v0.10.0-beta

What's Changed

• cleanup pkg json by @p-hoffmann in #595
• Change schedule to weekly by @p-hoffmann in #715
• add package lock by @p-hoffmann in #657
• Add logging service by @p-hoffmann in #675
• enable merge queue by @p-hoffmann in #724
• merge plugin ci by @p-hoffmann in #725
• Add trex plugins by @p-hoffmann in #726
• fix plugin build by @p-hoffmann in #727
• fix trex plugin build by @p-hoffmann in #728
• Update trex by @p-hoffmann in #729
• Enable pg extended protocol by @p-hoffmann in #730
• fix log error by @p-hoffmann in #742
• Fix ext build by @p-hoffmann in #749
• Jerome ng/pa atlas refactor by @jerome-ng in #744
• fix http test by @p-hoffmann in #753
• Release PG connection user artifacts by @satish-a0 in #745
• [Integrate-566] Add db extra field to big query dialect in db setup by @hengxian-jiang in #736
• Update strategus results viewer by @KangJingA in #747
• [Integrate-539] Replace hardcoded package information url value with env by @hengxian-jiang in #746
• [adhoc] fix stats cron schedule and update version by @mwaiyee in #750
• [data-624] Remove replication related code by @alicia-koh in #734
• [Fix] Docker build GHA for rkernel image to build push by @mwaiyee in #751
• fix fs access by @p-hoffmann in #767
• [Analyze-2215] Align concept search to one api by @brandantck in #756
• [Devops-2255] Update GHA setupdemo to build UI by @mwaiyee in #743
• update reticulate for DeepPLP by @SantanM in #769
• Upgrading TreatmentPatterns version for both R ohdsi kernel and Hades flow container by @amit-sharma-d4l in #770
• Update strategus for treatment patterns by @KangJingA in #763
• [e2e] Add 3 test cases by @Zhimin-arya in #491
• fix sql connection error by @p-hoffmann in #789
• Handle shared variables in list by @alicia-koh in #774
• Fix env for analysis results endpoint by @KangJingA in #782
• [Adhoc] Add GHA build plugin files in release branch v0.9.0 for v0.9.x patches by @mwaiyee in #775
• fix analysis UI and jobplugin by @KangJingA in #787
• Fixed a bug in the installation URL for TreatmentPatterns by @amit-sharma-d4l in #786
• [PA] Improve notification bar by @khairul-syazwan in #781
• Reorganize the HTTP test files by @LSriragavan in #719
• Use renv.lock and uv.lock for reproducible package installation - 1 by @alicia-koh in #662
• [PA] Start domain value search when clicking dropdown by @khairul-syazwan in #790
• [Analyze-703] app & component registry for PA navbar by @suwarnoong in #798
• add hana execute function by @p-hoffmann in #772
• speedup ext build by @p-hoffmann in #831
• fix llama build by @p-hoffmann in #833
• adjust pgwire by @p-hoffmann in #830
• refactor llama ext by @p-hoffmann in #832
• improve trex dev by @p-hoffmann in #839
• Make analysis add node more user friendly by @hengxian-jiang in #788
• [Integrate-794] Display datasetId regardless of schema metadata flow run by @hengxian-jiang in #835
• [Integrate-784] Fix ETL flow import with variables and lib information by @hengxian-jiang in #834
• Add e2e DC test by @satish-a0 in #771
• fix pgwire by @p-hoffmann in #847
• hana connection fix by @p-hoffmann in #859
• [Integrate-823] Add refresh token to result viewer by @hengxian-jiang in #851
• [data-297] Use trex sql for dqd and dc - 1 by @alicia-koh in #799
• Update Cyclops version in Dockerfile by @SantanM in #853
• Update Add hana_load_plugin by @yutingshe in #842
• Jerome ng/629 add date format indicator by @jerome-ng in #838
• fix bugs in strategus analysis by @SantanM in #752
• [Data] add strategus_intro to chat assistant by @Zhimin-arya in #801
• enable function to function messaging by @p-hoffmann in #871
• add chdb by @p-hoffmann in #872
• [Analyze-704] Run data characterization against public webapi by @brandantck in #764
• mv function env to pkg json by @p-hoffmann in #873
• [Integrate-538] Permanently redirect to portal for sign-in and unknown-session by @hengxian-jiang in #855
• [e2e-test] Add run dqd test by @brandantck in #874
• [e2e] fix and enable disabled e2e tests by @Zhimin-arya in #738
• Fix runner space by @satish-a0 in #892
• [Integrate-849] Refine analysis UI by @hengxian-jiang in #861
• [Data-561] Reduce data_tranformation docker image by @Zhimin-arya in #881
• [data-681-778] Merge create cache and datamart plugin by @alicia-koh in #868
• [Analyze-709] clone concept-sets to an app by @suwarnoong in #876
• [Data-562] Add repository metadata for git hub copilot by @Zhimin-arya in #822
• update submodules by @p-hoffmann in #911
• update duckdb by @p-hoffmann in #919
• Make strategus plugin work with trex by @alicia-koh in #856
• New plugin to load fhir data by @csafreen in #806
• Jerome ng/705 run atlas with webapi by @jerome-ng in #877
• Add default d2e chart colors for Data Characterization by @khairul-syazwan in #852
• [Analyze-810] landing page by @suwarnoong in #925
• [ADHOC] Fix concept search OOM by @brandantck in #935
• Make Study Page Result Viewer Configurable by Admin by @KangJingA in #880
• [Data - 625] Split r scripts by @Zhimin-arya in #879
• [Integrate-455] handle enter key to submit dataset attribute and tag by @suwarnoong in #937
• [Analyze-811] add tracking by @suwarnoong in #909
• [data-897] Set application user for all hana connections by @alicia-koh in #938
• Start FHIR server as a trex function by @csafreen in #805
• Fix bug to hana_load_plugin by @yutingshe in #891
• 🐛 Fix Cohorts bookmark list and atlas-lite cohort definition list by @khairul-syazwan in #933
• Amit sharma d4l/result viewer template tp cs by @amit-sharma-d4l in #939
• [Analyze-455] handle enter key on save bookmark by @suwarnoong in #947
• Remove fhir profile by @csafreen in #952
• 🎨 Add Atlas theme to PA-Atlas by @khairul-syazwan in #944
• [Analysis-UI] Allow cohort node connect to multiple handles by @hengxian-jiang in #917
• [Adhoc] allow import-map overrides by @suwarnoong in #941
• Use database cr...

v0.9.1-beta

[Patch] Update image tag to 0.9.2 (#848)

v0.9.0-beta

Release Notes: v0.9.0-beta

Highlights

• Major improvements and new features across analysis, ETL, and integration flows.
• Expanded support for BigQuery, Deno 2.1, and new analytic/ETL plugins.
• Numerous bug fixes, refactors, and expanded end-to-end (e2e) test coverage.

---

Features & Enhancements

Analysis UI & Flow

• Enabled and expanded experimental analysis UI.
• Introduced new internal data structures for mapping and cohort definitions.
• Added support for selecting ATLAS cohort definitions and handling nested groups.
• Improved cohort exit criteria and menu designs.
• Added new nodes and plugins, including KM analysis and cohort survival.
• Various UI refactors and quality-of-life improvements.

ETL & Data Processing

• Expanded ETL database support and improved dataflow logic for shared variables.
• Enhanced FHIR server capabilities, including custom schema and caching.
• Added BigQuery support for data processing and analytics.
• Improved configuration for study analysis and dataset awareness.

Plugin & Integration

• Added and updated nodes for new analysis types and characterizations.
• Improved plugin build and configuration processes.
• Enhanced role and permission management, including privileged researcher roles.

Configuration & Infrastructure

• Upgraded to Deno 2.1 and updated Trex for function builds.
• Improved CLI and devops workflows for image builds and testing.
• Added support for new database backends in development and testing environments.

Bug Fixes

• Fixed UI bugs in dropdowns, charts, bookmarks, and patient analytics.
• Resolved issues with data model creation, JSON serialization, and path handling.
• Improved code scanning, security, and dependabot alert handling.
• Various fixes for analysis versioning, plugin initialization, and migration scripts.

Testing & QA

• Significantly increased e2e test coverage for core flows, metadata, hybrid search, barchart, job execution, cohort operations, and more.
• Improved and stabilized GHA workflows and test reliability.
• Added and re-enabled tests for patient list, MRI, logout, dataset creation, and user management.

Developer Experience

• Updated CLI tooling, environment setup, and devops scripts.
• Enhanced error handling, logging, and feedback in UI and backend services.

Miscellaneous

• Added and updated disclaimer dialogs and study viewer options.
• Improved display and configuration for cohort and study management.
• Miscellaneous codebase cleanup and minor refactors.

---

Full Changelog: v0.8.1-beta...v0.9.0-beta

v0.8.1-beta

What's Changed

• Patch v0.8.1 by @mwaiyee in #424

Full Changelog: v0.8.0-beta...v0.8.1-beta

v0.8.0-beta

What's Changed

• Remove env files by @satish-a0 in #165
• [Integrate-1887] add status as dependency in run flow by @suwarnoong in #158
• [KangJingA/integrate-1895] add artifacts, task runs, clean up css by @KangJingA in #156
• [Integrate-1366] if mail is empty, fallback to userPrincipalName by @suwarnoong in #153
• [Analyze-2019] Fix cohort generator flow by @brandantck in #169
• [Internal-1461] Add self-host supabase storage by @hengxian-jiang in #14
• Fix demo setup ci by @hengxian-jiang in #174
• [Integrate-1896] clear result upon run flow by @suwarnoong in #162
• [Integrate-1849] enable autoSelect and helperText in AutoComplete by @suwarnoong in #167
• [Integrate-1931] change UI payload for dbwriter and py2table by @suwarnoong in #171
• [Integrate-1929] remove strategus & data mapping nodes in flow ui by @suwarnoong in #178
• [adhoc] fix node spacing in add node dialog by @suwarnoong in #179
• [Integrate-1940] combine setup demo dataset to one step by @suwarnoong in #176
• [data-1812] Create dc results schema without liquibase by @alicia-koh in #168
• Adapt Dqd & DC by @satish-a0 in #173
• Disable provenance by @satish-a0 in #182
• [data-971-1] Move liquibase to data management plugin by @alicia-koh in #184
• disable r-kernel build by default by @SantanM in #107
• Refactor fhir server project name by @csafreen in #143
• [Analyze 1297] Add FHIR pa and cdmconfig by @brandantck in #96
• [integrate-1971-1989] Run all cells, Jupyter kernel management by @KangJingA in #180
• Bug Fix: Use const instead of let in Add Study Dialog box by @csafreen in #190
• Use auto generated password for demodb by @csafreen in #186
• Fix Http tests by @satish-a0 in #192
• Add no proxy & duckdb extensions by @satish-a0 in #198
• [data-1909] Add documentation for dataflow ui by @alicia-koh in #199
• [Integrate-1926] Add git configuration on setup page UI by @hengxian-jiang in #189
• [Integrate-1926] Add git support for dataflow/notebook by @hengxian-jiang in #177
• [Integrate-1928] add data mapping node in dataflow-ui by @suwarnoong in #196
• Add headers for omop cdm v5.3 by @csafreen in #194
• Flows: Remove libraries not in use by @csafreen in #166
• Delete fhir project when portal dataset is deleted by @csafreen in #170
• [data-1968] Use Supabase for CSV Node by @alicia-koh in #197
• [Internal-1996] Add Chat Endpoint› by @Zhimin-arya in #185
• [Integrate-1995] install white rabbit flow by default by @KangJingA in #188
• [Integrate-2031] CSV node misc update by @hengxian-jiang in #202
• [Integrate-1988] chat UI implementation by @KangJingA in #193
• [integrate-2042] add loaders to jobs ui by @KangJingA in #203
• [Devops-1868] Update setup endpoint and cli.sh by @mwaiyee in #200
• [integrate-2057] support other delimiters for csv files by @KangJingA in #204
• Improve plugin load logic by @jerome-ng in #187
• [Analyze-1848] Fix pyqe concept set content parsing by @brandantck in #191
• add e2e test by @p-hoffmann in #224
• [Integrate-2029] remove table mapping in sql node by @suwarnoong in #206
• [Adhoc] public path in webpack flow ui by @suwarnoong in #211
• [Integrate-2025] import a flow from json file by @suwarnoong in #217
• [Integrate-2030] Upload csv node file to supabase-storage by @hengxian-jiang in #208
• [Integrate-2039] Support overwrite local dataflows from remote repository by @hengxian-jiang in #218
• [data-2021] Throw error during build if R package is not installed by @alicia-koh in #207
• change uuid to random string by @p-hoffmann in #228
• [data-1994] Remove parquet support from datamart plugin by @alicia-koh in #201
• [internal-1867] check db code by @SantanM in #183
• [integrate 2047] Enable language selector in portal by @KangJingA in #210
• [Devops] Evaluate mlflow by @mwaiyee in #222
• Group data transformation flows into a separate plugin by @csafreen in #216
• [integrate 2035] fix jupyter notebook import/export; fix synpuf5pct demo by @KangJingA in #220
• call cli script directly by @p-hoffmann in #227
• [Analyze 2046] Add 1 to many mapping for saved filters to materialized cohort by @brandantck in #212
• [Integrate-2041] move fhir server to cdm schema option by @suwarnoong in #223
• [data-1992] Change Data Mapping Node to use scan report by @alicia-koh in #230
• [Integrate-2045] remove auto-set edge when add node by @suwarnoong in #248
• [Integrate-1927] move concept mapping to dataflow ui by @suwarnoong in #240
• [Integrate-2039] Support data-transformation template selection by @hengxian-jiang in #233
• Fix intermittent http-test failure by @hengxian-jiang in #251
• [INTERNAL-2081] Add Hana session variables by @satish-a0 in #225
• [Internal-1494] Use researcher schema for materialized cohorts by @satish-a0 in #242
• [internal-1874] logto search path by @SantanM in #232
• Adapt pull policy and latest digest by @satish-a0 in #209
• replace fetching results from s3, instead use prefect artifacts by @SantanM in #237
• [Devops-2119] Adjust GHA dev by @mwaiyee in #245
• [internal-2049] upload stategus results to db by @SantanM in #234
• [Internal - 1997] Fix the phenotype result table name by @Zhimin-arya in #219
• Add application and user name as session variables to HANA JWT connection by @csafreen in #241
• [Devops-2137] Install sqlalchemy-hana in flow base image by @mwaiyee in #264
• [Integrate-2138] remove source option to allow all connected nodes by @suwarnoong in #253
• [Integrate-2144] update node internals instead of page reload by @suwarnoong in #256
• [Integrate-2038] change browser title to Data2Evidence by @suwarnoong in #257
• [Analyze-2032] Fix concept set query by @brandantck in #254
• [Integrate-2153] ui plugin translation by @suwarnoong in #260
• [Integrate-2114] include thirdPartyRefreshToken in custom jwt by @suwarnoong in #259
• [Integrate-2039] Support overwrite notebook from remote repo/notebook template by @hengxian-jiang in #236
• [Devops-2120] Fix gha UI build by @mwaiyee in #255
• fix chat url endpoint by @KangJingA in #261
• [Internal - 1876] Add support for MIMIC-IV v3.1 by @Zhimin-arya in #215
• [integrate-1289] handle schema case for datamart plugin by @KangJingA in #214
• [Integrate-2040] Add study screen to admin portal by @hengxian-jiang in #252
• fix db credential updates by @p-hoffmann in #263
• [internal-2160] drop study analysis results schema by @SantanM in #265
• [Integrate-2156] Execute clean up schema button by @hengxian-jiang in #277
• Add data-transformation-flow in plugins seed by @csafreen in #249
• [Data] Update DICOM ETL Plugin by @alicia-koh in #243
• cleanup package.json scripts by @p-hoffmann in #262
• [Integrate-2108] Add mlflow to portal by @KangJingA in #238
• [internal-1668] unify routes jobplugins by @SantanM in #250
• [Integrate-2143] add cdm schema to db vocab schemas for new dataset with existing schema option...

v0.7.3-beta

What's Changed

• Change secret generation by @p-hoffmann in #221

Full Changelog: v0.7.2-beta...v0.7.3-beta

v0.7.2-beta

What's Changed

• Remove publication & fix health check by @p-hoffmann in #213

Full Changelog: v0.7.1-beta...v0.7.2-beta

v0.7.1-beta

What's Changed

• Adapt Dqd & DC by @satish-a0 in #172
• Fix demosetup by @satish-a0 in #175
• Patch v0.7.1 by @satish-a0 in #181

Full Changelog: v0.7.0-beta...v0.7.1-beta

v0.7.0-beta

What's Changed

• update cli metadata by @p-hoffmann in #5
• [ADHOC] Fix missing RequestContextMiddleware middleware by @brandantck in #7
• [Adhoc] Update stats notif by @mwaiyee in #15
• 🐛 [analyze-1790] [Cohorts] Search text box not cleared after the suggestion is selected by @khairul-syazwan in #12
• [Internal-1510] Upgrade duckdb v1.2.1 by @satish-a0 in #3
• Fix concept set column reference by @satish-a0 in #9
• KangJingA/remove-duplicated-middleware-in-jobplugins by @KangJingA in #11
• [Adhoc] Fix setupdemo script with version by @mwaiyee in #16
• [Adhoc] Add daily npm stats by @mwaiyee in #19
• [Internal-1686] Modify resource endpoint scopes by @csafreen in #10
• [Integrate-993] db test conn in add db & update cred dialogs by @suwarnoong in #20
• [Integrate-1663] add hybrid search config by @suwarnoong in #23
• [Internal-1674] Add search_embedding plugin by @Zhimin-arya in #18
• [internal-1260] remove sql-editor from ui and other places by @SantanM in #4
• [internal-1619] Remove unused code from FHIR server by @csafreen in #8
• [Internal-1455] Use artifact to store flow result by @hengxian-jiang in #32
• [internal-1651] add jobplugins schema by @SantanM in #28
• [Integrate-798] remove revocation endpoint by @suwarnoong in #36
• Add wal setting to demodb by @p-hoffmann in #29
• [Devops-186] GHA deployment by @mwaiyee in #39
• [Integrate-1824] remove node & script_node suffix in the display by @suwarnoong in #30
• [Devops-1837] Evaluate jupyter enterprise gateway by @mwaiyee in #27
• Switch Images ohdsi org by @satish-a0 in #43
• [Adhoc] Add custom prefect docker volume env by @mwaiyee in #31
• [Adhoc] Fix prefect docker volume custom env by @mwaiyee in #48
• [internal-1640] Update jwt-customizer.ts by @SantanM in #47
• [Integrate-1727] Fix Dqd show last flow run was cancelled error by @hengxian-jiang in #51
• [Integrate-1825] WhiteRabbit switch to cmd line interface by @KangJingA in #37
• [Integrate-1653] fix missing flow run id by @suwarnoong in #49
• Add platform option in dc by @mwaiyee in #46
• Expose trex sql port by @p-hoffmann in #50
• [Integrate-1219] add logout indicator to avoid auto redirection by @suwarnoong in #45
• [Integrate-1889] use sync param to grant or revoke roles by scopes by @suwarnoong in #55
• Jerome ng/1382 add competing cohort for cohort survival by @jerome-ng in #41
• [Analyze-1850] Add synpuf5pct demo notebook by @brandantck in #24
• [Adhoc] Upgrade gha setup-python ver by @mwaiyee in #52
• Fix managing altering versioned table by @satish-a0 in #44
• [Analyze 1886] Fix PA condition occurence id filter by @brandantck in #54
• [Analyze-1676] Fix and optimize concept hierarchy endpoint by @brandantck in #25
• [Devops-1875] npm package install and notify on daily cron by @mwaiyee in #53
• [Adhoc] show result in json formatting by @suwarnoong in #61
• Fix bug at fhir service by @csafreen in #63
• [Integrate-1498] show info for unmapped flow run result by @suwarnoong in #57
• [Integrate-1854] resize portal header to smaller by @suwarnoong in #60
• [KangJingA/integrate 1901] merge data mapping flow to white rabbit by @KangJingA in #65
• [Analyze-1637] Add source endpoint logic for d2e-webapi by @brandantck in #40
• mv trex/main to d2e by @p-hoffmann in #64
• Start fhir service by default on start:minerva by @csafreen in #62
• [KangJingA/integrate 1901] fix failing mapping build by @KangJingA in #66
• [Adhoc] Fix GHA install d2e by @mwaiyee in #59
• [internal-1640] remove logto-seed, run migrations in logto, use logto image from d2e/logto by @SantanM in #13
• [analyze-1817] Add import ATLAS cohort JSON by @khairul-syazwan in #42
• update trex by @p-hoffmann in #76
• FHIR Server: Use portal dataset token study code to create project by @csafreen in #78
• Fhir client credential flow: Add scope by @csafreen in #83
• Flow Ibis: Remove positional arguement by @csafreen in #86
• [Integrate-1851] add prefect blocks ui by @suwarnoong in #72
• Jerome ng/1879 improve search performance for duckdb by @jerome-ng in #77
• [data-1831-1832] Update flows documentation by @alicia-koh in #26
• [Integrate-1906] fix button hover & loading color by @suwarnoong in #84
• [Integrate-1852] add prefect variables ui by @suwarnoong in #80
• Optimize analytics config calls by @satish-a0 in #74
• Optimize terminology-svc by @satish-a0 in #22
• Jerome ng/1841 reduce min width filtercards section by @jerome-ng in #81
• Add authz tests by @jerome-ng in #92
• [KangJingA/integrate 1853] fix prefect code cursor by @KangJingA in #91
• [Integrate-1855] add route to prefect api docs by @suwarnoong in #85
• [Integrate-1854] fix logo center by @suwarnoong in #87
• [Integrate-1910] remove slot on UI, default slot name if pub is defined by @suwarnoong in #93
• [internal-1828] upgrade Strategus version, remove keyring creation and its references by @SantanM in #38
• [Analyze 1675] Add is excluded functionality for concept sets by @brandantck in #58
• [Devops-1869-1877] Add checkflow to cli by @mwaiyee in #79
• [Integrate-1908] rename db reader, mark sql query as stable by @suwarnoong in #89
• [Integrate-1851] fix blocks icon background color by @suwarnoong in #90
• Reduce flow base image size by @csafreen in #75
• [Analyze 1624] Add support for trex duckdb connection by @brandantck in #56
• [Devops-1930] GHA npm run checkflow by @mwaiyee in #100
• [KangJingA/integrate-1838] Integrate starboard with jupyter enterprise gateway by @KangJingA in #82
• [Integrate-1907] use suggested mapping by @suwarnoong in #102
• [internal 1873] Concept hybrid_search by @Zhimin-arya in #95
• [internal-1827] rD2E, jupyter-gateway and R OHDSI jupyter kernel by @SantanM in #94
• Update Trex by @p-hoffmann in #104
• fix ui plugin build by @KangJingA in #106
• Handle scenario for adding new dataset by @satish-a0 in #101
• LLM based Data Mapping by @amit-sharma-d4l in #69
• [data-1625-1626-1899-1836] Update dbdao to connect without specifying a schema by @alicia-koh in #98
• autoupdate prefect db credentials by @p-hoffmann in #109
• fix add db by @p-hoffmann in #111
• [KangJingA/start-jupyter-enterprise-gateway] by @KangJingA in #115
• Http test fail: Increase wait on start system services by @csafreen in #108
• [internal-1827] Job runner role with rd2e scope by @SantanM in #97
• Refactor cohort survival implementation to use DuckDB to use read user instead of admin by @jerome-ng in #103
• [KangJingA/add-dc-and-dqd-tags] by @KangJingA in #116
• [data-1942] Fix update schema msg by @alicia-koh in #119
• [Integrate-1941] publication only applicable for postgres by @suwarnoong in #117
• [Integrate-1939] rename label by @suwarnoong in #118
• push prod images to dockerhub by @p-hoffmann in #113
• [KangJingA/integra...

latest

fix cli build (#2)