Commit Graph

857 Commits

Author SHA1 Message Date
Kelly McDonald 55e6f5b753 refactored calls into a service - forgot to add actual service 2020-12-11 11:42:00 -05:00
Kelly McDonald 3a1160efac refactored calls into a service 2020-12-11 11:41:32 -05:00
Kelly McDonald 9eea26e019 add workflow_sync test 2020-12-11 08:34:59 -05:00
Kelly McDonald 993c7bc76e fixed error on api.yml from search / replace 2020-12-11 08:29:37 -05:00
Kelly McDonald 3f56dfe484 Move all workflow sync stuff into new file
Make changes to api naming scheme
add some error checking around endpoints for missing/invalid endpoints
2020-12-10 10:46:23 -05:00
Kelly McDonald a8203ed01d save changes before refactor 2020-12-10 10:06:21 -05:00
Kelly McDonald e377a05dea Add some punctuation 2020-12-09 13:50:52 -05:00
Kelly McDonald c57b17df1e Add a robust way of adding an API key, update examples and documentation for swagger API and add the ability to completely sync the local system from the remote system. 2020-12-09 12:13:17 -05:00
mike cullerton 32c5060a31 No longer use eval on the email address. It is already parsed.
Tests for single and multiple emails, and email error checking.
Still need to figure out how to implement multiple emails.
2020-12-09 12:11:46 -05:00
Kelly McDonald 0e1aa59fa1 Make a change to make sure that if there is a new file locally that is not present remotely when we pull from the remote, the new local file gets deleted.
Also: add several things to the requirements.txt that should have been there in the first place.
2020-12-08 13:42:01 -05:00
mike cullerton 730d0ca18f Email script now uses an email address instead of a UVA LDAP user_id. 2020-12-07 16:23:41 -05:00
Kelly McDonald 44c72115ae Make sure we get the file we intended 2020-12-07 08:50:20 -05:00
Kelly McDonald f26a8615a4 Get more file details so we can fill out everything locally and also add a method to download the file by md5_hash 2020-12-07 08:49:38 -05:00
Dan 93b12a8e82 updates using new navigation from spiff workflow's navigation branch, all tests passing. 2020-12-04 17:56:12 -05:00
Kelly McDonald cad613cf63 Fix problem when method is run for a workflow that is non-existant locally 2020-12-04 12:00:02 -05:00
Kelly McDonald d41d018fe3 For a given workflow - find the files that are different from a remote endpoint for the same workflow 2020-12-04 11:49:07 -05:00
Kelly McDonald 3e8d4ca7c9 Add some inline documentation to make the process more clear 2020-12-04 10:23:03 -05:00
Kelly McDonald 10dce542ec documentation change 2020-12-03 15:27:45 -05:00
Kelly McDonald 0f59d3de09 add endpoint that gets a record for all changed /new workflow_specs at a remote endpoint 2020-12-03 14:45:57 -05:00
Kelly McDonald bcb45a59c8 allow cors 2020-12-03 08:46:34 -05:00
Kelly McDonald 0e8913434a refactor a bit 2020-12-03 08:44:15 -05:00
Kelly McDonald 92aa1b971d commit before removing big long SQL 2020-12-02 16:04:00 -05:00
Dan aca1fb366b Fixing a failing test and updating the personnel. 2020-12-01 15:47:27 -05:00
Dan Funk e15130e09c
Merge pull request #203 from sartography/151-data-store-exclusive-branch-expression
Added the ability to use the custom functions within a decision/flow …
2020-12-01 14:44:27 -05:00
Dan Funk 801c5df75e
Merge pull request #201 from sartography/verify-end-event-#105
Verify end event #105
2020-12-01 14:24:12 -05:00
Dan e0c28cbc7d Make it easer to start things up. 2020-12-01 11:17:07 -05:00
Kelly McDonald 94662c560e Added the ability to use the custom functions within a decision/flow coming off of an exclusive join
Altered previous test to test this feature
2020-12-01 09:13:12 -05:00
mike cullerton 73e01b347b Ticket #105. Verify End Event Documentation. Added explicit call to _process_documentation at end of crc.services.workflow_service.test_spec for the end event 2020-11-24 16:51:18 -05:00
Dan 071c98d72e Some minor config tweaks to try and deal with some database timeout issues. 2020-11-19 11:25:58 -05:00
Dan Funk b8a91a513b
Merge pull request #196 from sartography/128-data-store
128 data store
2020-11-18 18:55:33 -05:00
Dan b83ab1bcd1 Move data store base into its own file. 2020-11-18 15:34:50 -05:00
mike cullerton d198f124d7 Committing a merge from dev 2020-11-18 15:33:44 -05:00
Dan 66693d9f3a Removing datastore script, as it isn't used in the api at all. 2020-11-18 15:06:28 -05:00
Dan c62b73a539 drop some of the test-only api endpints and rework the tests so they aren't needed 2020-11-18 15:04:36 -05:00
mike cullerton 16313609ec removed call to signal (changed to cancel_notify) 2020-11-18 13:55:30 -05:00
Kelly McDonald 72ade3c367 Add crosstalk test 2020-11-17 10:29:49 -05:00
Kelly McDonald e9979efb0d Add some tests 2020-11-17 09:33:29 -05:00
mike cullerton a2dc3c4812 Use Cancel Event
New title 'New Title'
2020-11-16 09:59:22 -05:00
Kelly McDonald 70425eee0d Add last_updated field - change the api signature to be closer to what we need going forward, but retain the old methods for testing the script get/set through the API 2020-11-13 12:03:29 -05:00
Kelly McDonald 7c2c725840 save before changing how API works 2020-11-13 09:58:21 -05:00
Kelly McDonald acaf633b45 Added ID as pk 2020-11-11 11:36:25 -05:00
Kelly McDonald 9a4d167dcd Add in api changes 2020-11-11 09:44:58 -05:00
Kelly McDonald cef221be32 Refactor to reuse code 2020-11-10 11:32:59 -05:00
Kelly McDonald 3ba11f5e6b add user_data_get/set and alter test so that it ensures that we don't grab study_data stuff from the user_data calls
change the test to mock up the user.
2020-11-10 10:32:37 -05:00
Kelly McDonald 245124779e Add mostly-working elements of the data-store, compare with dev to see why db is not working after running tests 2020-11-10 08:21:46 -05:00
Kelly McDonald e598994d34 Change the study_sponsors script so that we can actually call it :
var = study_info('sponsors')

to keep it more in line with other scripts that we have
2020-11-05 10:31:47 -05:00
Kelly McDonald 1815a4b657 Merge branch '117-save-restore' into dev 2020-11-05 08:24:18 -05:00
mike cullerton a78af4eab8 Run cancel task during interrupt. Currently this uses Signal event. We may change this to the Cancel event. 2020-11-04 14:37:53 -05:00
Kelly McDonald 2931f45187 Add 'sponsors' to study_info call 2020-11-04 14:34:10 -05:00
Kelly McDonald 849a4e9f94 Made changes to how soft_reset works so it is backward compatible - essentially, we use the file if we are doing a soft-reset or a new workflow. NB, this may actually still have problems if we have a workflow with P/SMI and we do a soft-reset on it even if there are no structural changes.
Also, change how default_value is interpreted, looking at the object attribute rather than the properties list.
2020-10-09 11:00:33 -04:00
Kelly McDonald 8b23cdc05c commit changes before switching branches 2020-10-09 08:46:14 -04:00
Dan Funk b2aede2b8d Glob on windows seems to return directories where in linux it does not, so now assuring we don't try to add files from the sub-directory. 2020-10-05 17:35:35 -04:00
Dan Funk 014a4d9757 Fixing a failing test and updating the personnel. 2020-09-02 08:24:48 -04:00
Dan Funk b544334f45 1. Updating Personnel BPMN diagram to debug some issues.
2. Disabling the token timeout for now, to see if this corrects the issues Alex is having with lost work.
3. Raising more thoughtful error messages for unknown lookup options.
4. Providing better validation of default values and injecting the correct value for defaults related to enum lists of all types.
5. Bumping Spiffworkflow library which contains some better error messages and checks.
2020-09-01 15:58:50 -04:00
Dan Funk 1052dff549 Merge remote-tracking branch 'origin/dev' into feature/python_eval 2020-08-27 14:33:16 -04:00
Dan Funk 5dacc46600 Adding some additional bpmns from Staging server to include in tests. 2020-08-27 14:00:45 -04:00
Dan Funk 53d09303d8 Validating that field properties are valid - they must exist as constants on the Task model.
Making all the lookup field names consistent.
Fixing the lookup service which was failing at times trying to find the correct field to use for building the lookup table.
Updating validation to check for additional fields and properties.
When connexion level errors occur, wrapping it in an API Error to be consistent.
2020-08-27 14:00:14 -04:00
Dan Funk 1a713bd140 updating bpmn files from the staging server. 2020-08-27 13:55:27 -04:00
Dan Funk d31fd47837 Merge branch 'dev' into feature/python_eval 2020-08-25 11:08:42 -04:00
Dan Funk 5be35e8bab Adding a study sponsors script to return details about study sponsors 2020-08-25 10:30:46 -04:00
Aaron Louie 182e375fdc Adds a test for string manipulation 2020-08-21 13:46:10 -04:00
Aaron Louie 4dc98a6b6b Injects current user into task data. 2020-08-21 13:34:37 -04:00
Dan Funk 66e49a347a Minor tweaks to the eval endpoint, which should take both the expression and the data as one data structure. 2020-08-20 16:13:48 -04:00
Dan Funk 7f60a19d55
Merge pull request #189 from sartography/feature/documents_publishing
Update github routines to use branches
2020-08-17 15:52:47 -04:00
Dan Funk 8f5488d910 Don't raise an error when validating workflows that use the ldap script. 2020-08-17 15:45:37 -04:00
Dan Funk 35b1b20960 Merge remote-tracking branch 'origin/dev' into feature/documents_publishing 2020-08-17 15:19:24 -04:00
Dan Funk dfaffc22b5 Merge remote-tracking branch 'origin/dev' into fix/returning_failed_name_message 2020-08-17 15:18:17 -04:00
Dan Funk d4c5e297cc Merge remote-tracking branch 'origin/dev' into fix/delete_workflow_endpoint 2020-08-17 15:09:11 -04:00
Dan Funk 32d47c1417 Merge remote-tracking branch 'origin/dev' into fix/delete_workflow_endpoint 2020-08-17 15:08:44 -04:00
Dan Funk c09441d019 Merge branch 'dev' into fix/delete_workflow_endpoint 2020-08-17 15:07:58 -04:00
Dan Funk 85ad477b2b Some minor cleanup on the study status and automatic events. I wanted to avoid having one database model automatically generating other database models as a side effect. The study service now has full responsiblity to recording study events.
To help in running tests, adding __init__.py methods to all the test directories.
2020-08-17 14:56:00 -04:00
Carlos Lopez 2bd906e96d Update github routines to use branches 2020-08-14 11:04:22 -06:00
Carlos Lopez 304ca77e3e Fixing exception within NameError handler 2020-08-14 09:01:15 -06:00
Carlos Lopez 369fe4bb35 Automatic events refactoring 2020-08-14 08:36:46 -06:00
Carlos Lopez aa010272cc Automatic event creation in study creation 2020-08-14 08:36:10 -06:00
Dan Funk c57ac6d302
Merge pull request #185 from sartography/feature/107_current_user_info
calling ldap with no argument will return information about the curre…
2020-08-14 09:18:10 -04:00
Dan Funk 08c24b7441
Merge pull request #184 from sartography/PMI_fix
Pmi fix
2020-08-14 09:17:58 -04:00
Dan Funk c12e2b97f3 calling ldap with no argument will return information about the current user. 2020-08-13 21:09:52 -04:00
Dan Funk 1a963cf940 Merge branch 'dev' into PMI_fix 2020-08-13 20:49:45 -04:00
Dan Funk 9a5c1d7cfb I may have finally wrapped my head around full text search in python. Now properly using an index based on simple rather than english dictionary which has far fewer stop words and stemming processes and plays much better to the type ahead search we are trying to provide.
Stop words are no longer excluded, so "other" is a valid search and gets a result.
2020-08-13 18:13:41 -04:00
Dan Funk e8067fe34e adding additional data to the study details returned during validation/shield testing. 2020-08-12 17:04:59 -04:00
Kelly McDonald 7bfcdd53cd Merge branch 'dev' into cr-workflow-108 2020-08-12 10:50:19 -04:00
Kelly McDonald c4a15be90c Change dmn files to python standard,
NB: this means mostly false=>False and true=>True

We may have to decide if we want to add false and true as extensions in the python namespace.
2020-08-12 10:48:59 -04:00
Aaron Louie 9a31d591ae Adds user uid and cascades study event in study model. Fixes migration to properly downgrade enums. 2020-08-12 10:13:23 -04:00
Carlos Lopez 79c14ad23c Unlinking file from workflow instead of trying to delete it 2020-08-10 22:23:20 -06:00
Dan Funk 3cfcd74a6a Just finding a few more edge cases, all tests should pass now. 2020-08-10 15:16:53 -04:00
Dan Funk b53d033400 Cleaning up the delete workflow method in study service so we don't try to delete the same thing more than once) 2020-08-10 14:56:33 -04:00
Dan Funk 56b161a234 Fixing the failing tests by passing in workflow.id rather than workflow to the delete workflow endpoint 2020-08-10 13:51:05 -04:00
Carlos Lopez d3462d2e15 Deleting all dependencies for a workflow 2020-08-10 07:42:56 -06:00
Carlos Lopez a561a5cddc Adjusting study events attribute 2020-08-08 18:25:01 -06:00
Kelly McDonald 1ab765b50b Add test for PMI problem 2020-08-06 10:29:14 -04:00
Carlos Lopez bf3dae1885 Collecting user generated study changes 2020-08-05 20:29:05 -06:00
Aaron Louie c25536dcca Makes Sonar happy. 2020-08-04 16:42:35 -04:00
Aaron Louie 2846bf9451 Fleshes out fake PB response, so workflows that pull from PB actually trigger validation errors 2020-08-04 15:50:29 -04:00
Aaron Louie b4595b345a Raises ApiError for 'display_name' extension property exception 2020-08-04 13:59:50 -04:00
Carlos Lopez 04399eec2a Accepting None for primary_investigator_id 2020-08-04 11:38:46 -06:00
Carlos Lopez cd9376cf8e Adding back ability to update studies 2020-08-04 09:13:24 -06:00
Carlos Lopez 50b207307a Merge branch 'dev' into feature/update_study_status_latest 2020-07-31 14:26:24 -06:00
Carlos Lopez 4fcba113b8 Fixing tests 2020-07-31 11:49:04 -06:00
Carlos Lopez 2c2967e633 Normalizing enum values 2020-07-31 11:19:50 -06:00
Carlos Lopez 5d23223e51 New study status update 2020-07-30 21:03:11 -06:00
Aaron Louie 73699e66bd Merge branch 'dev' into feature/admin_impersonations 2020-07-30 17:36:20 -04:00
Dan Funk 9704cbcb26 Modifications to the ldap scripts to bring them back in line with what Kelly is doing with the evaluation process. 2020-07-30 13:35:20 -04:00
Aaron Louie f8944da31f Merge branch 'dev' into feature/admin_impersonations 2020-07-30 13:01:46 -04:00
Aaron Louie faba0f55ab Adds AdminSession model and refactors impersonation methods to use it. 2020-07-30 12:40:53 -04:00
Dan Funk a6ec0c92c7 Merge remote-tracking branch 'origin/dev' into cr-connect-106-augment-eval-methods 2020-07-30 11:38:47 -04:00
Dan Funk 44deee12de Merge branch 'dev' into feature/improved_task_event_api 2020-07-30 11:28:52 -04:00
Dan Funk 37d1ba5d5a
Merge pull request #160 from sartography/feature/ldap_lookup_script
Ldap lookup script
2020-07-30 11:27:38 -04:00
Dan Funk bf4d882519 Merge branch 'dev' into feature/ldap_lookup_script 2020-07-30 11:19:24 -04:00
Dan Funk 2905fc6173 Merge branch 'feature/ldap_lookup_script' of github.com:sartography/cr-connect-workflow into feature/ldap_lookup_script 2020-07-30 11:17:48 -04:00
Aaron Louie aa0f24bd33 Fully deletes users from g in test tearDown 2020-07-30 10:40:06 -04:00
Dan Funk 31982f81ae Merge branch 'dev' into feature/documents_publishing
# Conflicts:
#	Pipfile.lock
2020-07-30 10:17:08 -04:00
Aaron Louie 1b0ebecbf4 Uses Flask session to store impersonation state. 2020-07-30 10:17:02 -04:00
Aaron Louie d301e9e6fa Adds list_users endpoint. Adds admin impersonate uid parameter to user endpoint. Adds some utility methods to user service. Refactors authentication tests. 2020-07-29 22:47:47 -04:00
Aaron Louie 63537d7765 Adds is_admin boolean flag to user schema 2020-07-29 22:45:56 -04:00
Carlos Lopez de49397549 Adjustings tests for protocol builder status changes 2020-07-29 10:51:34 -06:00
Carlos Lopez 73a6b7adf1 Fixing tests 2020-07-29 10:25:57 -06:00
Carlos Lopez 6aa21638de Updating properly study status & fixing tests 2020-07-29 10:25:57 -06:00
Aaron Louie f897ee3aea Merge branch 'feature/approvals_dashboard_prototype' into feature/admin_impersonations 2020-07-29 10:32:46 -04:00
Dan Funk 0ea4c13d09 Convert protocol builder status to always be in lower case in order to better match the front end. And also fixing an issue with the multi_instance that is oddly broken suddenly, and I don't know why. 2020-07-28 17:16:48 -04:00
Aaron Louie 79adb673f2 Fixes display_name custom properties 2020-07-28 14:04:18 -04:00
Dan Funk 4d11fc04a0 dropping the "read_only" flag in favor of a "do_engine_steps" flag, which more clearly defines what is happening. 2020-07-28 13:51:29 -04:00
Dan Funk f15626033d Allow the workflow to be requested without making changes to the workflow - requires that you specify a read_only flag of true, otherwise it assumes that you want a fully prepared workflow with the next ready task set to run. 2020-07-28 13:33:38 -04:00
Kelly McDonald d617af8565 All tests are passing - may need to refactor a bit, / remove comments 2020-07-28 11:02:49 -04:00
Dan Funk 300026cbc8 Expanding the task events endpoint to accept workflow and study ids as additional filters.
Removing events from the study endpoint, too noisy.
2020-07-28 10:16:48 -04:00
Dan Funk 0cb480801b Provide event data on the Study api endpoint.
Speed up the tests a little, because that got out of hand.  Need to dig into what is causing this problem.
2020-07-27 17:05:01 -04:00
Dan Funk 51d6d6a5fa Fixing failing tests around a notifications workflow. 2020-07-27 16:54:46 -04:00
Dan Funk 8d42d520a0 Adding events to the study that is returned via the api. 2020-07-27 16:32:23 -04:00
Dan Funk 452f2c3723 Building out a user service for getting the current user, it will provide a number of functions, one of which will allow administrative users to impersonate other users in some circumstances (but will assure that we log events correctly when an impersonation occures) 2020-07-27 14:38:57 -04:00
Dan Funk 0d2cb8c1b8 Correcting an issue with the Navigation where it did not correctly handle looking back to a previous task within the workflow.
In some cases the session was not getting committed, leaving rogue assignments outstanding for a workflow.
2020-07-27 12:36:20 -06:00
Aaron Louie 263ea4d00f Adds manual task 2020-07-27 12:35:53 -06:00
Aaron Louie 6cdb9c3b3a Exposes date in TaskEvent endpoint 2020-07-27 12:35:53 -06:00
Aaron Louie 4adb6a1b44 Adds enrollment_date to study model 2020-07-27 12:34:25 -06:00
Dan Funk 6379b26a71 Add a few more details to the workflow metadata model. 2020-07-27 12:34:25 -06:00
Kelly McDonald cc55aed89c Change exception name 2020-07-27 12:18:28 -04:00
Kelly McDonald 70ad3872a7 Fix several bugs, most had an issue with the bpmn document 2020-07-27 12:02:34 -04:00
Dan Funk 824582dab1 Hot fix to correct for a failing test due to updates in Spiffworkflow library,
and modifying the token authorization so that we can log in as different users when not in production mode.
2020-07-27 11:25:29 -04:00
Kelly McDonald a124e13c6a Replace all legacy style calls with new calls.
Still having issues where we try to eval an empty definition, not quite sure why there is a difference from what we had before. I may need to revert some of it and determine what is going on.
2020-07-24 14:33:24 -04:00
Kelly McDonald f5ab283538 Test of adding in the ability of augmenting the workflow to include internal scripts like StudyInfo
This is the first waypoint on a larger effort to make all of the 'special scripts' that currently require a shebang to be just another python function.
2020-07-24 12:08:46 -04:00
Carlos Lopez 842d2ee100 Supporting study status update 2020-07-23 10:58:24 -06:00
Aaron Louie 6fae89b1fc Adds manual task 2020-07-22 14:48:36 -04:00
Aaron Louie b87f55fbd7 Exposes date in TaskEvent endpoint 2020-07-22 14:48:10 -04:00
Aaron Louie aa7437bfc4 Merge branch 'dev' into feature/approvals_dashboard_prototype 2020-07-22 13:08:32 -04:00
Dan Funk acb43cc271 Removing an unused function and addign a fix me. 2020-07-22 11:40:49 -04:00
Dan Funk a243c14d75 Updating to lastest spiffworkflow which uses box to support dot notation.
Adding a new endpoint for evaluating the results of a python expression into the tools section of the api.
2020-07-22 11:30:16 -04:00
Aaron Louie 855f5544e5 Adds enrollment_date to study model 2020-07-22 09:35:08 -04:00
Carlos Lopez 41cbce8e01 Updating bpmn test 2020-07-21 21:08:08 -06:00
Carlos Lopez 522f848682 Addressing feedback 2020-07-21 20:54:03 -06:00
Carlos Lopez 313770d538 Ldap lookup script 2020-07-21 20:54:03 -06:00
Dan Funk 3d9eeab502 Add a few more details to the workflow metadata model. 2020-07-21 15:18:08 -04:00
Dan Funk d01b30debc Building the start of an endpoint that could be used by logged in / authenticated users that will evaluate basic python functions sent in via the API.
The hope here is that we can process these in real time for the front end, but still do it using the same evaluation engine we use everywhere else, so
the syntax for things like hide-expressions can be properly verified during workflow validation and will be assured to work during front end rendering.
Removing any all javascript code in the BPMN models.
2020-07-21 13:57:33 -04:00
Dan Funk 73338e61d5 Merge branch 'dev' into feature/ldap_lookup_script 2020-07-20 14:56:34 -04:00
Dan Funk 7f8c7097ef Merge branch 'dev' into feature/ldap_lookup_script 2020-07-20 13:05:33 -04:00
Dan Funk 6caf44544c Merge branch 'dev' into cr-connect-92-scripting-enhancements
# Conflicts:
#	crc/static/bpmn/ind_supplement/ind_supplement.bpmn
#	tests/workflow/test_workflow_service.py
2020-07-20 13:01:23 -04:00
Dan Funk dd0f984347 Drop backwards compatibility of scripts. While this will cause some initial pain, it's less confusing and error prone, and we are still in the development phase of the project. Were this going straight to production we would likely want to keep this backwards compatibility.
Don't parse on spaces if this is python code, so we avoid any errors in processing - spaces should be valid.
2020-07-20 12:26:34 -04:00
Dan Funk b85869905b Merge branch 'cr-connect-92-scripting-enhancements' of github.com:sartography/cr-connect-workflow into cr-connect-92-scripting-enhancements 2020-07-20 11:40:10 -04:00
Dan Funk 06430550c8 Dropping the RRT-Data-Fix, it should have come out already, but had a failing test, so pulling it out now rather than delve into what is going wrong with obsolete code. 2020-07-20 11:39:50 -04:00
Kelly McDonald f415f22ccb Add warning message when we fail due to syntax error and then we try to look up the class as a backup 2020-07-20 10:12:15 -04:00
Carlos Lopez a39cacdf00 Ldap lookup script 2020-07-19 21:53:18 -06:00
Carlos Lopez fcb772c900 Reporting to Sentry all captured exceptions and enabling multiple environments 2020-07-19 16:40:33 -06:00
Carlos Lopez 59d04feb23 Adding missing import 2020-07-17 17:08:44 -06:00
Carlos Lopez 73400ed6c7 Adding proper tests for files publishing 2020-07-17 16:59:25 -06:00
Carlos Lopez d34d08b121 Trying to force re-run to clear SonarCloud 2020-07-17 13:33:42 -06:00
Carlos Lopez 331a6c0aeb Fixing tests 2020-07-17 12:52:09 -06:00
Carlos Lopez f4eb592b87 Extracting token to env var 2020-07-17 12:31:05 -06:00
Carlos Lopez 419d06c95b Updating file by latest version 2020-07-17 12:31:05 -06:00
Carlos Lopez a10ef9066d Github integration with admin 2020-07-17 12:31:05 -06:00
Aaron Louie e82532aad8 Updates IND workflow spec. Fixes validation process to return lookups for enum values. 2020-07-17 11:51:21 -04:00
Kelly McDonald de54b63e20 Process scripts with no shebang (#!) as a regular python script. If there is a shebang, we look up the class as we did before.
I've also made it so that it falls back if we accidentally forget to add a shebang to a study as this would be a breaking change.

With the fallback feature, it should work with unmodified bpmn documents.
2020-07-17 10:56:04 -04:00
Kelly McDonald ab5771024e Check in for sanity check 2020-07-17 09:24:53 -04:00
Aaron Louie d67105332f Merge branch 'dev' into feature/lanes_and_roles 2020-07-16 14:00:53 -04:00
Dan Funk 6c6c5d315d Fixing a stupid mistake where I used an unquoted value in the mock data for validation, which created a dict that could not be serilized. 2020-07-16 13:28:00 -04:00
Aaron Louie 6a24bcbf6f Clears out Jinja statements to get test to pass for now 2020-07-16 09:45:11 -04:00
Aaron Louie d0279a11e5 Fixes failing unit test 2020-07-15 17:44:46 -04:00
Aaron Louie 3fe9662f26 Updates DSP workflow 2020-07-15 16:48:32 -04:00
Aaron Louie 77948c7828 Updates Personnel workflow 2020-07-15 14:28:55 -04:00
Aaron Louie 08fba1a4dc Merge branch 'dev' into feature/dynamic_enum_list 2020-07-15 13:09:02 -04:00
Dan Funk c7662315aa Assure that any errors that occur during the do_engine_steps is correctly captured and returned to the end user or configurator with enough information for them to act on. 2020-07-15 11:16:35 -04:00
Dan Funk fa7608053a fixing a failed test. 2020-07-14 22:23:54 -04:00
Dan Funk d85ca1ce51 Whenever a workflow is loaded or updated, add events to the TaskEvent table with assignments for the next set of ready tasks, along with who should complete those tasks.
Add the lane information to the Task model.
Drop the foreign key constraint on the user_uid in the task log, as we might create tasks for users before they ever log into the system.
Add a new endpoint to the API called task events.  It should be possible to query this and get a list of all tasks that need a users attention.
The task events returned include detailed information about the workflow and study as sub-models
Rename all the actions in event log to things that are easier to pass over the api as arguments, make this backwards compatible, updating existing names in the database via the migration.
Throughly test the navigation and task details as control of the workflow is passed between two lanes.
2020-07-14 22:16:44 -04:00
Aaron Louie c8214a4cc4 Updates DSP 2020-07-14 14:49:04 -04:00
Aaron Louie d71ff80eac Adds end and start events 2020-07-14 13:42:52 -04:00
Dan Funk 9077ff3ebf It is not possible to use task_data for an auto-complete field. It's too expensive an operation to provide that feature on the backend, and the data already fully resides on the front end anyway. Task-data can be used to populate enum fields if needed, so it can populate dropdowns, radios and checkboxes, just not auto-complete. 2020-07-14 11:38:48 -04:00
Dan Funk a48322ef6a Partial work on CR Connect Roles.
Adding checks in the API to assure the correct person is completeing a task based on the task's lane.
Adding lane to the Navigation item.
Adding a check to assure that unique user ids can be identified using task.data
Added some additional ldap entries to make testing and development easier.
Removed a big chunk of duplicate code from task_tests_api
Modified some of the helper functions to make it easier to test as specific users.
Added some additional bpmn models to the tests for testing lanes and roles.
2020-07-14 10:29:25 -04:00
Aaron Louie 463660f185 Merge branch 'dev' into feature/dynamic_enum_list 2020-07-13 17:47:56 -04:00
Aaron Louie 07066b8a16 Looks up enum options from task data 2020-07-13 17:46:28 -04:00
Dan Funk 069a9cac5e Merge branch 'feature/enum_lookup_data' of github.com:sartography/cr-connect-workflow into feature/enum_lookup_data 2020-07-13 12:46:13 -04:00
Dan Funk 9e29a43785 Correct for a race condition where multiple lookup tables are built for the same field and workflow specification, causing it to appear that the models are not updating correctly. 2020-07-13 12:45:51 -04:00
Aaron Louie 32343c04d6 Merge branch 'feature/enum_lookup_data' into feature/dynamic_enum_list 2020-07-13 11:53:29 -04:00
Aaron Louie ccb2addeb5 Fixes another one 2020-07-10 16:27:09 -04:00
Aaron Louie 743e18746b Fixes some syntax issues 2020-07-10 16:17:49 -04:00
Aaron Louie aea7b23aab Removes unnecessary test workflow spec 2020-07-10 14:52:08 -04:00
Aaron Louie b7920989ed WIP: Adds Camunda property for retrieving enum field options from task data. 2020-07-10 14:48:38 -04:00
Aaron Louie 1f454536e3 Renames TOKEN_AUTH_SECRET_KEY to SECRET_KEY 2020-07-10 11:26:15 -04:00
Aaron Louie 7f0b35ff27 Merge branch 'dev' into feature/enum_lookup_data 2020-07-10 10:27:51 -04:00
Dan Funk ff7c30b879
Merge pull request #138 from sartography/fix/cleanup_todos
Cleanup pending  TODOs
2020-07-10 08:26:47 -04:00
Dan Funk 6a79fb3581 There may be multiple investigators of the same type that come back from the protocol builder, adding some tests and additional code to handle this, but still keep the list flat, currently appends a number to the investigator type when there is more than one. 2020-07-07 17:16:33 -04:00
Carlos Lopez 64f9bd2ca7 Tiny leftover 2020-07-07 08:38:33 -06:00
Carlos Lopez b4e127b3b7 Cleaning properly previous versions 2020-07-07 08:32:41 -06:00
Carlos Lopez a302208890 Updating test for study with approvals 2020-07-07 08:32:41 -06:00