Commit Graph

128 Commits

Author SHA1 Message Date
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
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 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 92aa1b971d commit before removing big long SQL 2020-12-02 16:04:00 -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
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 9a4d167dcd Add in api changes 2020-11-11 09:44:58 -05:00
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
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 5d23223e51 New study status update 2020-07-30 21:03:11 -06:00
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
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
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
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 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
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 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
Dan Funk f183e12fe5 Provides some basic tools for getting additional information about a lookup field.
Adds an optional 'value' parameter to the lookup endpoint so you can find a specific entry in the lookup table.
Makes sure the data attribute returned on a lookup model is a dictionary, and not a string.
Fixes a previous bug that would crop up if double spaces were used when performing a search.
2020-06-30 10:34:16 -04:00
Dan Funk d3ce1af1ce Provides some basic tools for getting additional information about a lookup field.
Adds an optional 'id' parameter to the lookup endpoint so you can find a specific entry in the lookup table.
Makes sure the data attribute returned on a lookup model is a dictionary, and not a string.
Fixes a previous bug that would crop up in double spaces were used when performing a search.
2020-06-30 10:00:22 -04:00
Dan Funk 150117587e Merge branch 'dev' into feature/parallel_multiinstance_tasks 2020-06-25 23:20:38 -04:00
Carlos Lopez bb825f8097 Dropping old parameter from endpoint 2020-06-22 14:09:58 -06:00
Carlos Lopez e5541e4950 Enable CSV download 2020-06-22 09:24:58 -06:00
Kelly McDonald 1844c93919 STG-26 - basic test case for a looping task
Criteria :
task.multi_instance_type == 'looping'

to terminate, use the standard endpoint for submitting form data with a query variable of terminate_loop=true

Will likely need two buttons:
"Submit and quit"
"Submit and add another"
or something similar
2020-06-17 11:35:06 -04:00
Aaron Louie cccff9b856 Fixes broken unit tests. But still broken. 2020-06-11 11:29:58 -04:00
Aaron Louie 1f5554d0d8 Merge branch 'rrt/dev' into feature/swagger_admin_authentication 2020-06-11 08:55:29 -04:00
Dan Funk 8cf420b781 Default mail user name and password to blank. 2020-06-08 14:15:56 -04:00
Aaron Louie 87e2379871 Merge branch 'rrt/dev' into feature/swagger_admin_authentication 2020-06-08 10:30:16 -04:00
Aaron Louie 049424d01b Adds back an endpoint that returns all approvals across all statuses or users 2020-06-07 22:38:21 -04:00
Aaron Louie 1d3f98b381 Adds endpoint to quickly get counts of approvals in each status group for a user 2020-06-05 22:19:37 -04:00
Dan Funk 6861991d8f Allow setting the type of approvals you want back, by status.
Some very minor performance enhancements, that will add up on the Approvers page.
2020-06-05 17:49:55 -04:00
Dan Funk f0db5b70fc Adding some additional logic to the approval endpoint so that we take related approvals into account when setting the status. In addtion to prevous status options, there is a new status of "AWAITING" which means there are pending approvals before this approval that still need to be approved or canceled. 2020-06-05 14:33:00 -04:00
Dan Funk 1324533865 Some additional cleanup - when a file is "archived" it is no longer returned for any endpoints about files, but it
is directly accessible via id, in the event some request is made for it at a later date.
2020-06-04 09:49:42 -04:00
Dan Funk 217ecfc911 When you can't delete a file, mark it as archived. Don't include archived files in new approval requests. 2020-06-03 17:34:27 -04:00
Dan Funk 4bf13b0718 Doing everything I can imagine to get a CSV dump out tomorrow. 2020-06-02 22:01:49 -04:00
Dan Funk c2a1b0175a Tweaks to approvals 2020-06-01 21:49:30 -04:00
Aaron Louie f0bd8d4f9e Adds approvals to study schema. Adds approvals endpoint 2020-05-31 22:46:32 -04:00
Aaron Louie be9b613bbb Refactors user authentication endpoints so we can use the Swagger UI in production mode 2020-05-31 16:49:39 -04:00
Dan Funk 11413838a7 Faster lookup fields. We were parsing the spec each time to get details about how to search. We're just grabbing the workflow id and task id now and building that straight into the full text search index for faster lookups. Should be peppy.
Another speed improvement - data in the FileDataModel is deferred, and not queried until it is specifically used, as the new data structures need to use this model frequently.
2020-05-29 01:39:39 -04:00
Dan Funk cd7f67ab48 A major refactor of how we search and store files, as there was a lot of confusing bits in here.
From an API point of view you can do the following (and only the following)

/files?workflow_spec_id=x
* You can find all files associated with a workflow_spec_id, and add a file with a workflow_spec_id
/files?workflow_id=x
* You can find all files associated with a workflow_id, and add a file that is directly associated with the workflow
/files?workflow_id=x&form_field_key=y
* You can find all files associated with a form element on a running workflow, and add a new file.
   Note: you can add multiple files to the same form_field_key, IF they have different file names. If the same name, the original file is archived,
   and the new file takes its place.

The study endpoints always return a list of the file metadata associated with the study.  Removed /studies-files, but there is an
endpoint called

/studies/all  - that returns all the studies in the system, and does include their files.

On a deeper level:
 The File model no longer contains:
  - study_id,
  - task_id,
  - form_field_key

Instead, if the file is associated with workflow - then that is the one way it is connected to the study, and we use this relationship to find files for a study.
A file is never associated with a task_id, as these change when the workflow is reloaded.
The form_field_key must match the irb_doc_code, so when requesting files for a form field, we just look up the irb_doc_code.
2020-05-28 08:27:26 -04:00
Dan Funk 987790164e use redirect, not redirect_url. 2020-05-26 15:09:57 -04:00
Carlos Lopez e5e7eb3dd3 Fixing broken tests by making version parameter optional in get file data endpoint 2020-05-23 15:37:03 -06:00
Dan Funk d5c91e575f stuff that might be broken. 2020-05-23 15:21:30 -04:00
Dan Funk 49c322177b
Merge pull request #76 from sartography/feature/rrp-endpoints
Feature/rrp endpoints
2020-05-22 19:38:26 -04:00
Dan Funk 148e86bb42 Building out the boilerplate code to make pushing forward on this a little friendlier.
There is an approval api file, and approval model file and an approval test file.
2020-05-22 18:25:00 -04:00