👷 ci: deploy api to Azure Container Registry #25

megasanjay · 2023-11-14T20:58:01Z

This is for staging only at the moment but the image is now pushed to ACR.

Meant for the staging deployment

* feat: minor syntax errors in readme * feat: added autogenerate in migrations to update DB from all sources * feat: get user details endpoint * feat: put endpoint for updating user details * style: 🎨 fix code style issues with Black * fix: updated readme * fix: updated readme * style: 🎨 fix code style issues with Black * feat: user details endpoint combines user and user_details table * refactor: add marshal_with and success model ex for get * refactor: update spacing for favicon.ico * chore: remove print statements * refactor: update username as email if no username * style: 🎨 fix code style issues with Black * fix: alembic dir * style: 🎨 fix code style issues with Black * refactor: prevent email and username from being changed, comments added * style: 🎨 fix code style issues with Black * feat: add revision * style: 🎨 fix code style issues with Black * style: formatting * fix: unused imports * fix: unused imports and assignments * fix: auth permission for admin * fix: fixed flake8 errors * fix: added string types to models * fix: update arg types in models/functions * fix: flake8 * style: 🎨 fix code style issues with Black * fix: typecheck errors * fix: typecheck errors for apis * fix: typecheck errors for apis dataset metadata * fix: update token exp time * fix: typecheck errors * style: 🎨 fix code style issues with Black * fix: typecheck errors * style: 🎨 fix code style issues with Black * fix: union types * fix: lint error * fix: lint and flake8 errors * fix: lint and flake8 errors * fix: union types * style: 🎨 fix code style issues with Black * fix: union types * fix: none type * fix: pylint errors * style: 🎨 fix code style issues with Black * fix: pylint errors * fix: pylint errors * feat: pytest (#13) * fix: allow config from pytest to be ran in app.py * dx: ignore deprecation warnings with pytest * feat: update tests for server, study api * dx: ignore dependency warnings for all pytest commands * style: 🎨 fix code style issues with Black * wip: adding more tests to pytest * feat: added pyfixture for test_client * feat: have create_app use pytest-config or config based on testing * feat: use pytest-config for pytest * chore: clean app.py * feat: setup tests and fixtures for study api, create dataset api tests * wip: share pytest fixtures across tests with updated value * style: 🎨 fix code style issues with Black * feat: clear database fixture for testing * feat: pytest functions added for study, study metadata, datasets * style: 🎨 fix code style issues with Black * fix: study arm from new entry is patched * fix: patched and cleaned arm metadata api (post) * chore: clean test study api file * feat: track arm id * feat: tests added for central contact, ipd, arm metadata * feat: track arm id through testing * feat: added file for dataset metadata testing * fix: removed for loop and just check for id one time for POST cc endpoint * feat: tests added for collab, cond, desc, design, eligi, id, inter, ipd, link * style: 🎨 fix code style issues with Black * fix: central contact tests fixed, one found bug in response * feat: global variables added for study metadata tests * chore: remove print statements * refactor: /study POST endpoint returns content rather than 204 * wip: modifying login to handle config file for pytest * wip: reworking pytest to login in user once for testing * style: 🎨 fix code style issues with Black * refactor: allow login to use different configuration for testing * style: 🎨 fix code style issues with Black * refactor: use FAIRHUB_SECRET rather than secret for configuration * refactor: create user right after database is cleared * refactor: isort tests folder * fix: resolve unused arguments for pylint * chore: remove prints * feat: add description and payload requirements to ipd endpoint in swagger * feat: add description and payload requirements to arm endpoint in swagger * feat: add more tests for pytest * style: 🎨 fix code style issues with Black * feat: POST, PUT, DELETE tests added for study metadata * style: 🎨 fix code style issues with Black * feat: more tests added for study metadata * style: 🎨 fix code style issues with Black * fix: fix intervention metadata test * chore: gather information on endpoints that aren't working * fix: failed tests corrected * 🚨 fix: fix all linter warnings * 🐛 fix: update secret config * 👷 ci: add test workflow * 💚 test: ci workflow --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * 👷 ci: update docker compose file * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * feat: add jsonschema validation for backend (#15) * feat: validation schema for sign up endpoint * style: 🎨 fix code style issues with Black * feat: validate email with email_validator * feat: schema validation for login * feat: schema validation for user details PUT * feat: POST, PUT schemas added for /study endpoint * feat: schema validation added for arm metadata * style: 🎨 fix code style issues with Black * feat: schema validation for available ipd * style: 🎨 fix code style issues with Black * feat: study contact schema validation added * feat: schema validation for collaborators * style: 🎨 fix code style issues with Black * feat: conditions schema validation added" * style: 🎨 fix code style issues with Black * feat: send better error message for invalid email * feat: schema validation for study description * feat: schema validation for study design * feat: schema validation for study intervention * schema validation for ipd sharing * feat: schema validation for study link * fix: fixed import typo * feat: schema validation for other metadata * feat: schema validation for study location * feat: schema validation for oversight endpoint * feat: schema validation for study reference * feat: schema validation for sponsors collaborators * feat: schema validate password meets all criterias on signup * wip: additional requirements/checks for schema validations * style: 🎨 fix code style issues with Black * feat: study design carries additional validations * feat: study contact carries additional validations * feat: study eligibility carries additional validations * feat: study intervention carries additional validations * feat: overal official has enums and other validations * feat: enums and other validations for location endpoint * feat: enums and additional validations for ipd sharing * feat: additional validations for study_status * feat: additional validations for study reference * feat: additional validations for available ipds * feat: enums added and additional validations for sponsor collaborators * additional enums and validations for study links * refactor: removed marshal_with for validation errors * feat: additional validations added for study contact * feat: enums added for enrollment_type in design endpoint * refactor: other metadata validation formatted * feat: minimum length added for validating sponsor collaborators * fix: remove double imports * refactor: isort imports * style: 🎨 fix code style issues with Black * feat: intervention schema validation added * feat: conditional requirements added to status metadata * feat: conditional validations added for sponsor collaborators * refactor: endpoint comment added * feat: additional validations for study identification * style: 🎨 fix code style issues with Black * feat: conditional validations and enums added for final endpoints * style: 🎨 fix code style issues with Black * fix: re-add study type for conditions endpoint * fix: remove last marshal_with on put, fix type def for data (overall-official) * fix: update pytest fixtures for validation schemas * style: 🎨 fix code style issues with Black * fix: updated pytests for schema validations * style: 🎨 fix code style issues with Black * fix: fix: invalid characters for regex * fix: update flake8 errors * style: 🎨 fix code style issues with Black * fix: update for flake8 errors * style: 🎨 fix code style issues with Black * fix: updating for flake8 issues * style: 🎨 fix code style issues with Black * fix: correct issues for pyflake8 * style: 🎨 fix code style issues with Black * fix: type def for request.json * fix: update for pylint issue * 🐛 fix: update schemas --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * fix: remove allowed_origins * 🚨 chore: fix flake errors * 💚 fix: update cors * 💚 fix: update cors * 🐛 fix: update study identification schema * 🐛 fix: update study identification schema * feat: update dataset metadata endpoints (#16) * chore: reconfigure dataset metadata * chore: remove ids from 1-to-1 study metadata * style: format * chore: dataset models and endpoints refactored * chore: study models refactored * chore: dataset metadata functions were changed * fix: contributor and creator endpoints * chore: refactor dataset metadata endpoints * style: flake8 errors * style: poe format * style: pylint format check * style: 🎨 fix code style issues with Black * fix: study identification checked * wip: related item endpoint * wip: dataset related item endpoint * wip: pylint errors * 🔐 fix: update secret key length * fix: dataset medata relate item title * wip: related item in dataset metadata * style: 🎨 fix code style issues with Black * fix: dataset metadata related item * fix: study identifiers model * style: format errors check * style: pylint format * style: 🎨 fix code style issues with Black * style: permissions added to dataset metadata * style: formatting * style: 🎨 fix code style issues with Black * fix: dataset other * feat: dataset version GET * fix: study identifiers * fix: dataset identifier * fix: dataset related item other field * style: format * feat: add version readme to the model * feat: dataset title permission * feat: dataset description permission * style:format * style: 🎨 fix code style issues with Black * fix: minor fixes in dataset metadata * style: 🎨 fix code style issues with Black * feat: updates to dataset metadata * fix: dataset metadata and docker file * style: 🎨 fix code style issues with Black * fix: dataset metadata * fix: minor fix for contributor metadata --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * feat: redcap api, caching, upgrade python * merge: authentication into staging (#17) * feat: added token field to invited contributors * style: 🎨 fix code style issues with Black * fix: signup token * style: 🎨 fix code style issues with Black * fix: signup token * style: 🎨 fix code style issues with Black * fix: signup token * style: 🎨 fix code style issues with Black * style: errors * 🐛 fix: update env read * fix: authentication errors * fix: poetry toml --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * 🧐 wip: test blob access * ⚰️ remove: remove migration * chore: remove output * 🚑 fix: use a sas token * wip: redcap api and supporting sql * feat: add api endpoint to request files from Azure * ✨ feat: add files endpoint * ✨ feat: add id to files * 🐛fix: ignore created time * ✨ feat: add files endpoint (#18) * 🧐 wip: test blob access * chore: remove output * 🚑 fix: use a sas token * feat: add api endpoint to request files from Azure * ✨ feat: add files endpoint * ✨ feat: add id to files * 🐛fix: ignore created time * 🐛 fix: read env into config for endpoints * 💚 fix: update configs for ci * ✨ feat: redcap endpoints done * Merge branch 'staging' of https://github.com/AI-READI/api.fairhub.io into staging - cleanup * 🚨 chore: fix redcap flake errors * ✨feat: hide redcap api token * style: 🎨 fix code style issues with Black * 🐛 fix: return default port to 5000 * 🚨 fix: fix formatting * 🚨 fix: fix flake errors * style: 🎨 fix code style issues with Black * 🚨 fix: fix mypy errors * style: 🎨 fix code style issues with Black * 🚨 fix: fix pylint errors * ⬆️ chore: update to python 3.10 * ✅ test: update configs for cache * 💚 ci: update ci test containers * 👷 chore: update dev compose * ✨ feat: dashboard crud api * 🐛 fix: update study metadata input schemas * ✨ feat: add support for jsonschema validation for dataset metadata (#20) * ✨ feat: add support for jsonschema validation for dataset metadata * 🐛 fix: add better validation for related items * 🐛 fix: study design json schema * 🐛 fix: update valid identifier type values * test: ✅ add dataset and dataset metadata tests (#22) * wip: pytest for dataset/dataset metadata api * style: 🎨 fix code style issues with Black * feat: POST test for dataset contributor metadata * feat: GET and DELETE test for dataset contributor metadata * feat: dataset creator metadata test for GET, POST, DELETE * style: 🎨 fix code style issues with Black * feat: GET and POST test for dataset dates metadata * feat: DELETE test for dataset dates metadata * feat: de-identification level tests for GET and PUT * style: 🎨 fix code style issues with Black * feat: GET dataset description test created * style: 🎨 fix code style issues with Black * feat: dataset description metadata tests for GET, POST, DELETE * GET test for dataset funder metadata * feat: POST test for dataset funder metadata * feat: delete dataset funder metadata test created * feat: GET and PUT tests created for other dataset metadata * GET dataset publisher metadata test created * feat: PUT dataset publisher test created * feat: GET and PUT tests created for record keys metadata * wip: fixes for tests and refactoring fixture to sign in only once * style: 🎨 fix code style issues with Black * feat: GET test for dataset related items created * fix: jsonschema type for publication year in related_items endpoint * feat: POST test for dataset related_items endpoint * feat: DELETE test created for dataset related item * feat: DELETE test created for related item contributor metadata * feat: DELETE test created for related item creator metadata * feat: DELETE test created for related item creator metadata * feat: DELETE test created for related item title metadata * feat: GET test for dataset rights metadata * POST test created for dataset rights metadata * DELETE test created for dataset rights metadata * GET test created for dataset subjects metadata * feat: POST test created for dataset subjects metadata * feat: DELETE test created for dataset subjects metadata * feat: GET test created for dataset title metadata * feat: DELETE test created for dataset title metadata * feat: POST test created for dataset title metadata * feat: created global variables needed for testing * style: 🎨 fix code style issues with Black * feat: pytest will log user in once per test session * fix: GET and PUT readme endpoint patched * feat: DELETE and PUT tests created for study api * refactor: variable created for temporary study id * refactor: update fixtures that are used for test (logged in user persists) * fix: return study id in PUT study description endpoint * fix: study other metadata returns study id in GET and PUT request * refactor: cleaned tests and updated based off endpoint updates * refactor: DELETE dataset endpoint returns 204 upon success * feat: DELETE test created for dataset endpoint * feat: added more global variables for testing * feat: POST test created for creating a dataset version * feat: GET test created for getting all dataset versions * feat: GET test created for getting one dataset version * wip: PUT test skeleton created for updating dataset version * refactor: updated fixtures for study metadata * refactor: line too long fixed * refactor: fixtures updated for dataset metadata to persistent logged in sessions * fix: return number for status and message for body in study identification DELETE request * fix: dataset other metadata returns correct column for standards_followed * refactor: normalized layout throughout testing files * fix: create secondary study identifiers to then delete in next test * feat: sign in user before study tests begins * chore: remove pylint warning * chore: remove line too long warnings * style: 🎨 fix code style issues with Black * chore: remove uncommented code that is necessary * 🚨 chore: fix linter issues --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * merge: version into staging (#21) * feat: add study metadata GET endpoint * fix: study design schema * feat: GET version study metadata * style: format * fix: dataset overview * fix: study metadata overview * style: 🎨 fix code style issues with Black * fix: format * style: pylint and flake errors * feat: changelog and readme endpoints * fix: dataset dataset version GET * fix: study version GET * fix: typo * style: 🎨 fix code style issues with Black * fix: schema * fix: version request * style: 🎨 fix code style issues with Black * style: format * fix: dataset version endpoints * fix: related items version * fix: delete dataset readme * feat: alembic file for deleted dataset readme table * style: 🎨 fix code style issues with Black * feat Contributor type return for minimised version metadata * style: 🎨 fix code style issues with Black * fix: alembix version * 👷 ci: add db migrations to dockerfile * fix: dataset title name became as uppercase * style: 🎨 fix code style issues with Black * style: format * fix: main title * fix: testing errors * style: format * fix: remove comment * fix: remove comment --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * Revert "merge: version into staging (#21)" (#23) This reverts commit 3236235. * feat: ✨ add support for dataset version metadata in the API (#24) * feat: add study metadata GET endpoint * fix: study design schema * feat: GET version study metadata * style: format * fix: dataset overview * fix: study metadata overview * style: 🎨 fix code style issues with Black * fix: format * style: pylint and flake errors * feat: changelog and readme endpoints * fix: dataset dataset version GET * fix: study version GET * fix: typo * style: 🎨 fix code style issues with Black * fix: schema * fix: version request * style: 🎨 fix code style issues with Black * style: format * fix: dataset version endpoints * fix: related items version * fix: delete dataset readme * feat: alembic file for deleted dataset readme table * style: 🎨 fix code style issues with Black * feat Contributor type return for minimised version metadata * style: 🎨 fix code style issues with Black * fix: alembix version * 👷 ci: add db migrations to dockerfile * fix: dataset title name became as uppercase * style: 🎨 fix code style issues with Black * style: format * fix: main title * fix: testing errors * style: format * fix: remove comment * fix: remove comment --------- Co-authored-by: aydawka <[email protected]> Co-authored-by: Lint Action <[email protected]> * 💚 ci: update dockerfile * fix: minor fix on model classes for minimized version pages * style: 🎨 fix code style issues with Black * wip: caching & dashboard done; cleanup in progress * 👷 ci: deploy api to Azure Container Registry (#25) * 👷 ci: deoploy api to ACR * 👷 ci: deploy api to ACR * 👷 ci: update build conditions * 👷 ci: remove test branch * 👷 ci: add sha tag to build image * 💚 ci: remove typo * 👷 ci: wait for other workflows to complete (#26) * 👷 ci: wait for other workflows to complete * 🔨 chore: add a sample env * 👷 ci: update ref for wait on action * 👷 ci: update ref for wait on action * 👷 ci: update workflow names * 👷 ci: update build variables * 👷 ci: test concurrency * ✨ feat: use waitress as a wsgi server (#27) * ✨ feat: use waitress for server * 🚩 chore: add a azure check for schema destroy * style: 🎨 fix code style issues with Black * 🛂 fix: update cors allowed origins * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * 💚 fix: update cors for local development (#28) * ✨ feat: use waitress for server * 🚩 chore: add a azure check for schema destroy * style: 🎨 fix code style issues with Black * 🛂 fix: update cors allowed origins * style: 🎨 fix code style issues with Black * 💚 fix: update cors for local development --------- Co-authored-by: Lint Action <[email protected]> * ⬆️ chore: cleaning up poe errors * style: 🎨 fix code style issues with Black * 🐛 fix: etl config * feat: ✨ add test file for version steps (#29) * feat: add dataset version test * fix: confest.py password change * style: 🎨 fix code style issues with Black * fix: dataset & its metadata http request status code * fix: study metadata http statuses fixed * fix: study status test * style: 🎨 fix code style issues with Black * fix: password was reverted * fix: delete endpoint status * fix: delete endpoints * fix: study dataset test * fix: minor dataset typo fixes * fix: delete endpoints * fix: dataset relate item test functions * style: 🎨 fix code style issues with Black * fix: restored some study metadata fields * fix: study version minimised endpoint * style: format * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * chore: update readme for better instructions * 🚨 fix: precommit errors fixed * style: 🎨 fix code style issues with Black * feat: ✨ pytest multiple user permissioned clients + bug fixes (#30) * feat: create multiple accounts for permissions * style: 🎨 fix code style issues with Black * refactor: update error messages for access denied on POST/PUT endpoints * refactor: invite accounts to study after creating study * fix: check user permissions for Sponsors and Other endpoints * refactor: update permissions error message on POST/PUT endpoints * feat: sign up invited users for testing * refactor: change access denied message for publishing dataset * wip: create multiple clients for testing session that persists across modules * style: 🎨 fix code style issues with Black * feat: create multiple clients to simulate multiple users interacting with server * feat: all tests have access to all available clients during testing * feat: test admin, editor, viewer permissions for study endpoints * feat: admin, editor, viewer tests added to study arm, alt id metadata * feat: admin, editor, viewer test to update dataset access metadata * feat: admin, editor, viewer test to delete dataset alt id metadata * feat: admin, editor, viewer test to GET dataset consent metadata * feat: admin, editor, viewer test to PUT dataset consent metadata * feat: admin, editor, viewer test to PUT dataset contributor metadata * feat: admin, editor, viewer test to DELETE dataset contributor metadata * feat: admin, editor, viewer test to GET dataset creator metadata * style: 🎨 fix code style issues with Black * admin, editor, viewer permission check created for POST arm metadata * admin, editor, viewer permission check created for GET arm metadata * admin, editor, viewer permission check created for DELETE arm metadata * admin, editor, viewer permission check created for POST avail ipd metadata * admin, editor, viewer permission check created for GET avail ipd metadata * admin, editor, viewer permission check created for DELETE avail ipd metadata * admin, editor, viewer permission check created for POST central contact metadata * admin, editor, viewer permission check created for DELETE central contact metadata * admin, editor, viewer permission check created for GET collaborators metadata * admin, editor, viewer permission check created for PUT collaborators metadata * admin, editor, viewer permission check created for GET conditions metadata * admin, editor, viewer permission check created for PUT conditions metadata * admin, editor, viewer permission check created for GET description metadata * admin, editor, viewer permission check created for PUT description metadata * admin, editor, viewer permission check created for GET design metadata * admin, editor, viewer permission check created for PUT design metadata * admin, editor, viewer permission check created for GET eligibility metadata * admin, editor, viewer permission check created for PUT eligibility metadata * admin, editor, viewer permission check created for GET identification metadata * admin, editor, viewer permission check created for POST identification metadata * admin, editor, viewer permission check created for DELETE identification metadata * admin, editor, viewer permission check created for GET intervention metadata * admin, editor, viewer permission check created for POST intervention metadata * admin, editor, viewer permission check created for GET link metadata * admin, editor, viewer permission check created for GET location metadata * style: 🎨 fix code style issues with Black * admin, editor, viewer test for PUT ipdsharing metadata * admin, editor, viewer test for POST link metadata * admin, editor, viewer test for DELETE link metadata * admin, editor, viewer test for POST location metadata * admin, editor, viewer test for DELETE location metadata * admin, editor, viewer test for PUT other metadata * admin, editor, viewer test for GET overall official metadata * admin, editor, viewer test for POST overall official metadata * fix: check permissions for deleting dataset alt identifier * fix: update on list index for admin/editor data responses * fix: correct available ipd vars for testing * fix: corrected bug issues throughout study metadata tests * feat: admin, editor, viewer test for PUT oversight metadata * feat: admin, editor, viewer test for GET reference metadata * feat: admin, editor, viewer test for POST reference metadata * fix: add comma between POST request parameters * fix: add comma between DELETE request parameters * feat: admin, editor, viewer test for GET sponsors metadata * feat: admin, editor, viewer test for PUT sponsors metadata * feat: admin, editor, viewer test for GET status metadata * feat: admin, editor, viewer test for PUT status metadata * fix: correct payload for PUT sponsors endpoint * style: 🎨 fix code style issues with Black * admin, editor, viewer test for PUT sponsors metadata * admin, editor, viewer test for GET all datasets * admin, editor, viewer test for POST dataset * admin, editor, viewer test for GET specific dataset * admin, editor, viewer test for POST creator dataset metadata * admin, editor, viewer test for DELETE creator dataset metadata * admin, editor, viewer test for POST date dataset metadata * admin, editor, viewer test for DELETE date dataset metadata * admin, editor, viewer test for GET de-identification dataset metadata * admin, editor, viewer test for PUT de-identification dataset metadata * admin, editor, viewer test for GET description dataset metadata * admin, editor, viewer test for POST description dataset metadata * admin, editor, viewer test for DELETE dataset metadata * admin, editor, viewer test for GET funder dataset metadata * admin, editor, viewer test for POST funder dataset metadata * refactor: ensure status code is 204 for contributors * refactor: ensure status code is 204 for dataset * refactor: import Response and ensure 404 response in study api * refactor: import Response and ensure 404 response in dataset alt id api * refactor: import Response and ensure 404 response in dataset contrib api * refactor: import Response and ensure 404 response in dataset date api * refactor: import Response and ensure 404 response in dataset descrip api * refactor: import Response and ensure 404 response in dataset funder api * refactor: import Response and ensure 404 response in dataset related irms api * refactor: import Response and ensure 404 response in dataset rights irms api * refactor: import Response and ensure 404 response in dataset subject irms api * refactor: import Response and ensure 404 response in study avail ipd api * refactor: import Response and ensure 404 response in study identification api * refactor: import Response and ensure 404 response in study intervention api * refactor: import Response and ensure 204 response in study link api * refactor: import Response and ensure 204 response in study location api * refactor: import Response and ensure 204 response in study overall official api * fix: add import * fix: typo for investigator name test * refactor: ensure 204 status is return when deleting * fix: return Response(status) * fix: don't return content upon deleting central contact (api) * fix: dataset contributor status code fix * style: 🎨 fix code style issues with Black * 🐛 fix: corrected issues with deleting responses status code * ✨ feat: verify data in GET response for study api * ♻️ refactor: GET test after POST for dataset api and differentiate dataset contents for all clients * ✨ verify all clients in GET datasets api * ✨ feat: verify content for GET specific dataset endpoint * ✨ feat: admin, editor, viewer test for DELETE dataset api * ✨ feat: verify GET dataset access after PUT for all clients * ✨ feat: verify GET response data for all clients in dataset alt identifier endpoint * ✨ verify GET dataset consent metadata after POST for all clients * ✨ verify GET dataset creator metadata after POST for all clients * ✨ verify GET dataset data metadata after POST for all clients * ✨ verify GET dataset de-id lvl metadata after POST for all clients * ✨ verify GET dataset description metadata after POST for all clients * ✨ verify GET dataset funder metadata after POST for all clients * ✨ feat: PUT tests for other dataset metadata created for all clients, GET response added after * ✨ verify GET dataset other metadata after POST for all clients * ✨ verify GET dataset publisher metadata after POST for all clients * ✨ feat: PUT dataset publisher metadata added for all clients * ✨ verify GET dataset record keys metadata after POST for all clients * ✨ feat: POST tests created for all clients in dataset related items api * ✨ verify GET dataset related items metadata after POST for all clients * ✨ feat: DELETE dataset contributor metadata tests created for all clients * ✨ feat: DELETE dataset related-item identifier metadata tests created for all clients * ✨ feat: all DELETE dataset related-item metadata tests created for all clients * style: 🎨 fix code style issues with Black * 🐛 fix: correcting bugs for global variables and assertment checks * 🐛 fix: correct variable for response data in GET specific dataset * ♻️ refactor: create multiple dummy datasets for deleting with different clients * 🐛 fix: fix list index when going through POST contributor responses * 🐛 fix: assert correct length of dataset descriptions in GET test * 🐛 fix: patched multiple tests for pytest * ✨ feat: GET tests for all clients created for record-keys metadata * 🐛 fix: final patches to all tests * ♻️ refactor: move GET dataset metadata responses after POST/PUT * 🐛 fix: fix merge issues * ✨ feat: arm metadata GET tests for all clients * ✨ feat: avail ipd metadata GET tests for all clients * ✨ feat: central contact metadata GET tests for all clients * ✨ feat: collaborators metadata GET tests for all clients * ✨ feat: description metadata GET tests for all clients * ✨ feat: description metadata GET tests for all clients * ✨ feat: design metadata GET tests for all clients * ✨ feat: eligibility metadata GET tests for all clients * ✨ feat: identification metadata GET tests for all clients * 🐛 fix: correct assert responses * ✨ feat: intervention metadata GET tests for all clients * style: 🎨 fix code style issues with Black * ✨ feat: GET ipdsharing study metadata for all clients created after POST * ✨ feat: GET study links metadata for all clients created after POST * ✨ feat: GET study locations metadata for all clients created after POST * ✨ feat: GET other study metadata for all clients created after POST * ✨ feat: GET overall official study metadata for all clients created after POST * ✨ feat: GET oversight study metadata for all clients created after PUT * ✨ feat: GET reference study metadata for all clients created after POST * ✨ feat: GET sponsors study metadata for all clients created after PUT * ✨ feat: GET status study metadata for all clients created after PUT * 🐛 fix: assertions on failed tests * ♻️ refactor: remove study/other metadata endpont (not used in frontend) * ✨ feat: POST dataset rights metadata created for all clients * ✨ feat: GET dataset rights metadata for all clients * ✨ feat: DELETE for dataset subjects metadata created for all clients * ✨ feat: POST for dataset subject metadata created for admin client * ✨ feat: POST for dataset title create for all clients * ✨ feat: GET dataset title metadata created for all clients * ✨ feat: DELETE dataset title metadata created for all clients * 🚧 wip: correct issue with items having same created_at timestamp * style: 🎨 fix code style issues with Black * ✨ feat: viewer client test added for GET study link metadata * ✨ feat: assert POST responses for version testing before POSTing version * ✨ feat: GET versioned study tests created for all clients * ✨ feat: GET versioned dataset metadata tests created for all clients * ✨ feat: GET versioned dataset readme metadata tests created for all clients * ✨ feat: PUT dataset readme version test created for all clients * ✨ feat: PUT dataset changelog version test created for all clients * ✨ feat: GET dataset changelog version test created for all clients * 🐛 fix: normalize return response with GET and PUT changelog version api * ✨ feat: DELETE original datasets created by admin and editor clients * ✨ feat: GET dataset version test created for all clients * style: 🎨 fix code style issues with Black * 🐛 fix: fix permission check for deleting dataset version * 🐛 fix: patch PUT dataset version to proper permission check * 🐛 fix: remove jsonify from return response on PUT version endpoint * ✨ fix: add needed global variables needed for pytest * ✨ feat: add test POST dataset version to study version file * ✨ feat: add test GET all dataset versions to study version file * ✨ feat: add GET specific dataset version test for all clients * ✨ feat: add PUT dataset version test for all clients * ♻️ refactor: remove version tests from dataset file and move to version file (pytest) * 🐛 fix: verify viewer status code for delete dataset descrip * ✨ feat: DELETE dataset funder metadata test added for all clients * ✨ feat: DELETE dataset rights metadata for all clients created * 🐛 fix: add pause between client POST calls for to prevent duplicate time stamps * ✨ feat: DELETE study intervention metadata test created for all clients * 🐛 fix: (wip) final fixes before PR * style: 🎨 fix code style issues with Black * ✨ feat: README.md instructions for creating pytest created for documentation * ♻️ refactor: remove jsonify from datasets.py * ♻️ refactor: update email address for pytest clients --------- Co-authored-by: Lint Action <[email protected]> * 🐛 fix: black issue with line length * ✨ feat: updates for new chart types/modules * style: 🎨 fix code style issues with Black * refactor: ♻️ api responses updated for swagger docs (#32) * ♻️ refactor: update api.docs on 201 success responses * style: 🎨 fix code style issues with Black * ♻️ refactor: update PUT contributor owner response changed to 200 * :reycle: refactor: correct api.response success statuses + add api.response for non existing requests --------- Co-authored-by: Lint Action <[email protected]> * fix: 🐛 updating user profile (#31) * 🐛 fix: PUT user profile endpoint patched * ♻️ refactor: update user.py file * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🚨 chore: run formatters * ✨ feat: add support for feature flags (#36) * ✨ feat: add support for feature flags * 👷 ci: add growthbook to test workflow * ➕ chore: add dependency * feat: ✨ password change endpoint (#33) * 🚧 wip: endpoint to change user password * ✨ feat: endpoint to change password * style: 🎨 fix code style issues with Black * 🔨 chore: remove print statements * 🔨 chore: add data type for request.json * ♻️ refactor: password change endpoint modified and moved to authentication * ✨ feat: user password change test created for pytest * style: 🎨 fix code style issues with Black * ♻️ refactor: password change test only for one client * ♻️ refactor: password change endpoint modified to POST * ♻️ refactor: pytest password changed test modified to be post * ✨ feat: tests for logging in user after password changes --------- Co-authored-by: Lint Action <[email protected]> * fix: 🐛 update dataset other model to return needed data (#35) * 🐛 fix: send id and resource_type back in the dataset/other response PUT/GET * 🔨 chore: remove prints * ♻️ refactor: id removed from response in dataset other * feat: ✨ utils for license text and support to store license (#38) * feat: added testing license_text dataset metadata * style: 🎨 fix code style issues with Black * 🔧 chore: update poetry lock * ✨ feat: utils endpoint adding for requesting json * style: 🎨 fix code style issues with Black --------- Co-authored-by: aydawka <[email protected]> Co-authored-by: Lint Action <[email protected]> * feat: added study metadata keywords (#37) * feat: added testing license_text dataset metadata * style: 🎨 fix code style issues with Black * feat: added testing for study keywords * feat: added study keywords endpoint * fix: db is getting cleared in test env * fix: format * fix: removed comments --------- Co-authored-by: Lint Action <[email protected]> * 🚨 fix: fix mypy warning * feat: DOI reserved for version table (#39) * feat: added AI identifier column to version * fix: modified test for DOI column * fix: format * fix: alembic version * style: 🎨 fix code style issues with Black * fix: identifier name * fix: unique added to doi column * style: 🎨 fix code style issues with Black * fix: doi nullability --------- Co-authored-by: Lint Action <[email protected]> * Revert "feat: DOI reserved for version table" (#40) * 👷 ci: rename container image * 🐛 fix: update domains to app * 🚑 fix: disable email deliverability check * feat: DOI reserved for version table (#41) * feat: added AI identifier column to version * fix: modified test for DOI column * fix: format * fix: alembic version * style: 🎨 fix code style issues with Black * fix: identifier name * fix: unique added to doi column * style: 🎨 fix code style issues with Black * fix: doi nullability * fix: doi nullability * fix: doi integrity error * style:format * fix: doi format * style: 🎨 fix code style issues with Black --------- Co-authored-by: aydawka <[email protected]> Co-authored-by: Lint Action <[email protected]> * 🐛 fix: minor fixes * 🐛 fix: minor fixes * no message * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: add host arg to app.py * 🐛 fix: fix module transform bug (needed to create deep copy) * ✨feat: improved cache management * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: remove https://localhost:3000from CORS in debug mode * 🐛 fix: import error * 🐛 fix: import error, upgrade to Python3.10 * 🐛 fix: import error - PyCap * ✨feat: redcap + dashboard auth management * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * 🔨 chore: update side scripts * ✨feat: redcap api updates, dashboard wip * style: 🎨 fix code style issues with Black * feat: ✨ improved REDcap & Dashboard API structure * style: 🎨 fix code style issues with Black * 🚩 feat: feature flag signup API endpoint (#43) * 🚩 feat: feature flag signup API endpoint * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * 🙈 chore: update gitignore * chore 🔨 replaced name with family/ given name in contributor (#44) * chore: modified dataset name * chore: added test for changed name contributor * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * feat: ❇️ add dataset healthsheet table (#46) * feat: add dataset health sheet table * style: format * style: 🎨 fix code style issues with Black * fix: added relation of healthsheet to parent table --------- Co-authored-by: Lint Action <[email protected]> * feat: ❇️ add published dataset table (#45) * feat: added published dataset table * style: 🎨 fix code style issues with Black * style: format * fix: update published dataset table --------- Co-authored-by: Lint Action <[email protected]> * feat: ❇️ add healtsheet endpoints (#47) * feat: add health sheet endpoints * style: 🎨 fix code style issues with Black * feat: add health sheet test functions * style: format * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * 🚚 chore: update path * 👷 ci: remove old workflows * 💚 ci: fix build * style: 🎨 fix code style issues with Black * 💚 ci: fix build * 💚 ci: fix build * style: 🎨 fix code style issues with Black * 🚨 chore: remove format action * 💚 ci: fix build * 💚 ci: fix build * ✨feat: add participant list report * fix: 🐛 dataset related-identifier and publisher tables (#49) * fix: delete record keys * fix: add publisher table * fix: related item identifier model and table * fix: related item identifier endpoint * fix: dataset publisher * fix: test for related item identifier table * fix: modify dataset other table * fix: modify dataset_managing_organization * fix: test dataset other and managing org * fix:dataset other * fix: format * wip: testing version minimized steps * fix: testing version related identifier * fix: version related identifier * feat: ✨ update dashboard config for new modules * 🔨 chore: add table reset * fix: 🐛 study metadata changes (#50) * fix: dataset rights add scheme uri * feat: add study_location list table * fix: location list relation * feat: added study metadata tables * style: format * fix: study design added is_patient_registry col * fix: added new columns to existing tables * fix: remove tables * fix: added column to study table * style: format * fix: study * fix: add new endpoints * fix: sponsor and collab endpoints * fix: central contact * fix: sponsors * fix: collaborators * fix: endpoints * fix: condition and keyword schema * style: format * fix: test dataset metadata * fix: finalize study metadata endpoints * fix: collabs test * fix: test keywords and oversight test * fix: finalized study metadata test * fix: dataset metasdata test * fix: study version metadata test * style: format * fix: test * fix: study acronym * fix: study metadata * fix: study design * fix: 🐛 study metadata database updates (#51) * fix: study oversight table nullability * fix: study intervention remove a column * fix: study intervention test * fix: change study location table name * 🔨 chore: update delete script * fix: 🐞 version metadata changes (#52) * fix: schema types for study metadata * fix: metadata return for version steps * fix: test version and collaborators metadata * feat: public dashboard creation and management * style: format * fix: 🐛 maganing organization table (#53) * feat: added managing organization table * fix: api for managing org * fix: api for managing org * fix: test for managing org * fix: model classes of managing organization * style: format * chore: rebuild database * 🗃️ chore: update db * wip: finalizing redcap release ETL * feat: ✨ REDCap release ETL * fix: 🐛 minor fix to aireadi_config.py * chore: reset --------- Co-authored-by: aydawka <[email protected]> Co-authored-by: slugb0t <[email protected]> Co-authored-by: Lint Action <[email protected]> Co-authored-by: Dorian Portillo <[email protected]> Co-authored-by: Aydan Gasimova <[email protected]> Co-authored-by: Greenstick <[email protected]> Co-authored-by: Greenstick <[email protected]>

* feat: put endpoint for updating user details * style: 🎨 fix code style issues with Black * fix: updated readme * fix: updated readme * style: 🎨 fix code style issues with Black * feat: user details endpoint combines user and user_details table * refactor: add marshal_with and success model ex for get * refactor: update spacing for favicon.ico * chore: remove print statements * refactor: update username as email if no username * style: 🎨 fix code style issues with Black * fix: alembic dir * style: 🎨 fix code style issues with Black * refactor: prevent email and username from being changed, comments added * style: 🎨 fix code style issues with Black * feat: add revision * style: 🎨 fix code style issues with Black * style: formatting * fix: unused imports * fix: unused imports and assignments * fix: auth permission for admin * fix: fixed flake8 errors * fix: added string types to models * fix: update arg types in models/functions * fix: flake8 * style: 🎨 fix code style issues with Black * fix: typecheck errors * fix: typecheck errors for apis * fix: typecheck errors for apis dataset metadata * fix: update token exp time * fix: typecheck errors * style: 🎨 fix code style issues with Black * fix: typecheck errors * style: 🎨 fix code style issues with Black * fix: union types * fix: lint error * fix: lint and flake8 errors * fix: lint and flake8 errors * fix: union types * style: 🎨 fix code style issues with Black * fix: union types * fix: none type * fix: pylint errors * style: 🎨 fix code style issues with Black * fix: pylint errors * fix: pylint errors * feat: pytest (#13) * fix: allow config from pytest to be ran in app.py * dx: ignore deprecation warnings with pytest * feat: update tests for server, study api * dx: ignore dependency warnings for all pytest commands * style: 🎨 fix code style issues with Black * wip: adding more tests to pytest * feat: added pyfixture for test_client * feat: have create_app use pytest-config or config based on testing * feat: use pytest-config for pytest * chore: clean app.py * feat: setup tests and fixtures for study api, create dataset api tests * wip: share pytest fixtures across tests with updated value * style: 🎨 fix code style issues with Black * feat: clear database fixture for testing * feat: pytest functions added for study, study metadata, datasets * style: 🎨 fix code style issues with Black * fix: study arm from new entry is patched * fix: patched and cleaned arm metadata api (post) * chore: clean test study api file * feat: track arm id * feat: tests added for central contact, ipd, arm metadata * feat: track arm id through testing * feat: added file for dataset metadata testing * fix: removed for loop and just check for id one time for POST cc endpoint * feat: tests added for collab, cond, desc, design, eligi, id, inter, ipd, link * style: 🎨 fix code style issues with Black * fix: central contact tests fixed, one found bug in response * feat: global variables added for study metadata tests * chore: remove print statements * refactor: /study POST endpoint returns content rather than 204 * wip: modifying login to handle config file for pytest * wip: reworking pytest to login in user once for testing * style: 🎨 fix code style issues with Black * refactor: allow login to use different configuration for testing * style: 🎨 fix code style issues with Black * refactor: use FAIRHUB_SECRET rather than secret for configuration * refactor: create user right after database is cleared * refactor: isort tests folder * fix: resolve unused arguments for pylint * chore: remove prints * feat: add description and payload requirements to ipd endpoint in swagger * feat: add description and payload requirements to arm endpoint in swagger * feat: add more tests for pytest * style: 🎨 fix code style issues with Black * feat: POST, PUT, DELETE tests added for study metadata * style: 🎨 fix code style issues with Black * feat: more tests added for study metadata * style: 🎨 fix code style issues with Black * fix: fix intervention metadata test * chore: gather information on endpoints that aren't working * fix: failed tests corrected * 🚨 fix: fix all linter warnings * 🐛 fix: update secret config * 👷 ci: add test workflow * 💚 test: ci workflow --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * 👷 ci: update docker compose file * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * 💚 ci: add cors route * feat: add jsonschema validation for backend (#15) * feat: validation schema for sign up endpoint * style: 🎨 fix code style issues with Black * feat: validate email with email_validator * feat: schema validation for login * feat: schema validation for user details PUT * feat: POST, PUT schemas added for /study endpoint * feat: schema validation added for arm metadata * style: 🎨 fix code style issues with Black * feat: schema validation for available ipd * style: 🎨 fix code style issues with Black * feat: study contact schema validation added * feat: schema validation for collaborators * style: 🎨 fix code style issues with Black * feat: conditions schema validation added" * style: 🎨 fix code style issues with Black * feat: send better error message for invalid email * feat: schema validation for study description * feat: schema validation for study design * feat: schema validation for study intervention * schema validation for ipd sharing * feat: schema validation for study link * fix: fixed import typo * feat: schema validation for other metadata * feat: schema validation for study location * feat: schema validation for oversight endpoint * feat: schema validation for study reference * feat: schema validation for sponsors collaborators * feat: schema validate password meets all criterias on signup * wip: additional requirements/checks for schema validations * style: 🎨 fix code style issues with Black * feat: study design carries additional validations * feat: study contact carries additional validations * feat: study eligibility carries additional validations * feat: study intervention carries additional validations * feat: overal official has enums and other validations * feat: enums and other validations for location endpoint * feat: enums and additional validations for ipd sharing * feat: additional validations for study_status * feat: additional validations for study reference * feat: additional validations for available ipds * feat: enums added and additional validations for sponsor collaborators * additional enums and validations for study links * refactor: removed marshal_with for validation errors * feat: additional validations added for study contact * feat: enums added for enrollment_type in design endpoint * refactor: other metadata validation formatted * feat: minimum length added for validating sponsor collaborators * fix: remove double imports * refactor: isort imports * style: 🎨 fix code style issues with Black * feat: intervention schema validation added * feat: conditional requirements added to status metadata * feat: conditional validations added for sponsor collaborators * refactor: endpoint comment added * feat: additional validations for study identification * style: 🎨 fix code style issues with Black * feat: conditional validations and enums added for final endpoints * style: 🎨 fix code style issues with Black * fix: re-add study type for conditions endpoint * fix: remove last marshal_with on put, fix type def for data (overall-official) * fix: update pytest fixtures for validation schemas * style: 🎨 fix code style issues with Black * fix: updated pytests for schema validations * style: 🎨 fix code style issues with Black * fix: fix: invalid characters for regex * fix: update flake8 errors * style: 🎨 fix code style issues with Black * fix: update for flake8 errors * style: 🎨 fix code style issues with Black * fix: updating for flake8 issues * style: 🎨 fix code style issues with Black * fix: correct issues for pyflake8 * style: 🎨 fix code style issues with Black * fix: type def for request.json * fix: update for pylint issue * 🐛 fix: update schemas --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * fix: remove allowed_origins * 🚨 chore: fix flake errors * 💚 fix: update cors * 💚 fix: update cors * 🐛 fix: update study identification schema * 🐛 fix: update study identification schema * feat: update dataset metadata endpoints (#16) * chore: reconfigure dataset metadata * chore: remove ids from 1-to-1 study metadata * style: format * chore: dataset models and endpoints refactored * chore: study models refactored * chore: dataset metadata functions were changed * fix: contributor and creator endpoints * chore: refactor dataset metadata endpoints * style: flake8 errors * style: poe format * style: pylint format check * style: 🎨 fix code style issues with Black * fix: study identification checked * wip: related item endpoint * wip: dataset related item endpoint * wip: pylint errors * 🔐 fix: update secret key length * fix: dataset medata relate item title * wip: related item in dataset metadata * style: 🎨 fix code style issues with Black * fix: dataset metadata related item * fix: study identifiers model * style: format errors check * style: pylint format * style: 🎨 fix code style issues with Black * style: permissions added to dataset metadata * style: formatting * style: 🎨 fix code style issues with Black * fix: dataset other * feat: dataset version GET * fix: study identifiers * fix: dataset identifier * fix: dataset related item other field * style: format * feat: add version readme to the model * feat: dataset title permission * feat: dataset description permission * style:format * style: 🎨 fix code style issues with Black * fix: minor fixes in dataset metadata * style: 🎨 fix code style issues with Black * feat: updates to dataset metadata * fix: dataset metadata and docker file * style: 🎨 fix code style issues with Black * fix: dataset metadata * fix: minor fix for contributor metadata --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * feat: redcap api, caching, upgrade python * merge: authentication into staging (#17) * feat: added token field to invited contributors * style: 🎨 fix code style issues with Black * fix: signup token * style: 🎨 fix code style issues with Black * fix: signup token * style: 🎨 fix code style issues with Black * fix: signup token * style: 🎨 fix code style issues with Black * style: errors * 🐛 fix: update env read * fix: authentication errors * fix: poetry toml --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * 🧐 wip: test blob access * ⚰️ remove: remove migration * chore: remove output * 🚑 fix: use a sas token * wip: redcap api and supporting sql * feat: add api endpoint to request files from Azure * ✨ feat: add files endpoint * ✨ feat: add id to files * 🐛fix: ignore created time * ✨ feat: add files endpoint (#18) * 🧐 wip: test blob access * chore: remove output * 🚑 fix: use a sas token * feat: add api endpoint to request files from Azure * ✨ feat: add files endpoint * ✨ feat: add id to files * 🐛fix: ignore created time * 🐛 fix: read env into config for endpoints * 💚 fix: update configs for ci * ✨ feat: redcap endpoints done * Merge branch 'staging' of https://github.com/AI-READI/api.fairhub.io into staging - cleanup * 🚨 chore: fix redcap flake errors * ✨feat: hide redcap api token * style: 🎨 fix code style issues with Black * 🐛 fix: return default port to 5000 * 🚨 fix: fix formatting * 🚨 fix: fix flake errors * style: 🎨 fix code style issues with Black * 🚨 fix: fix mypy errors * style: 🎨 fix code style issues with Black * 🚨 fix: fix pylint errors * ⬆️ chore: update to python 3.10 * ✅ test: update configs for cache * 💚 ci: update ci test containers * 👷 chore: update dev compose * ✨ feat: dashboard crud api * 🐛 fix: update study metadata input schemas * ✨ feat: add support for jsonschema validation for dataset metadata (#20) * ✨ feat: add support for jsonschema validation for dataset metadata * 🐛 fix: add better validation for related items * 🐛 fix: study design json schema * 🐛 fix: update valid identifier type values * test: ✅ add dataset and dataset metadata tests (#22) * wip: pytest for dataset/dataset metadata api * style: 🎨 fix code style issues with Black * feat: POST test for dataset contributor metadata * feat: GET and DELETE test for dataset contributor metadata * feat: dataset creator metadata test for GET, POST, DELETE * style: 🎨 fix code style issues with Black * feat: GET and POST test for dataset dates metadata * feat: DELETE test for dataset dates metadata * feat: de-identification level tests for GET and PUT * style: 🎨 fix code style issues with Black * feat: GET dataset description test created * style: 🎨 fix code style issues with Black * feat: dataset description metadata tests for GET, POST, DELETE * GET test for dataset funder metadata * feat: POST test for dataset funder metadata * feat: delete dataset funder metadata test created * feat: GET and PUT tests created for other dataset metadata * GET dataset publisher metadata test created * feat: PUT dataset publisher test created * feat: GET and PUT tests created for record keys metadata * wip: fixes for tests and refactoring fixture to sign in only once * style: 🎨 fix code style issues with Black * feat: GET test for dataset related items created * fix: jsonschema type for publication year in related_items endpoint * feat: POST test for dataset related_items endpoint * feat: DELETE test created for dataset related item * feat: DELETE test created for related item contributor metadata * feat: DELETE test created for related item creator metadata * feat: DELETE test created for related item creator metadata * feat: DELETE test created for related item title metadata * feat: GET test for dataset rights metadata * POST test created for dataset rights metadata * DELETE test created for dataset rights metadata * GET test created for dataset subjects metadata * feat: POST test created for dataset subjects metadata * feat: DELETE test created for dataset subjects metadata * feat: GET test created for dataset title metadata * feat: DELETE test created for dataset title metadata * feat: POST test created for dataset title metadata * feat: created global variables needed for testing * style: 🎨 fix code style issues with Black * feat: pytest will log user in once per test session * fix: GET and PUT readme endpoint patched * feat: DELETE and PUT tests created for study api * refactor: variable created for temporary study id * refactor: update fixtures that are used for test (logged in user persists) * fix: return study id in PUT study description endpoint * fix: study other metadata returns study id in GET and PUT request * refactor: cleaned tests and updated based off endpoint updates * refactor: DELETE dataset endpoint returns 204 upon success * feat: DELETE test created for dataset endpoint * feat: added more global variables for testing * feat: POST test created for creating a dataset version * feat: GET test created for getting all dataset versions * feat: GET test created for getting one dataset version * wip: PUT test skeleton created for updating dataset version * refactor: updated fixtures for study metadata * refactor: line too long fixed * refactor: fixtures updated for dataset metadata to persistent logged in sessions * fix: return number for status and message for body in study identification DELETE request * fix: dataset other metadata returns correct column for standards_followed * refactor: normalized layout throughout testing files * fix: create secondary study identifiers to then delete in next test * feat: sign in user before study tests begins * chore: remove pylint warning * chore: remove line too long warnings * style: 🎨 fix code style issues with Black * chore: remove uncommented code that is necessary * 🚨 chore: fix linter issues --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * merge: version into staging (#21) * feat: add study metadata GET endpoint * fix: study design schema * feat: GET version study metadata * style: format * fix: dataset overview * fix: study metadata overview * style: 🎨 fix code style issues with Black * fix: format * style: pylint and flake errors * feat: changelog and readme endpoints * fix: dataset dataset version GET * fix: study version GET * fix: typo * style: 🎨 fix code style issues with Black * fix: schema * fix: version request * style: 🎨 fix code style issues with Black * style: format * fix: dataset version endpoints * fix: related items version * fix: delete dataset readme * feat: alembic file for deleted dataset readme table * style: 🎨 fix code style issues with Black * feat Contributor type return for minimised version metadata * style: 🎨 fix code style issues with Black * fix: alembix version * 👷 ci: add db migrations to dockerfile * fix: dataset title name became as uppercase * style: 🎨 fix code style issues with Black * style: format * fix: main title * fix: testing errors * style: format * fix: remove comment * fix: remove comment --------- Co-authored-by: Lint Action <[email protected]> Co-authored-by: Sanjay Soundarajan <[email protected]> * Revert "merge: version into staging (#21)" (#23) This reverts commit 3236235. * feat: ✨ add support for dataset version metadata in the API (#24) * feat: add study metadata GET endpoint * fix: study design schema * feat: GET version study metadata * style: format * fix: dataset overview * fix: study metadata overview * style: 🎨 fix code style issues with Black * fix: format * style: pylint and flake errors * feat: changelog and readme endpoints * fix: dataset dataset version GET * fix: study version GET * fix: typo * style: 🎨 fix code style issues with Black * fix: schema * fix: version request * style: 🎨 fix code style issues with Black * style: format * fix: dataset version endpoints * fix: related items version * fix: delete dataset readme * feat: alembic file for deleted dataset readme table * style: 🎨 fix code style issues with Black * feat Contributor type return for minimised version metadata * style: 🎨 fix code style issues with Black * fix: alembix version * 👷 ci: add db migrations to dockerfile * fix: dataset title name became as uppercase * style: 🎨 fix code style issues with Black * style: format * fix: main title * fix: testing errors * style: format * fix: remove comment * fix: remove comment --------- Co-authored-by: aydawka <[email protected]> Co-authored-by: Lint Action <[email protected]> * 💚 ci: update dockerfile * fix: minor fix on model classes for minimized version pages * style: 🎨 fix code style issues with Black * wip: caching & dashboard done; cleanup in progress * 👷 ci: deploy api to Azure Container Registry (#25) * 👷 ci: deoploy api to ACR * 👷 ci: deploy api to ACR * 👷 ci: update build conditions * 👷 ci: remove test branch * 👷 ci: add sha tag to build image * 💚 ci: remove typo * 👷 ci: wait for other workflows to complete (#26) * 👷 ci: wait for other workflows to complete * 🔨 chore: add a sample env * 👷 ci: update ref for wait on action * 👷 ci: update ref for wait on action * 👷 ci: update workflow names * 👷 ci: update build variables * 👷 ci: test concurrency * ✨ feat: use waitress as a wsgi server (#27) * ✨ feat: use waitress for server * 🚩 chore: add a azure check for schema destroy * style: 🎨 fix code style issues with Black * 🛂 fix: update cors allowed origins * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * 💚 fix: update cors for local development (#28) * ✨ feat: use waitress for server * 🚩 chore: add a azure check for schema destroy * style: 🎨 fix code style issues with Black * 🛂 fix: update cors allowed origins * style: 🎨 fix code style issues with Black * 💚 fix: update cors for local development --------- Co-authored-by: Lint Action <[email protected]> * ⬆️ chore: cleaning up poe errors * style: 🎨 fix code style issues with Black * 🐛 fix: etl config * feat: ✨ add test file for version steps (#29) * feat: add dataset version test * fix: confest.py password change * style: 🎨 fix code style issues with Black * fix: dataset & its metadata http request status code * fix: study metadata http statuses fixed * fix: study status test * style: 🎨 fix code style issues with Black * fix: password was reverted * fix: delete endpoint status * fix: delete endpoints * fix: study dataset test * fix: minor dataset typo fixes * fix: delete endpoints * fix: dataset relate item test functions * style: 🎨 fix code style issues with Black * fix: restored some study metadata fields * fix: study version minimised endpoint * style: format * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * chore: update readme for better instructions * 🚨 fix: precommit errors fixed * style: 🎨 fix code style issues with Black * feat: ✨ pytest multiple user permissioned clients + bug fixes (#30) * feat: create multiple accounts for permissions * style: 🎨 fix code style issues with Black * refactor: update error messages for access denied on POST/PUT endpoints * refactor: invite accounts to study after creating study * fix: check user permissions for Sponsors and Other endpoints * refactor: update permissions error message on POST/PUT endpoints * feat: sign up invited users for testing * refactor: change access denied message for publishing dataset * wip: create multiple clients for testing session that persists across modules * style: 🎨 fix code style issues with Black * feat: create multiple clients to simulate multiple users interacting with server * feat: all tests have access to all available clients during testing * feat: test admin, editor, viewer permissions for study endpoints * feat: admin, editor, viewer tests added to study arm, alt id metadata * feat: admin, editor, viewer test to update dataset access metadata * feat: admin, editor, viewer test to delete dataset alt id metadata * feat: admin, editor, viewer test to GET dataset consent metadata * feat: admin, editor, viewer test to PUT dataset consent metadata * feat: admin, editor, viewer test to PUT dataset contributor metadata * feat: admin, editor, viewer test to DELETE dataset contributor metadata * feat: admin, editor, viewer test to GET dataset creator metadata * style: 🎨 fix code style issues with Black * admin, editor, viewer permission check created for POST arm metadata * admin, editor, viewer permission check created for GET arm metadata * admin, editor, viewer permission check created for DELETE arm metadata * admin, editor, viewer permission check created for POST avail ipd metadata * admin, editor, viewer permission check created for GET avail ipd metadata * admin, editor, viewer permission check created for DELETE avail ipd metadata * admin, editor, viewer permission check created for POST central contact metadata * admin, editor, viewer permission check created for DELETE central contact metadata * admin, editor, viewer permission check created for GET collaborators metadata * admin, editor, viewer permission check created for PUT collaborators metadata * admin, editor, viewer permission check created for GET conditions metadata * admin, editor, viewer permission check created for PUT conditions metadata * admin, editor, viewer permission check created for GET description metadata * admin, editor, viewer permission check created for PUT description metadata * admin, editor, viewer permission check created for GET design metadata * admin, editor, viewer permission check created for PUT design metadata * admin, editor, viewer permission check created for GET eligibility metadata * admin, editor, viewer permission check created for PUT eligibility metadata * admin, editor, viewer permission check created for GET identification metadata * admin, editor, viewer permission check created for POST identification metadata * admin, editor, viewer permission check created for DELETE identification metadata * admin, editor, viewer permission check created for GET intervention metadata * admin, editor, viewer permission check created for POST intervention metadata * admin, editor, viewer permission check created for GET link metadata * admin, editor, viewer permission check created for GET location metadata * style: 🎨 fix code style issues with Black * admin, editor, viewer test for PUT ipdsharing metadata * admin, editor, viewer test for POST link metadata * admin, editor, viewer test for DELETE link metadata * admin, editor, viewer test for POST location metadata * admin, editor, viewer test for DELETE location metadata * admin, editor, viewer test for PUT other metadata * admin, editor, viewer test for GET overall official metadata * admin, editor, viewer test for POST overall official metadata * fix: check permissions for deleting dataset alt identifier * fix: update on list index for admin/editor data responses * fix: correct available ipd vars for testing * fix: corrected bug issues throughout study metadata tests * feat: admin, editor, viewer test for PUT oversight metadata * feat: admin, editor, viewer test for GET reference metadata * feat: admin, editor, viewer test for POST reference metadata * fix: add comma between POST request parameters * fix: add comma between DELETE request parameters * feat: admin, editor, viewer test for GET sponsors metadata * feat: admin, editor, viewer test for PUT sponsors metadata * feat: admin, editor, viewer test for GET status metadata * feat: admin, editor, viewer test for PUT status metadata * fix: correct payload for PUT sponsors endpoint * style: 🎨 fix code style issues with Black * admin, editor, viewer test for PUT sponsors metadata * admin, editor, viewer test for GET all datasets * admin, editor, viewer test for POST dataset * admin, editor, viewer test for GET specific dataset * admin, editor, viewer test for POST creator dataset metadata * admin, editor, viewer test for DELETE creator dataset metadata * admin, editor, viewer test for POST date dataset metadata * admin, editor, viewer test for DELETE date dataset metadata * admin, editor, viewer test for GET de-identification dataset metadata * admin, editor, viewer test for PUT de-identification dataset metadata * admin, editor, viewer test for GET description dataset metadata * admin, editor, viewer test for POST description dataset metadata * admin, editor, viewer test for DELETE dataset metadata * admin, editor, viewer test for GET funder dataset metadata * admin, editor, viewer test for POST funder dataset metadata * refactor: ensure status code is 204 for contributors * refactor: ensure status code is 204 for dataset * refactor: import Response and ensure 404 response in study api * refactor: import Response and ensure 404 response in dataset alt id api * refactor: import Response and ensure 404 response in dataset contrib api * refactor: import Response and ensure 404 response in dataset date api * refactor: import Response and ensure 404 response in dataset descrip api * refactor: import Response and ensure 404 response in dataset funder api * refactor: import Response and ensure 404 response in dataset related irms api * refactor: import Response and ensure 404 response in dataset rights irms api * refactor: import Response and ensure 404 response in dataset subject irms api * refactor: import Response and ensure 404 response in study avail ipd api * refactor: import Response and ensure 404 response in study identification api * refactor: import Response and ensure 404 response in study intervention api * refactor: import Response and ensure 204 response in study link api * refactor: import Response and ensure 204 response in study location api * refactor: import Response and ensure 204 response in study overall official api * fix: add import * fix: typo for investigator name test * refactor: ensure 204 status is return when deleting * fix: return Response(status) * fix: don't return content upon deleting central contact (api) * fix: dataset contributor status code fix * style: 🎨 fix code style issues with Black * 🐛 fix: corrected issues with deleting responses status code * ✨ feat: verify data in GET response for study api * ♻️ refactor: GET test after POST for dataset api and differentiate dataset contents for all clients * ✨ verify all clients in GET datasets api * ✨ feat: verify content for GET specific dataset endpoint * ✨ feat: admin, editor, viewer test for DELETE dataset api * ✨ feat: verify GET dataset access after PUT for all clients * ✨ feat: verify GET response data for all clients in dataset alt identifier endpoint * ✨ verify GET dataset consent metadata after POST for all clients * ✨ verify GET dataset creator metadata after POST for all clients * ✨ verify GET dataset data metadata after POST for all clients * ✨ verify GET dataset de-id lvl metadata after POST for all clients * ✨ verify GET dataset description metadata after POST for all clients * ✨ verify GET dataset funder metadata after POST for all clients * ✨ feat: PUT tests for other dataset metadata created for all clients, GET response added after * ✨ verify GET dataset other metadata after POST for all clients * ✨ verify GET dataset publisher metadata after POST for all clients * ✨ feat: PUT dataset publisher metadata added for all clients * ✨ verify GET dataset record keys metadata after POST for all clients * ✨ feat: POST tests created for all clients in dataset related items api * ✨ verify GET dataset related items metadata after POST for all clients * ✨ feat: DELETE dataset contributor metadata tests created for all clients * ✨ feat: DELETE dataset related-item identifier metadata tests created for all clients * ✨ feat: all DELETE dataset related-item metadata tests created for all clients * style: 🎨 fix code style issues with Black * 🐛 fix: correcting bugs for global variables and assertment checks * 🐛 fix: correct variable for response data in GET specific dataset * ♻️ refactor: create multiple dummy datasets for deleting with different clients * 🐛 fix: fix list index when going through POST contributor responses * 🐛 fix: assert correct length of dataset descriptions in GET test * 🐛 fix: patched multiple tests for pytest * ✨ feat: GET tests for all clients created for record-keys metadata * 🐛 fix: final patches to all tests * ♻️ refactor: move GET dataset metadata responses after POST/PUT * 🐛 fix: fix merge issues * ✨ feat: arm metadata GET tests for all clients * ✨ feat: avail ipd metadata GET tests for all clients * ✨ feat: central contact metadata GET tests for all clients * ✨ feat: collaborators metadata GET tests for all clients * ✨ feat: description metadata GET tests for all clients * ✨ feat: description metadata GET tests for all clients * ✨ feat: design metadata GET tests for all clients * ✨ feat: eligibility metadata GET tests for all clients * ✨ feat: identification metadata GET tests for all clients * 🐛 fix: correct assert responses * ✨ feat: intervention metadata GET tests for all clients * style: 🎨 fix code style issues with Black * ✨ feat: GET ipdsharing study metadata for all clients created after POST * ✨ feat: GET study links metadata for all clients created after POST * ✨ feat: GET study locations metadata for all clients created after POST * ✨ feat: GET other study metadata for all clients created after POST * ✨ feat: GET overall official study metadata for all clients created after POST * ✨ feat: GET oversight study metadata for all clients created after PUT * ✨ feat: GET reference study metadata for all clients created after POST * ✨ feat: GET sponsors study metadata for all clients created after PUT * ✨ feat: GET status study metadata for all clients created after PUT * 🐛 fix: assertions on failed tests * ♻️ refactor: remove study/other metadata endpont (not used in frontend) * ✨ feat: POST dataset rights metadata created for all clients * ✨ feat: GET dataset rights metadata for all clients * ✨ feat: DELETE for dataset subjects metadata created for all clients * ✨ feat: POST for dataset subject metadata created for admin client * ✨ feat: POST for dataset title create for all clients * ✨ feat: GET dataset title metadata created for all clients * ✨ feat: DELETE dataset title metadata created for all clients * 🚧 wip: correct issue with items having same created_at timestamp * style: 🎨 fix code style issues with Black * ✨ feat: viewer client test added for GET study link metadata * ✨ feat: assert POST responses for version testing before POSTing version * ✨ feat: GET versioned study tests created for all clients * ✨ feat: GET versioned dataset metadata tests created for all clients * ✨ feat: GET versioned dataset readme metadata tests created for all clients * ✨ feat: PUT dataset readme version test created for all clients * ✨ feat: PUT dataset changelog version test created for all clients * ✨ feat: GET dataset changelog version test created for all clients * 🐛 fix: normalize return response with GET and PUT changelog version api * ✨ feat: DELETE original datasets created by admin and editor clients * ✨ feat: GET dataset version test created for all clients * style: 🎨 fix code style issues with Black * 🐛 fix: fix permission check for deleting dataset version * 🐛 fix: patch PUT dataset version to proper permission check * 🐛 fix: remove jsonify from return response on PUT version endpoint * ✨ fix: add needed global variables needed for pytest * ✨ feat: add test POST dataset version to study version file * ✨ feat: add test GET all dataset versions to study version file * ✨ feat: add GET specific dataset version test for all clients * ✨ feat: add PUT dataset version test for all clients * ♻️ refactor: remove version tests from dataset file and move to version file (pytest) * 🐛 fix: verify viewer status code for delete dataset descrip * ✨ feat: DELETE dataset funder metadata test added for all clients * ✨ feat: DELETE dataset rights metadata for all clients created * 🐛 fix: add pause between client POST calls for to prevent duplicate time stamps * ✨ feat: DELETE study intervention metadata test created for all clients * 🐛 fix: (wip) final fixes before PR * style: 🎨 fix code style issues with Black * ✨ feat: README.md instructions for creating pytest created for documentation * ♻️ refactor: remove jsonify from datasets.py * ♻️ refactor: update email address for pytest clients --------- Co-authored-by: Lint Action <[email protected]> * 🐛 fix: black issue with line length * ✨ feat: updates for new chart types/modules * style: 🎨 fix code style issues with Black * refactor: ♻️ api responses updated for swagger docs (#32) * ♻️ refactor: update api.docs on 201 success responses * style: 🎨 fix code style issues with Black * ♻️ refactor: update PUT contributor owner response changed to 200 * :reycle: refactor: correct api.response success statuses + add api.response for non existing requests --------- Co-authored-by: Lint Action <[email protected]> * fix: 🐛 updating user profile (#31) * 🐛 fix: PUT user profile endpoint patched * ♻️ refactor: update user.py file * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🚨 chore: run formatters * ✨ feat: add support for feature flags (#36) * ✨ feat: add support for feature flags * 👷 ci: add growthbook to test workflow * ➕ chore: add dependency * feat: ✨ password change endpoint (#33) * 🚧 wip: endpoint to change user password * ✨ feat: endpoint to change password * style: 🎨 fix code style issues with Black * 🔨 chore: remove print statements * 🔨 chore: add data type for request.json * ♻️ refactor: password change endpoint modified and moved to authentication * ✨ feat: user password change test created for pytest * style: 🎨 fix code style issues with Black * ♻️ refactor: password change test only for one client * ♻️ refactor: password change endpoint modified to POST * ♻️ refactor: pytest password changed test modified to be post * ✨ feat: tests for logging in user after password changes --------- Co-authored-by: Lint Action <[email protected]> * fix: 🐛 update dataset other model to return needed data (#35) * 🐛 fix: send id and resource_type back in the dataset/other response PUT/GET * 🔨 chore: remove prints * ♻️ refactor: id removed from response in dataset other * feat: ✨ utils for license text and support to store license (#38) * feat: added testing license_text dataset metadata * style: 🎨 fix code style issues with Black * 🔧 chore: update poetry lock * ✨ feat: utils endpoint adding for requesting json * style: 🎨 fix code style issues with Black --------- Co-authored-by: aydawka <[email protected]> Co-authored-by: Lint Action <[email protected]> * feat: added study metadata keywords (#37) * feat: added testing license_text dataset metadata * style: 🎨 fix code style issues with Black * feat: added testing for study keywords * feat: added study keywords endpoint * fix: db is getting cleared in test env * fix: format * fix: removed comments --------- Co-authored-by: Lint Action <[email protected]> * 🚨 fix: fix mypy warning * feat: DOI reserved for version table (#39) * feat: added AI identifier column to version * fix: modified test for DOI column * fix: format * fix: alembic version * style: 🎨 fix code style issues with Black * fix: identifier name * fix: unique added to doi column * style: 🎨 fix code style issues with Black * fix: doi nullability --------- Co-authored-by: Lint Action <[email protected]> * Revert "feat: DOI reserved for version table" (#40) * 👷 ci: rename container image * 🐛 fix: update domains to app * 🚑 fix: disable email deliverability check * feat: DOI reserved for version table (#41) * feat: added AI identifier column to version * fix: modified test for DOI column * fix: format * fix: alembic version * style: 🎨 fix code style issues with Black * fix: identifier name * fix: unique added to doi column * style: 🎨 fix code style issues with Black * fix: doi nullability * fix: doi nullability * fix: doi integrity error * style:format * fix: doi format * style: 🎨 fix code style issues with Black --------- Co-authored-by: aydawka <[email protected]> Co-authored-by: Lint Action <[email protected]> * 🐛 fix: minor fixes * 🐛 fix: minor fixes * no message * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: add host arg to app.py * 🐛 fix: fix module transform bug (needed to create deep copy) * ✨feat: improved cache management * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: remove https://localhost:3000from CORS in debug mode * 🐛 fix: import error * 🐛 fix: import error, upgrade to Python3.10 * 🐛 fix: import error - PyCap * ✨feat: redcap + dashboard auth management * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * style: 🎨 fix code style issues with Black * 🐛 fix: minor fixes * 🔨 chore: update side scripts * ✨feat: redcap api updates, dashboard wip * style: 🎨 fix code style issues with Black * feat: ✨ improved REDcap & Dashboard API structure * style: 🎨 fix code style issues with Black * 🚩 feat: feature flag signup API endpoint (#43) * 🚩 feat: feature flag signup API endpoint * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * 🙈 chore: update gitignore * chore 🔨 replaced name with family/ given name in contributor (#44) * chore: modified dataset name * chore: added test for changed name contributor * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * feat: ❇️ add dataset healthsheet table (#46) * feat: add dataset health sheet table * style: format * style: 🎨 fix code style issues with Black * fix: added relation of healthsheet to parent table --------- Co-authored-by: Lint Action <[email protected]> * feat: ❇️ add published dataset table (#45) * feat: added published dataset table * style: 🎨 fix code style issues with Black * style: format * fix: update published dataset table --------- Co-authored-by: Lint Action <[email protected]> * feat: ❇️ add healtsheet endpoints (#47) * feat: add health sheet endpoints * style: 🎨 fix code style issues with Black * feat: add health sheet test functions * style: format * style: 🎨 fix code style issues with Black --------- Co-authored-by: Lint Action <[email protected]> * 🚚 chore: update path * 👷 ci: remove old workflows * 💚 ci: fix build * style: 🎨 fix code style issues with Black * 💚 ci: fix build * 💚 ci: fix build * style: 🎨 fix code style issues with Black * 🚨 chore: remove format action * 💚 ci: fix build * 💚 ci: fix build * ✨feat: add participant list report * fix: 🐛 dataset related-identifier and publisher tables (#49) * fix: delete record keys * fix: add publisher table * fix: related item identifier model and table * fix: related item identifier endpoint * fix: dataset publisher * fix: test for related item identifier table * fix: modify dataset other table * fix: modify dataset_managing_organization * fix: test dataset other and managing org * fix:dataset other * fix: format * wip: testing version minimized steps * fix: testing version related identifier * fix: version related identifier * feat: ✨ update dashboard config for new modules * 🔨 chore: add table reset * fix: 🐛 study metadata changes (#50) * fix: dataset rights add scheme uri * feat: add study_location list table * fix: location list relation * feat: added study metadata tables * style: format * fix: study design added is_patient_registry col * fix: added new columns to existing tables * fix: remove tables * fix: added column to study table * style: format * fix: study * fix: add new endpoints * fix: sponsor and collab endpoints * fix: central contact * fix: sponsors * fix: collaborators * fix: endpoints * fix: condition and keyword schema * style: format * fix: test dataset metadata * fix: finalize study metadata endpoints * fix: collabs test * fix: test keywords and oversight test * fix: finalized study metadata test * fix: dataset metasdata test * fix: study version metadata test * style: format * fix: test * fix: study acronym * fix: study metadata * fix: study design * fix: 🐛 study metadata database updates (#51) * fix: study oversight table nullability * fix: study intervention remove a column * fix: study intervention test * fix: change study location table name * 🔨 chore: update delete script * fix: 🐞 version metadata changes (#52) * fix: schema types for study metadata * fix: metadata return for version steps * fix: test version and collaborators metadata * feat: public dashboard creation and management * style: format * fix: 🐛 maganing organization table (#53) * feat: added managing organization table * fix: api for managing org * fix: api for managing org * fix: test for managing org * fix: model classes of managing organization * style: format * chore: rebuild database * 🗃️ chore: update db * wip: finalizing redcap release ETL * feat: ✨ REDCap release ETL * fix: 🐛 minor fix to aireadi_config.py * chore: reset * 👷 ci: add build for main pushes * 👷 ci: disable unused workflow --------- Co-authored-by: slugb0t <[email protected]> Co-authored-by: Lint Action <[email protected]> Co-authored-by: aydawka <[email protected]> Co-authored-by: Dorian Portillo <[email protected]> Co-authored-by: Aydan Gasimova <[email protected]> Co-authored-by: Greenstick <[email protected]> Co-authored-by: Greenstick <[email protected]>

megasanjay added 4 commits November 14, 2023 12:45

👷 ci: deoploy api to ACR

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👷 ci: deploy api to ACR

ba3459c

👷 ci: update build conditions

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👷 ci: remove test branch

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megasanjay temporarily deployed to staging November 14, 2023 21:00 — with GitHub Actions Inactive

megasanjay merged commit 7bd08a1 into staging Nov 14, 2023
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megasanjay had a problem deploying to staging November 14, 2023 21:05 — with GitHub Actions Failure

megasanjay deleted the deploy branch November 14, 2023 21:09

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👷 ci: deploy api to Azure Container Registry #25

👷 ci: deploy api to Azure Container Registry #25

megasanjay commented Nov 14, 2023 •

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👷 ci: deploy api to Azure Container Registry #25

👷 ci: deploy api to Azure Container Registry #25

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megasanjay commented Nov 14, 2023 • edited Loading

megasanjay commented Nov 14, 2023 •

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