v0.5.0-beta

What's Changed

• 1364 fix cachedb flow run parameter by @suwarnoong in #548
• [Analyze-1449] Update analytics-svc to support new PA UI by @brandantck in #520
• ADHOC vars AZ_REGISTRY_USERNAME instead of secret by @brian-cornally in #547
• [Adhoc] fix plugin ci by @mwaiyee in #549
• Add license by @p-hoffmann in #552
• [Data-1404] Create trex function to access bedrock by @Zhimin-arya in #518
• KangJingA/integrate 1450 Make fhir server optional by @KangJingA in #544
• [Devops-1279] Setup docs by @mwaiyee in #532
• fix for prefect flowrun name as undefined by @SantanM in #537
• Fix patient list download all columns by @satish-a0 in #555
• Fix add and compare cohorts by @satish-a0 in #550
• remove passphrase by @SantanM in #553
• remove logs for fhir-server in http tests by @KangJingA in #556
• [Integrate-1483] Fix datamodel create flow run using mismatched plugin name by @hengxian-jiang in #551
• send requests to portal to fetch results without depending on prefect by @SantanM in #540
• [Adhoc] Edit oss docs and add broadsea setup by @mwaiyee in #557
• 1452 setup demo dataset by @suwarnoong in #560
• 1452 fix import casing and add watch by @suwarnoong in #563
• Analytics fixes by @satish-a0 in #562
• Adjust ci for new org by @p-hoffmann in #565
• Update pkg name by @p-hoffmann in #567
• Update package.json by @p-hoffmann in #568
• rename d2e-plugins to d2e-flows by @p-hoffmann in #569
• Add ghcr by @p-hoffmann in #570
• Change docker image names by @p-hoffmann in #571
• Update docker-push-called.yml by @p-hoffmann in #572
• Fix scripts by @p-hoffmann in #583
• Update README.md by @p-hoffmann in #590
• Change trex volume mount by @p-hoffmann in #592
• Update references by @satish-a0 in #591
• Fix file upload and delete by @p-hoffmann in #587
• [analyze-1503] Notebook created. "Untitled" label not displayed #561 by @p-hoffmann in #586
• Delete untagged container images by @p-hoffmann in #594
• Add cli options for stop and clean by @p-hoffmann in #593
• Fix dc result retrieval by @hengxian-jiang in #595
• dqd: remove dependency on prefect for fetching results by @p-hoffmann in #589
• Add demo options to cli by @p-hoffmann in #596
• Add demo db instructions by @p-hoffmann in #597
• fix cli by @p-hoffmann in #598
• cleanup by @p-hoffmann in #599
• [data-1447] Change achilles execution to single threaded mode on local #558 by @p-hoffmann in #588
• [analyze-1502] Concept sets list did not display. Error message was displayed by @khairul-syazwan in #600
• [data-1518] Fix path in dataflow-gen-worker command by @alicia-koh in #602
• [Integrate-1511] Fix dataflow revision related endpoints by @hengxian-jiang in #601
• Revert data characterization fix by @hengxian-jiang in #603
• [Adhoc] throw error response instead of return by @suwarnoong in #605
• [analyze-1519] Bookmarks not working by @khairul-syazwan in #604
• change hardcoded nodeName to actual nodeName from result by @SantanM in #606
• fix broadsea-atlas cohort generation by @p-hoffmann in #585
• KangJingA/integrate-1374 by @KangJingA in #607
• fixes by @p-hoffmann in #608
• 515 update docs by @brian-cornally in #610
• Fix cohorts by @satish-a0 in #611
• Fix dataset creation by @hengxian-jiang in #615
• Fix data model list by @hengxian-jiang in #614
• Update README.md by @p-hoffmann in #616
• 1452 use tenant id env in demo setup by @suwarnoong in #619
• Update README.md by @p-hoffmann in #617
• [Analyze-1527] Fix DQD and DC job run for broadsea-atlas by @brandantck in #618
• [Integrate-1452] update demo dataset pa config id by @suwarnoong in #621
• Update README.md by @p-hoffmann in #620
• [analyze-1526] getMyConfig fails with Researcher role by @khairul-syazwan in #613
• [Integrate-1452] update demo dataset plugin to omop_cdm_plugin by @suwarnoong in #623
• [Analyze-1528] Update cohort generation to conform to omop standard by @brandantck in #625
• try 3 times to create authtoken prefect input by @SantanM in #624
• run delete authtoken in background by @SantanM in #627
• [Analyze-1553] Fix 403 error for researchers when accessing DQD and DC results by @brandantck in #628
• Fix download patient list zip by @satish-a0 in #630
• [Analyze-1553] Move dataflowmgmt.dataflow.flowRun.results.read scope to data client credentials role by @brandantck in #631
• Release/adapt cicd by @satish-a0 in #612

New Contributors

• @Zhimin-arya made their first contribution in #518

Full Changelog: latest...v0.5.0-beta

latest: Adding upload release in plugin-ci for develop branch (#523)

* Adding upload release in plugin-ci for develop branch

* fix plugin-ci

* fix filepath

v0.4-beta

[Data-1302]  Adjust dataflows to work offline (#439)

* Support offline installation
* Move installation of r packages to dataflow-gen dockerfile
* Move dependencies in install requires to dataflow-gen requirements.txt
* Revert cohort gen cohort survival
* Add duckdb extensions binaries
* Make openssl version > 3 in Dockerfile

v0.3.1-alpha

Typo in connection string in dbutils.py (#263)

* change to sslvalidatecertificate instead of validatecertificate (#260)

* replace ? with & in db connect string

v0.3-alpha

What's Changed

• Revert for next release by @satish-a0 in #12
• 395 setup docs 5 by @brian-cornally in #13
• [DI-77] Remove update study name for schema endpoint by @alicia-koh in #16
• [app-456] [Notebook] Notebook rename not working for Researcher account by @khairul-syazwan in #14
• 314 delete my user in both logto and usermgmt by @suwarnoong in #17
• 477 remove cdm download feature flag by @suwarnoong in #18
• Add pmc as codeowner by @satish-a0 in #20
• Update repo names by @satish-a0 in #26
• 430_dc-getaddrinfo-ENOTFOUND by @brian-cornally in #29
• 250 to support new line in env, escape newline for cert only by @suwarnoong in #31
• 184 upgrade bookmarks svc by @KangJingA in #15
• 465 fix terminology validity by @jerome-ng in #19
• [DP-484] Add cdm and pa config for duckdb by @brandantck in #33
• ADHOC_x-setup for alp-dbcli-v1.0.0.tgz by @brian-cornally in #28
• Remove limit on the number of search results by @csafreen in #30
• Fix pa config by @csafreen in #24
• Fix: Cdw svc to run fine if only HANA db configured by @csafreen in #34
• 430 add domain to dc container hostname again by @brian-cornally in #41
• [DI-466] Add error handling if database credentials env is missing by @alicia-koh in #38
• [DP-484] create duckdb cdm config 2 by @brandantck in #42
• 469 update logto refresh token seed, add offline_access scope by @suwarnoong in #47
• Concept recommended fix by @csafreen in #32
• [internal-259] healthchecks by @SantanM in #40
• [DI-78] Remove get vocab schema from cdm schema endpoint by @alicia-koh in #23
• Update genomics DM by @LSriragavan in #35
• [internal-40] fhir server by @SantanM in #25
• ADHOC add s3 profile to dc base cmd by @brian-cornally in #44
• ADHOC revert-dc-local-dataflow-gen-net by @brian-cornally in #51
• 397 oss docs update7 by @brian-cornally in #43
• 426 scripts update by @brian-cornally in #49
• 215 filter dataset visibility=hidden from non-researcher by @suwarnoong in #50
• 303 gha secrets to 1password by @brian-cornally in #55
• 134 register dashboard routes endpoint, fix typings by @suwarnoong in #53
• [Internal-124] analysis flow portal backend by @hengxian-jiang in #36
• add fhir-server to docker-compose-local.yml by @SantanM in #57
• Add route for translations by @jerome-ng in #54
• 255 enable tls in alp services by @KangJingA in #37
• Get user config by configId by @csafreen in #21
• Seed demo notebooks in starboard related to Kaplan Meier by @csafreen in #56
• cdw-svc: Get analytics db conn only when needed by @csafreen in #48
• [app-131] [Portal] Implement update vocab schema in db setup by @khairul-syazwan in #22
• Use database code instead of database name by @csafreen in #60
• [DP-432] Resolve duckdb and pg dialect difference by @brandantck in #58
• cdw-svc: Remove postgres connection and use env for duckdb by @csafreen in #52
• 542-update-concept-page-to-new-design by @KangJingA in #59
• BugFix: PA User Config by @csafreen in #65
• fix plugins json error by @KangJingA in #71
• Update error messages by @jerome-ng in #73
• use upper case for hana meili index by @jerome-ng in #66
• 540 concept sets user specific by @jerome-ng in #63
• [app-211] [PA] remove non-interactive mode by @khairul-syazwan in #70
• log errors in hooks by @SantanM in #67
• 536 update plugin env by @suwarnoong in #78
• 554 add health check in terminology svc by @KangJingA in #75
• Read tenant id from env instead of request body by @suwarnoong in #79
• [DP-452] Meilisearch index flow use client credential token by @brandantck in #72
• ADHOC - gen-tls - restart alp-caddy if name is not exactly container name ^alp-caddy by @brian-cornally in #81
• [DP-522[ Fix PA date filter by @brandantck in https://github.com//pull/77
• 538 use routing json instead of env variable for single services by @KangJingA in #62
• ADHOC gen-tls 2 by @brian-cornally in #83
• [DP-479] Analytics svc only connect to duckdb by @brandantck in #69
• ADHOC fix portal & dataflow-gen* services start by @brian-cornally in #87
• 89 1password ratelimit data by @brian-cornally in #90
• [DI-481] Transform remaining dataflows to plugins by @alicia-koh in #46
• [DI-543] Update metadataflow to include information about entity distribution in dataset by @alicia-koh in #74
• [DP-596] remove internal analytics svc call for cohort building by @brandantck in #88
• [ADHOC] Fix missing IDP__ISSUER_URL by @brandantck in #91
• 496 show as warning when DATABASE_CREDENTIALS is empty by @suwarnoong in #92
• 426 internal scripts3 by @brian-cornally in #94
• cdw-svc: Include mini duckdb files in image by @csafreen in #68
• Terminology-svc: Enable hybrid search by @csafreen in #86
• 426 internal scripts4 by @brian-cornally in #96
• [DI-546] Add plugin to run i2b2 datamodel creation by @alicia-koh in #80
• [DI-493] Move meilisearch index dataflow to plugin by @alicia-koh in #61
• 244 filter for concept sets in cohorts by @jerome-ng in #101
• 593 search dataset in portal by @suwarnoong in #102
• [DP-587] Add prefect flow for create duckdb database file by @brandantck in #99
• [DP-273] Add postgres support for datamart creation by @brandantck in #39
• Fix CD Dev/Test system by @satish-a0 in #107
• 556 use caddy for UI files by @KangJingA in #95
• Fix docker compose services startup by @satish-a0 in #110
• [DI-138] Prefect hooks for dataflow-gen UI flows by @alicia-koh in #84
• [DP-290] Unify dev_mode and sqlReturnOn by @brandantck in #108
• [DP-578] Fix DQD vocab input param by @brandantck in #112
• Assign priority to networks by @satish-a0 in #113
• 609 researcher dataset authorization in gateway by @KangJingA in #111
• [app-549] Add check datamodel updates button to dataset overview by @khairul-syazwan in #109
• Fix body parsing in proxy requests by @KangJingA in #118
• [DP-566] Add duckdb and meilisearch setup steps by @brandantck in #116
• [Internal-322] Delete flow deployment files from s3 when deleting prefect flow by @hengxian-jiang in #114
• [DP-613] Replace patient_id with person_id by @brandantck in #119
• PG: Reuse env variables by @csafreen in #105
• [DI-570] Rename reporting bi tests by @alicia-koh in #120
• [ADHOC] Fix python enum string comparison by @brandantck in #123
• Meilisearch: Calculate Embeddings by @csafreen in #97
• fix wrong date being sent in terminology fhir by @jerome-ng in #124
• [DP-260] Redact token in prefect input parameters by @brandantck in #126
• 598 add prefect graph: add missing apis required for graphs by @jerome-ng in #121
• alp-fhir ui and ui-server by @SantanM in #64
• 533 handle extra values by @jerome-ng in https://github.com...

v0.2.2-alpha

fix for duckdb using duckdb specific cdmconfig

v0.2.1-alpha

Fixes:

• Related concepts Display UI
• Concept Recommended results size fetch
• Validity of the concepts

v0.2-alpha

Update dependency base tag (#11)