sartography/cr-connect-workflow
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78 Commits

Author SHA1 Message Date
Carlos Lopez
4fc1b51cbc Approve/denied emails 2020-06-05 12:08:31 -06:00
Carlos Lopez
4727d87adb Hooking up emails into process - start 2020-06-04 20:37:28 -06:00
Carlos Lopez
f581bd9f2b Mails for approval process 2020-06-04 00:35:59 -06:00
Dan Funk
c7484267e1 For the main approval endpoints - we now group the approvals by study. So you get one record back for each study, but it may have other approvals along with it as "related_approvals". 
We now cache the LDAP records - so we look in our own database for the record before calling out to ldap for the details when given a straight up computing id like dhf8r.

Added "date_approved" to the approval model.

And moved the approver and primary investigator into real associated models to make it easier to dump.

Fixed a problem with the validation that was causing it to throw incorrect errors on valid workflows. Getting it to behave a little more like the front end behaves, and respecting the read-only fields.  But it was mainly to do with always returning all the data with each form submission.
 2020-06-02 18:17:00 -04:00
Aaron Louie
51accc350c Updates doc template 2020-06-01 13:37:44 -04:00
Aaron Louie
885ce5668e Updates RRT workflow spec files 2020-06-01 13:29:57 -04:00
Dan Funk
c790737bf0 The complete_template script might not grab the correct document when validating, fixed. 
Updated to latest RRT files, and passing.
 2020-06-01 12:33:58 -04:00
Aaron Louie
1702ab2576 Fixes decision tables that were causing failing tests 2020-06-01 00:36:25 -04:00
Aaron Louie
ea441dbff5 More updates 2020-06-01 00:28:37 -04:00
Aaron Louie
8092bbe682 Wrong file in wrong place. 2020-06-01 00:17:20 -04:00
Aaron Louie
7351dc4a43 Updates RRT workflow spec files for reals this time 2020-06-01 00:14:09 -04:00
Aaron Louie
2d5eb740ef Updates RRTworkflow spec files 2020-06-01 00:07:50 -04:00
Dan Funk
98fb305868 Run the validation process twice, each time it is requested, first populating everything, and then a second time 
using on the required form fields.
 2020-05-30 18:43:20 -04:00
Aaron Louie
34b812b74e Updates RRT workflow spec files 2020-05-29 10:49:47 -04:00
Aaron Louie
dedec02d48 Updates RRT workflow spec files 2020-05-28 10:43:03 -04:00
Dan Funk
be057e8758 Adding an "UpdateStudy" task that is able to update the data on the study model, useful for setting core data points on the model, such as setting the Primary Investigator, or altering the Study Title. 
Fixing a bug where the validation of forms did not correctly process auto-complete fields.
Fixing a bug where the approvals script and the update study script could not process dot notation correctly.

Moved populate_random_data into the WorkflowService where it makes more sense.
 2020-05-25 15:30:06 -04:00
Dan Funk
6cd4ef64d1 Fixing add_study api endpoint, so you can actually add a new "Study" with just some basic information. 
Using the LDAP service for checking user details in development mode - even if you are using the back door.
Added a new Flask fucntion load-example-rrt-data that loads the rrt workflow, and not the CRC wrokflows.
Modified the "load-example-data" in the tests to use some test data, rather than loading up all the workflows[
in CRC each time, with a parameter to load crc data if that is required - which is enabled for just a handful of tests.
(Tests run in 1/4 the time now)
 2020-05-25 12:29:05 -04:00
Aaron Louie
481a9ed04c Gets image ids from task data and Injects images into jinja docx 2020-05-19 21:51:54 -04:00
Dan Funk
6d4348d644 Fixing some failing tests. Moved the task properties into a dictionary, but moving the form field properties to a dictionary will be a larger effort that we don't want to get into on either the back or front end right this moment. 2020-05-14 14:39:14 -04:00
Dan Funk
b7c11fd893 Merge branch 'master' into feature/investigators_reference_file 2020-05-11 17:36:37 -04:00
Dan Funk
02f8764056 Updated to use the latest script engine / evaluation engine that creates a single location where all values used in BPMN/DMN are processed. Right now this is a python based interpreter, but we will eventually base this on FEEL expressions. 
The validation process needs to take the api model into account so we catch errors with bad file names.
 2020-05-11 17:04:05 -04:00
Dan Funk
da7cae51b8 Adding a new reference file that provides greater details about the investigators related to a study. 
Improving the study_info script documentation to provide detailed examples of values returned based on arguments.
Making the tests a little more targetted and less subject to breaking through better mocks.
Allow all tests to pass even when ther protocol builder mock isn't running locally.
Removing the duplication of reference files in tests and static, as this seems silly to me at the moment.
 2020-05-07 13:57:24 -04:00
Dan Funk
8ded625c7d Merge remote-tracking branch 'origin/chore/update_specs' into feature/previous_task 
# Conflicts:
#	Pipfile.lock

Assuring that all documents from the xls spreadsheet are loaded when doing validations.
Fixing some failed tests.
 2020-05-06 11:46:19 -04:00
Dan Funk
07e58e923d Merge remote-tracking branch 'origin/chore/update_specs' into feature/previous_task 
# Conflicts:
#	Pipfile.lock

Assuring that all documents from the xls spreadsheet are loaded when doing validations.
 2020-05-06 11:25:50 -04:00
Aaron Louie
6c36a32411 Adds DSP 2020-05-06 10:37:43 -04:00
Aaron Louie
a8827d78c4 Fixes typo 2020-05-05 20:49:07 -04:00
Aaron Louie
4ecb0cb3a3 Updates BPMN files 2020-05-05 16:15:38 -04:00
Dan Funk
ce76b0d3e8 Merge branch 'feature/protocol_status' into feature/previous_task 2020-05-04 11:12:12 -04:00
Dan Funk
714b5f3be0 Merge branch 'feature/protocol_status' into feature/previous_task 
# Conflicts:
#	crc/services/study_service.py
 2020-05-04 11:08:36 -04:00
Aaron Louie
098cf10926 Fixes Jinja code to match new structure of StudyInfo documents 2020-05-01 22:49:52 -04:00
Dan Funk
f1f8b91c9c Refactor the document details scripts. Now there is one script, it returns data in a consistent format, and has all the details required. The script is located in StudyInfo, with the argument documents. Make note that it returns a dictionary of ALL the documents, with a field to mark which ones are required according to the protocol builder. Others may become required if a workflow determines such, in which case the workflow will enforce this, and the document will have a count > 0, and additional details in a list of files within the document. I modified the XLS file to use lower case variable names, because it disturbed me, and we have to reference them frequently. Removed devious "as_object" variable on get_required_docs, so it behaves like the other methods all the time, and returns a dictionary. All the core business logic for finding the documents list now resides in the StudyService. 
Because this changes the endpoint for all existing document details, I've modified all the test and static bpmn files to use the new format.
Shorting up the SponsorsList.xls file makes for slightly faster tests. seems senseless to load 5000 everytime we reset the data.
Tried to test all of this carefully in the test_study_details_documents.py test.
 2020-04-29 15:08:11 -04:00
Aaron Louie
beb86f0453 Adds protocol script to study service 2020-04-29 10:21:24 -04:00
Aaron Louie
663a1a00a8 Fixes file name so it matches workflow spec ID 2020-04-28 11:50:10 -04:00
Aaron Louie
9311a2502a Fixes broken Formly expression 2020-04-28 09:25:44 -04:00
Aaron Louie
52fc3c2c2f Removes xlsx lock file. Adds LibreOffice lock files to gitignore 2020-04-27 22:58:12 -04:00
Aaron Louie
496e5b7719 Updates all workflow specs to match staging 2020-04-27 22:54:05 -04:00
Aaron Louie
af1bb9f80d Adds more useful metadata to approvals and documents status scripts. Fleshes out and pretties up Documents & Approvals screen 2020-04-23 23:32:20 -04:00
Aaron Louie
47de010a88 Puts data from sequential calls to StudyInfo into the right place. Sets the required document flag correctly. 2020-04-23 21:02:08 -04:00
Aaron Louie
d91f690388 Adds documents_status StudyInfo script. Adds Documents & Approvals workflow spec. 2020-04-23 19:25:01 -04:00
Aaron Louie
2e601719ad Fixes broken spec 2020-04-23 17:10:10 -04:00
Aaron Louie
b10f72c085 Updates workflow spec. Removes old DMN files 2020-04-21 14:19:57 -04:00
Dan Funk
ee999a0f15 fixing a bunch of stupid mistakes because I am tried. 2020-04-20 20:28:12 -04:00
Aaron Louie
faf4c0df97 Updates BPMN and DMN files 2020-04-15 10:58:13 -04:00
Dan Funk
316b9e6e8d Fixing a stupid mistake - must have typed a ' mark during commit. 
Script should inherit from object.
Updating the ids so I could more easily test and assure things were working correctly.
 2020-04-08 13:39:42 -04:00
Dan Funk
c79415a794 throw a sensible error when study is not found on get_study (don't 500) 
some ugly fixes in the file_service for improving panda output from spreadsheet processing that I need to revist.
now that the spiff-workflow handles multi-instance, we can't have random multi-instance tasks around.
Improved tests around study deletion.
 2020-04-08 13:28:43 -04:00
Dan Funk
697127660f Assure that all script tasks place data in a dictionary that is named exactly the same as the class - which is also the same as the Script tag. 2020-04-07 14:09:21 -04:00
Dan Funk
c6b6ee5d70 Renamed the required_docs script to just "documents", and it returns all documented in the irb_documents look up table indexed on the "Code" - so details become available in the task data like "documents.IRB_INFOSEC_DOC.required". 
Updated the irb_documents with shorter code names, thanks to Alex. Re-worked the DMN models so they can properly read from this new datastructure.
 2020-04-06 16:56:00 -04:00
Aaron Louie
e6550b7e39 Fixes Formly expression syntax error 2020-04-06 13:22:49 -04:00
Aaron Louie
419d619efa Updates BPMN & DMN files with latest from staging 2020-04-06 13:12:34 -04:00
Dan Funk
534e8493a4 Deleting was broken because statistics were causing an integrity constraint. 
Updating IDS bpmn to the latest for testing.
Adding a TODO
 2020-04-02 12:58:52 -04:00