sartography/cr-connect-workflow
1
0
Fork 0
mirror of https://github.com/sartography/cr-connect-workflow.git synced 2025-02-24 05:38:25 +00:00
Code Issues Packages Projects Releases Wiki Activity
2,590 Commits 14 Branches 0 Tags 9 MiB
Commit Graph

111 Commits

Author SHA1 Message Date
Dan
df3f67601c performance improvements. and last rements of load_example_data() 2022-02-09 23:29:39 -05:00
Dan
788e40a998 death to load_example_data() !!!!! 2022-02-09 22:13:02 -05:00
Dan
f12c4aba52 Refactor the workflow_spec_service so it doesn't cache anything, it always reads what it needs from the file system. 2022-02-09 21:06:55 -05:00
Dan
5773eb99f3 fixing study status. 2022-02-09 12:36:16 -05:00
Dan
de6d7eee84 nearly all study tests work. 2022-02-09 12:03:45 -05:00
Dan
cc915ac25a refactoring the study service. 2022-02-09 08:50:00 -05:00
alicia pritchett
a4fb00b0ed remove bad imports 2022-02-07 15:28:52 -05:00
Dan
4ec6e403f5 1. Created a UserFileService, so it's clear what we use when for File Services, UserFiles, SpecFiles, and ReferenceFiles each function differently. 
2. Reference Files and Spec Files are written to disk, they do not exist in the database at all.
 2022-02-02 12:59:56 -05:00
mike cullerton
68820c67cb Removed (almost) all references to WorkflowSpecDependencyFile 
(There is still a call in the lookup service, but we need to decide how to fix that)
 2022-01-19 16:12:54 -05:00
mike cullerton
88a8c96bd6 The reference document is already created in load_example_data 
This lead to a failing test after cleaning up the way we add/update files
 2022-01-12 15:07:57 -05:00
mike cullerton
b99ed73951 Remove unused imports 2022-01-12 15:00:26 -05:00
mike cullerton
4df2ed6ce4 *** WIP *** 
Failing tests, and missing functionality.
Committing to get stuff on Github.
 2022-01-11 15:30:22 -05:00
mike cullerton
9785a2fe5a Updated for new ProtocolBuilderCreatorStudy model and schema 
Added with `session.no_autoflush` to stop rollback during test
 2021-12-06 14:42:34 -05:00
mike cullerton
d08b2a8562 Updated for new ProtocolBuilderCreatorStudy model and schema 
Removed unused imports
 2021-12-06 14:40:56 -05:00
Dan
5429e7da7d All enumerated lists used in web forms should contain a single value, not a dictionary of value/labels. 
Removing the spreadsheet.value.column and data.value.column so we just have value.column for both.
Improving the __str__ function in the ApiError class, to make debugging a little easier.
Adding a "validate_all" flask command, to help us track down any issues with current workflows in production (use this in concert with sync_with_testing)
Fixed logs of tests.
removed fact_runner.py, a very early and crufty bit of code.
 2021-10-19 10:13:43 -04:00
Dan
fdce91507c Improve the warning messages that come back when running the master workflow spec. 2021-10-07 14:43:38 -04:00
alicia pritchett
ea4e382f06 Fixing some tests 2021-10-06 15:24:58 -04:00
mike cullerton
da894219c5 Changes to tests after removing name column from workflow_spec and workflow_spec_category tables. 2021-10-05 14:20:03 -04:00
alicia pritchett
d5d4496cd0 Admin flag on category + migration + updated test 2021-09-29 16:53:59 -04:00
Dan Funk
e4add14193
Merge pull request #378 from sartography/bug/246_user_ldap_refactor 
Bug/246 user ldap refactor
 2021-09-22 15:31:34 -04:00
Dan Funk
deff293fff
Merge pull request #376 from sartography/bug/468_missing_file_date 
fixes #448 - Missing  file date
 2021-09-22 15:29:32 -04:00
Dan
19104303de Refactor of the way we store and return details about users - All the details about a user, or individual associated with a study is returned within in an Ldap model. I've removed duplication between these models. This required some cleanup of the tests, and a migration that will drop the user details. 2021-09-22 13:16:25 -04:00
Dan
4b591a076f Adding importlib-resournces as a dependency, which is suddenly failing on Travis, likely due to different versions of Python as I try to upgrade to 3.9 2021-09-21 14:36:57 -04:00
mike cullerton
deb3d7bf67 Updated for short_name and proposal_name 
Also cleaned up some for readability
 2021-09-17 11:59:02 -04:00
mike cullerton
444e3fa76d Merge branch 'dev' into zip-documents-379 2021-09-14 09:39:19 -04:00
mike cullerton
cd3d17862a Add task_spec_name to a bunch of tests 2021-08-26 10:43:28 -04:00
mike cullerton
35285a0b60 Fixed tests that broke from the new irb_documents spreadsheet 2021-08-26 08:51:52 -04:00
Dan
7a8eeab820 Merge branch 'dev' into bug/missing_pi_name_246 2021-08-17 11:16:03 -04:00
Dan
4e0e162fd6 Removing the execution flag Nile keeps adding to files. 2021-08-17 09:50:57 -04:00
mike cullerton
3f44c202ca Merge branch '417-hsr-open-to-enrollment-bug' into 426-remove-hsr-number 2021-08-16 12:55:24 -04:00
nilez
0a232dace6 assertEquals -> assertEqual 2021-08-16 10:25:41 -04:00
nilez
b9d4f6c436 assertEquals -> assertEqual 2021-08-16 10:18:29 -04:00
nilez
f8dd4c3eb9 Check Study Associates Endpoint 2021-08-16 09:32:02 -04:00
mike cullerton
febcb1ac5b Clarified my comments 2021-08-13 12:36:43 -04:00
mike cullerton
58119c8969 Modified test_get_all_studies so they don't fail looking for studies that are open for enrollment 
We will soon have a new way to automatically set study status to `Open for Enrollment`, so I left the failing tests there and commented them out for now.
 2021-08-13 12:32:11 -04:00
nilez
e32c1db4c8 Merge remote-tracking branch 'origin/dev' into bug/missing_pi_name_246 
# Conflicts:
#	crc/models/study.py
#	crc/services/study_service.py
#	crc/services/workflow_service.py
#	tests/study/test_study_associate_script.py
 2021-08-12 12:59:15 -04:00
nilez
d20b68e483 Fixed Deprecation Warnings in Test Files 2021-08-12 12:33:27 -04:00
Dan
848c2e622f Always use a schema to define what is being returned, it enforces consistency of the API and internally we can depend on well defined objects. 2021-08-10 16:16:08 -04:00
NWalker4483
a73d1794eb Fixed Associate API Endpoint description 2021-07-22 14:09:24 -04:00
mike cullerton
69974e89fd Added 2 simple tests for filtering by REVIEW_TYPE 2021-07-09 11:39:30 -04:00
mike cullerton
445d3e5f0b Added mocked pb study_details since we now check whether a study has valid REVIEW_TYPEs 2021-07-09 10:41:46 -04:00
Dan
fb54edac1c Adding additional details to error messages, and cleaning up the cruft around these messages to keep them clear and succinct. 
Most noteable is the addition of the line on which the error occurs for script tasks.  It will report the line number and pass back the content of
the line that failed.
The validator only returns the first error it encounters, as it's clear that all we ever get right now is two of the same error.
Did a lot of work between this and spiffworkflow to remove all the places where we obfuscate or drop details as we converted between workflowExceptions and APIExceptions.
Dropped the python levenshtein dependency, in favor of just rolling a simple one ourselves in Spiffworkflow.
 2021-07-07 00:53:49 -04:00
Dan
1b1a994360 Refactoring Reference files to use the lookup table, rather than parsing the results directly out of the spreadsheet, or attempting to cache them. 
Adding a DocumentService to clean up the FileService, and get Documents well seperated, as it seems likely be pulled out or seperated in the future, there is now a Documents api file as well, for the same reason.
Some other minor changes are just fixing white space to assure our code is linting correctly.
I removed _create_study_workflow_approvals from the base test, as we don't use approvals like this anymore.
 2021-07-06 13:10:20 -04:00
Dan
61ad371680 Clean up the file api so we don't have a bunch of extra stuff in there. Just include the raw data from the document spraedsheet if it is available. 2021-06-22 15:08:08 -04:00
Dan
07eb3f9ca8 Moving metrics into SpiffWorkflow so we can run the performance metrics deeply across both systems simultaniously. 
Upgrading libraries.
Fixing deprication issue with Pandas and numpy.
We can only process xlsx files now, plain oldschool xls is fully removed.
 2021-06-18 16:41:55 -04:00
Dan Funk
9c4994581d
Merge pull request #324 from sartography/modify-infinite-loop-312 
Modify infinite loop #312
 2021-06-08 10:30:13 -04:00
Dan Funk
37d4e7cc79
Merge pull request #318 from sartography/340-update_study_associate_change 
Add test and fix to make sure that an empty study associates list (or…
 2021-06-08 08:52:44 -04:00
mike cullerton
9dc5871848 Added mocked PB data for tests using study_info script. 2021-06-07 10:08:44 -04:00
mike cullerton
37ba46fb8f These tests now require PB Mock because of the validate_study_id changes 2021-06-03 14:30:00 -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