info-protocol-261 
Remove protocol from study_info script #261
 2021-06-08 08:47:43 -04:00
Dan
59f605c3df Prefer tasks that share a parent over just the the next available task when returning the next_task in the workflow processor. 2021-06-08 08:03:14 -04:00
mike cullerton
a3a485dd34 Changed do_task_validate_only so it returns a mocked value, instead of True/False. 
True/False caused problems for workflow validations
 2021-06-04 11:44:55 -04:00
mike cullerton
9a63ab9c4f Change do_task_validate_only in study_info script to call the real do_task. 
We do this so we can seed settings into the workflow for testing different scenarios using the study from validate_study_id
 2021-06-03 14:28:24 -04:00
mike cullerton
c41657301a Modify test_spec and make_test_workflow to accept new optional validate_study_id parameter. 
Modify `make_test_workflow` to use study_id when creating test workflow for validation.
 2021-06-03 14:22:26 -04:00
mike cullerton
0dfc96d7f6 Modified validate_workflow_specification to accept new optional validate_study_id parameter. 
We then pass validate_study_id on to WorkflowService.test_spec
 2021-06-03 14:19:41 -04:00
mike cullerton
d657744816 Added optional validate_study_id parameter to the validation api endpoint. 2021-06-03 14:17:12 -04:00
mike cullerton
7f0d8a131d Import DataStoreBase from service now 2021-06-02 10:00:55 -04:00
mike cullerton
506b84a49a Import DataStoreBase from service now 2021-06-02 10:00:18 -04:00
mike cullerton
e2e35b673d Moved data store code from script to service 2021-06-02 09:59:41 -04:00
mike cullerton
162dee45d3 Unused import 2021-06-01 16:34:21 -04:00
mike cullerton
2e3d8c7343 Fix for DataStoreSchema missing the file_id column. 
The file_id column is a foreign key.
 2021-06-01 13:51:10 -04:00
mike cullerton
1ed144536f New method for file datastore api endpoint 2021-06-01 13:50:04 -04:00
mike cullerton
e9fe555e05 New /datastore/file/{file_id} endpoint definition 2021-06-01 13:49:21 -04:00
Kelly McDonald
8c04e228e9 Add test and fix to make sure that an empty study associates list (or a blank list) will effectively clear the extra study associates 2021-06-01 11:46:43 -04:00
Kelly McDonald
a5d67bb245 337 partial fix 
if the user calls the file_data_set function for a valid file with the key 'irb_code' and a value of a valid IRB document code, then we should set the irb code on the file.
 2021-05-27 12:24:30 -04:00
Kelly McDonald
acccf3b704 Make sure we are using the correct script engine 2021-05-26 10:50:20 -04:00
mike cullerton
384da075ef Removed references to protocol from the description 2021-05-20 11:54:12 -04:00
Dan
ef7ee284b2 Prefer tasks that share a parent over just the the next available task when returning the next_task in the workflow processor. 2021-05-19 16:26:16 -04:00
Dan Funk
77f7fec5d4
Merge pull request #312 from sartography/study-is-none-329 
Study is none #329
 2021-05-14 16:33:04 -04:00
Mike Cullerton
668e2f4e3c
Merge pull request #313 from sartography/feature/add_file_data_store_properties_to_file 
Assure that any data store values associated with a file come back as…
 2021-05-14 16:30:35 -04:00
mike cullerton
ce7c07679b SonarCloud 2021-05-14 15:52:30 -04:00
Dan
8e37f27399 Assure that any data store values associated with a file come back as a part of the get_study_data[documents 
] endooint.
 2021-05-14 15:52:25 -04:00
mike cullerton
a9e3f7c861 Standalone workflows do not have a study_id, and we do not record task events for them. 2021-05-14 15:34:29 -04:00
Dan Funk
4d7ce5eda9
Merge pull request #311 from sartography/deprecate-study-info-protocol-261 
Deprecate study info protocol #261
 2021-05-14 14:14:18 -04:00
Dan
7e6645db89 Merge branch 'dev' of github.com:sartography/cr-connect-workflow into dev 2021-05-14 14:10:19 -04:00
Dan
427875b8dd upgrading Sartography libraries, and fixing a potential error where a file can't be located in the documents.xslt 2021-05-14 14:10:14 -04:00
Dan Funk
ade7812540
Merge pull request #310 from sartography/get-primary-workflow-301 
Get primary workflow #301
 2021-05-14 12:41:48 -04:00
Dan Funk
6a34fc0cde
Merge pull request #309 from sartography/persist-read-only-data-324 
Persist read only data #324
 2021-05-14 12:38:48 -04:00
Dan Funk
1d28d602d5
Merge pull request #308 from sartography/get-dashboard-url-230 
Get dashboard url #230
 2021-05-14 12:36:40 -04:00
Dan Funk
415964806d
Merge pull request #307 from sartography/standalone-set-default-false-323 
Set the default for the `standalone` parameter to `false`. #323
 2021-05-14 12:33:33 -04:00
Dan Funk
99da502912
Merge branch 'dev' into 321-Markdown-Macro 2021-05-14 12:32:41 -04:00
Dan
a1bb30e689 Switching from using "default" to "server_default" for all default time settings, and running migrations so that this is set at the database level rather than in python, to hopefully correct some issues with dates being 4 hours in the future. Having a very hard time replicating this issue locally. 2021-05-14 12:28:50 -04:00
mike cullerton
9b24ad319b Removed the get_protocol method from study_service. 2021-05-13 16:29:34 -04:00
mike cullerton
d189b84ba1 Removed protocol as an option in the study_info script 2021-05-13 16:22:42 -04:00
mike cullerton
8a6bef5af4 New service to get the primary workflow for a workflow_spec, using a workflow_spec_id. 
This is necessary because `primary` is a file parameter, not a workflow_spec parameter.

- you can ask a workflow file whether it is primary, but
- you cannot ask a workflow_spec for its primary workflow file

Now, you can use `workflow_service.get_primary_workflow(workflow_spec_id)`
 2021-05-12 13:51:51 -04:00
mike cullerton
07f3d2c2ee Allow data from read-only fields to persist in task_data 2021-05-07 14:06:53 -04:00
mike cullerton
5efb1a72ce Changed URL to use HTTPS instead of HTTP 2021-05-06 15:52:27 -04:00
mike cullerton
09a395fa34 Start for ticket 230 - Get Dashboard URL 2021-05-06 14:07:21 -04:00
mike cullerton
6b242c07e2 Set the default for the standalone parameter to false. 2021-05-06 11:54:04 -04:00
Dan
620b9a5188 Fixing a regression. It's critical that Spiffworkflow's box implement deepcopy, as this is used by Jinga prior to generating a word document. 2021-05-05 21:36:57 -04:00
Dan
5a79b80f32 fixes #322, do not error out deleting files that have assocaited data stores, just remove the data store. 2021-05-05 20:21:33 -04:00
Dan
7831bef050 Don't fail the sync completely when a remote file does not exist. 2021-05-05 15:59:00 -04:00
Kelly McDonald
cbd1d01203 Add URL to the study_info('documents') script 
fixes #321 - I merged in branches that fix #320 and #297

320-add-default-for-file-data-get
297-filename-in-documents
 2021-05-05 11:30:08 -04:00
Kelly McDonald
7ed30ef25a Merge branch '320-add-default-for-file-data-get' into 321-Markdown-Macro 2021-05-05 11:13:01 -04:00
Dan
8f28970f92 Resolving an alembic conflict. 
Upgrading libraries, and resolving issues from that upgrade, including changes to how we manage tokens.  This seems to be working locally.
 2021-05-04 13:39:49 -04:00
Dan Funk
8b0afa4437
Merge pull request #304 from sartography/irb-info-script-307 
Irb info script #307
 2021-05-04 11:40:52 -04:00
Kelly McDonald
7b3287f67b Save a sample file while I try to figure out how the JS is going to work 2021-05-04 11:32:34 -04:00
Dan Funk
34759a2f3d
Merge branch 'dev' into feature/performance-refactor 2021-05-04 11:30:13 -04:00
Dan Funk
4780240103
Merge pull request #302 from sartography/320-add-default-for-file-data-get 
Add default capability to file_data_get script
 2021-05-04 11:28:40 -04:00