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The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io>
update next dependencies to 15.2.4
add unrelated-histories information
* fix Docker not starting * fix Docker not starting
* update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase
* add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu>
* add Datadog/remove faro * remove Grafana
update gen3 to 0.11.19 and add footer links
* add GradioApp support * fix default
Update node to 24.14.0 and npm to 11.9.0
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* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update dockerfile --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com>
ocshawn
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Mar 12, 2026
* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * first update * update package-lock * first update * update explorer config --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Shawn O'Connor <ocshawn@ocshawn.com>
ocshawn
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Mar 12, 2026
* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * update gen3 to 0.11.18 --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com>
ocshawn
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Mar 12, 2026
* merge all changes back into master (#15) * initial setup changes setting homepage and logo (#3) * feat(gwasAppSetup): Initial commit (#5) * feat(gwasAppSetup): Initial commit * feat(gwasAppSetup): Fixed 508 issues * feat(gwasAppSetup): Got storybook to work and added CI test * feat(gwasAppSetup): Edited CI test to match Spike CI test * Chore/update 0.10.78 (#6) * Update/release 0 10 67 (#57) * update version to v0.10.61 * update version to v0.10.67 * update version to v0.10.67 * Update ci.yaml * update build to use start.sh for automation (#59) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * update to 0.10.73 (#63) * Chore/update docker (#64) * update Dockerfile * update .env files * Chore/update 0.10.74 (#66) * update Dockerfile * update .env files * update to gen3.2 0.10.74 * Added Loading.tsx component and integrated Suspense (#65) * Added Loading.tsx component and integrated Suspense * Moved Loading.tsx to components folder and updated _app.tsx * update to 0.10.77 (#67) * update to 0.10.78 (#68) --------- Co-authored-by: Shawn O'Connor <ocshawn@ocshawn.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Advaith Mahendrakar <120632885+AdvaithMahendrakar12@users.noreply.github.com> * VADC-1644: add test support for RTKQuery (#8) * add cohortAp and hooks * add teamProjectHooks.ts * setup jest test storybook with rtkQuery hooks * add test support for RTKQ add teamProjectHooks.test * clean up test * clean up test * add sharp * add sharp * update to 0.10.79 * revert CohortDefinitions refactor test-utils * add error to useProjectHooks * remove hook story * remove cohortApi to keep PR smaller * Update vadc email (#10) * Update navigation.json all email references that currently are vadc@lists.uchicago.edu → change to vadc-support@gen3.org * Update TeamProjectModal.tsx all email references that currently are vadc@lists.uchicago.edu → change to vadc-support@gen3.org * feat(resultsAppSetup): Commented out all JS files, deleted all CSS fi… (#11) * feat(resultsAppSetup): Commented out all JS files, deleted all CSS files and modified * feat(resultsAppSetup): renamed all .stories.jsx files to .oldStories.tsx * feat(resultsAppSetup): created placeholder setup for app * feat(resultsAppSetup): resolved ESLINT errors * feat(resultsAppSetup): fixed compilation error * feat(resultsAppSetup): updated files to avoid typescript errors * feat(resultsAppSetup): changed placeholder variable so it doesn't render in UI * VADC-1613: GWASUIApp: Phenotype Selection View (#13) Port GWASUIApp: Add Phenotype Selection View for selecting Outcome Phenotype and Covariate Phenotype to new framework. add lint-fix command to package json * Chore/merge base fork (#14) * Update/release 0 10 67 (#57) * update version to v0.10.61 * update version to v0.10.67 * update version to v0.10.67 * Update ci.yaml * update build to use start.sh for automation (#59) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * update to 0.10.73 (#63) * Chore/update docker (#64) * update Dockerfile * update .env files * Chore/update 0.10.74 (#66) * update Dockerfile * update .env files * update to gen3.2 0.10.74 * Added Loading.tsx component and integrated Suspense (#65) * Added Loading.tsx component and integrated Suspense * Moved Loading.tsx to components folder and updated _app.tsx * update to 0.10.77 (#67) * update to 0.10.78 (#68) * update to 0.10.79 (#71) add sharp add testing support * update to 0.10.80 (#73) * add mantine theme that uses config colors (#76) * add mantine theme that uses config colors * run lint fix --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * update to 0.10.81 (#77) * try and fix build * try and fix build --------- Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Advaith Mahendrakar <120632885+AdvaithMahendrakar12@users.noreply.github.com> * VADC-1646: cohort middleware api (#9) * add tests for cohortApi * add getSourceId query * add more queries * add more queries: histogram * add all used queries * add all used queries * add sample data to nextJS API routes * fix lint error * remove comma * VADC-1684: workflow api for the results app (#12) * start of workflowApi * add presigned URLs, monthly * add api endpoints for development/testing * add endpoint data and test * update test typing * add tests for presignedURLs * ad test for fetch from presigned url returns 401 * add documentation * fix name of cohortUtils.ts * fix bad conflict resolution --------- Co-authored-by: Shawn O'Connor <ocshawn@ocshawn.com> * add missing login image (#7) update first time use modal text Co-authored-by: Shawn O'Connor <ocshawn@ocshawn.com> --------- Co-authored-by: Jarvis <113449836+jarvisraymond-uchicago@users.noreply.github.com> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Advaith Mahendrakar <120632885+AdvaithMahendrakar12@users.noreply.github.com> Co-authored-by: smvgarcia <111767892+smvgarcia@users.noreply.github.com> * use old dockerfile (#16) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * update dockerfile (#17) * use old dockerfile * update dockerfile --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * add ff path for qa (#18) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * add ff path for qa (#19) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fix basepath for images in next (#20) * fix basepath for images in next * fix docker loading config file * fix loading of images that already have path added --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * bump gen3 version to 82 (#21) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Vadc data commons integration (#23) * update to eslint 9 (#78) * cleanup navigation to point ot pages, update gen3 to 0.10.82, rename workspace config (#79) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * lock fix --------- Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fix build errors (#24) * fix lint errors * fix build errors --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Fix/security (#25) * fix spacing issues for precommit * fix exeptions for precommit --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * upstream update (#26) * update to eslint 9 (#78) * cleanup navigation to point ot pages, update gen3 to 0.10.82, rename workspace config (#79) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fixs for precommit security check * fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) --------- Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> * Chore/upstream update (#27) * update to eslint 9 (#78) * cleanup navigation to point ot pages, update gen3 to 0.10.82, rename workspace config (#79) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fixs for precommit security check * fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) --------- Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * VADC-1741: add atlas page (#28) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * npm cleanup and remove ff directory (#29) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * update ContentDatabase paths (#93) * Chore/fork sync (#30) * update to eslint 9 (#78) * cleanup navigation to point ot pages, update gen3 to 0.10.82, rename workspace config (#79) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fixs for precommit security check * fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * overwrite dockerfile q :q exit help end * dockerfile fix --------- Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> * VADC-1740: update storybook (#32) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Set up user permission for Apps on QA (#33) * VADC-1755: setup permision for atlas * VADC-1755: setup permision for Gen3 GWAS --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * point atlas to correct url (#34) * point atlas to correct url (#35) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fix env dev file (#36) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * update to 0.10.91 (uc-cdis#96) * atlas fix iframe url (#37) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * VADC-1670: Results App Page Setup (#38) * fix version to 0.10.91 (uc-cdis#97) * VADC-1761: change how user refresh is triggered (#39) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * update to 0.10.92 (uc-cdis#104) * update Gen3 FF to 0.10.92 (#43) * update to eslint 9 (#78) * cleanup navigation to point ot pages, update gen3 to 0.10.82, rename workspace config (#79) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fixs for precommit security check * fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * fix syntax * revert navigation * remove duplicates/fix name --------- Co-authored-by: Shawn O'Connor <ocshawn@ocshawn.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> * add dataLibrary config (#44) * (VADC-1776): Update logo and text on home page (#49) * VADC-1776: Update logo and text on home page * add VA logo to footer --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * VADC-1776: Make VA logo smaller file (#50) * Remove va footer logo (#52) Remove va footer logo * VADC-1781: update logo (#53) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * (CADC-1664): GWASResults: Hometable Initial Setup (#55) * GWASResults: Hometable Initial Setup * fix Team Project selector * add back button to apps * fix iframe url on OHDSI Atlas * CADC-1787: add OCC logo to footer (#56) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * Feat: add PLP app steps and fix CSRF issue (#51) New Features Initial version of PLP steps in frontend-framework. Includes PLP Attrition table and integration with argo-wrapper /submit endpoint Bug Fixes adds missing 'x-csrf-token': csrfToken, header (needed for POST requests) Deployment changes depends on specific versions of cohort-middleware and argo-wrapper (TODO - add release numbers) * (CADC-1666): Create Input Details Page (#59) * CADC-1666: Create Input Details Page * CADC-1666: Job Details Table (#61) * CADC-1796: Remove the word GWAS and change the URL (#63) * CADC-1671: Results App Page Download Buttons (#62) * (CADC-1801): add a logo to the browser tab too for QA (#64) * Feat/plp improvements (#60) * feat: multiple improvments to PLP app - add remaining size, training set and test set sizes to submit modal - limit test set relative size - update Randomforest parameters - add CommaSeparatedNumberInput type with tooltip - add labels and better styling - add Lasso parameters and improve the RandomForest ones - introduce multiselect for CRITERION - add SVM model option * feat: improve SVM form * feat: improve checkbox style in LassoParameters * fix: add back "seed" field * feat: added real state and dispatch to SelectModelAndParameters storybook * tmp: temporarily setting session update time to 30min instead of 5min to test... * fix: change arguments to arrays instead of csv strings * fix: change initial value of percentageOfDataToUseAsTest to null * fix: adjust testset size calculation * fix: adjust code to deal with percentageOfDataToUseAsTest being empty * fix: show -- for empty date * fix: set default model parameters at mount/init * feat: update PLP icon * fix: fix the finishedAt date in results table for running workflows * fix: fix wofklow details endpoint usage; remove "observation" from outcome window * small card text changes * fix: adjust RandomForest params * fix: change MAX_LEAF_NODES to number * Update ResourceBrowser.tsx (#67) * fix: remove prefix from team project name display * fix: improve MAX_SAMPLES in RandomForest params page * fix: change MAX_LEAF_NODES to list type * feat: enable ResultsPng * tmp: change BOOTSTRAP bool to list[] * fix: add some basic image src check * fix: add snyk comment / ignore * feat: convert ResultsPng to TS * feat: working mock endpoint for plot * feat: better styling for results plot * feat: move download all button to right side * fix: change last 3 params of RandomForest to lists * fix: fix the quoted numbers problem * feat: support other roc plots in results * fix: fix for SVM parameters that should be a list * feat: add back button; restore .trim() * fix: fix accessibility issue in tab list by removing spaces from value used in ARIA * feat: remove unused image * feat: add better mock plot * tmp: testing short updateSessionTime --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Andrew Prokhorenkov <aprokh@uchicago.edu> * (CADC-1814): Add Analysis tab for Notebooks * update git node version * update gen3 to 0.11.11 * Upstream integration (#71) * update to eslint 9 (#78) * cleanup navigation to point ot pages, update gen3 to 0.10.82, rename workspace config (#79) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fixs for precommit security check * fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update package lock * update docker * update docker and node ci version * update package lock * update gen3 --------- Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> * Upstream integration (#72) * update to eslint 9 (#78) * cleanup navigation to point ot pages, update gen3 to 0.10.82, rename workspace config (#79) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * fixs for precommit security check * fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * update pacage lock --------- Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * CADC-1823: UI refreshing too often on protected content pages (#73) * CADC-1823: reset sessionConfig to defalt values (#74) * CADC-1824: Remove notebooks from the Analysis tab in QA (#75) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * CADC-1826: Workspaces- 'no pay model' (#76) Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * (CADC-1821): Incorporate caps bar on PLP App and Results App (#77) * update gen3 to 0.11.18 * fix placement of workflow info (#78) * update gen3 to 0.11.19 and add footer links * add PLP notebook to analysis page (#80) Co-authored-by: sara volk de garcia <smvgarcia@uchicago.edu> * Update analysisTools.json (#81) * update to 0.11.27 to fix logout issue (#82) * fix(submit): No dashes in model name (#83) * Update JobSubmitModal.tsx (#84) * (CADC-1853): Add runtime to results app (#85) * CADC-1853: Add runtime to results app * CADC-1853: fix storybook ada error --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * CADC-1881: PLP Fix Frontend not passing model parameters (#86) * update to Gen3 FEF 0.11.43 (uc-cdis#127) * add GradioApp support (uc-cdis#128) * add GradioApp support * fix default * update dependencies * update more dependencies * update more dependencies * cleanup unused files * fix build * feat: upgrade storybook to v9 note: these changes were made automatically by the upgrade script `npx storybook@latest upgrade` * roll back changes for ada * disab le a11y * disable stories * cleanup * cleanup * remove dd app --------- Co-authored-by: Jarvis <113449836+jarvisraymond-uchicago@users.noreply.github.com> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Advaith Mahendrakar <120632885+AdvaithMahendrakar12@users.noreply.github.com> Co-authored-by: smvgarcia <111767892+smvgarcia@users.noreply.github.com> Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: pieterlukasse <pieterlukasse@gmail.com> Co-authored-by: Andrew Prokhorenkov <aprokh@uchicago.edu> Co-authored-by: sara volk de garcia <smvgarcia@uchicago.edu> Co-authored-by: J. Q. <55899496+jawadqur@users.noreply.github.com> Co-authored-by: vzpgb <45467497+vzpgb@users.noreply.github.com>
ocshawn
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* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * update gen3 to 0.11.18 * update gen3 to 0.11.19 and add footer links * update to Gen3 FEF 0.11.43 (uc-cdis#127) * add GradioApp support (uc-cdis#128) * add GradioApp support * fix default * update dependencies * update more dependencies * update more dependencies * add the hugging face apps (uc-cdis#129) * update tailwind paths for Gen3/frontend (uc-cdis#136) * fix default * update package-lock * fix build error * remove gradio * remove older tailwind path * update gen3 version and package lock * update gen3 to 0.11.47 * update gen3 to 0.11.48 remove unneeded cookies-next * place favicon back '' * fix build errors * fix build errors by sorting out dependencies --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com>
ocshawn
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* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * update gen3 to 0.11.18 * update gen3 to 0.11.19 and add footer links * update to Gen3 FEF 0.11.43 (uc-cdis#127) * add GradioApp support (uc-cdis#128) * add GradioApp support * fix default * update dependencies * update more dependencies * update more dependencies * add the hugging face apps (uc-cdis#129) * update tailwind paths for Gen3/frontend (uc-cdis#136) * fix default * update package-lock * fix build error * remove gradio * remove older tailwind path * update gen3 version and package lock * update gen3 to 0.11.47 * update gen3 to 0.11.48 remove unneeded cookies-next * Feat/footer (uc-cdis#139) * add the hugging face apps * Update README for clarity on Gen3 Data Commons * update development configuration * darken footer * partially revert footer changed (uc-cdis#140) * update docker image for faster builds (uc-cdis#141) * Changes to landingPage (uc-cdis#142) * Revert landingPage change (uc-cdis#143) * Update from old Gen3 Docs to new Gen3 Docs link (uc-cdis#146) * Update Gen3 docs link Update the default Documentation link from the old Gen3 docs site (https://gen3.org/resources/user/) to the new Gen3 docs site (https://docs.gen3.org/) * Update to new docs link Change the workspace docs reference from the old docs (https://gen3.org/resources/user/analyze-data/) to the new docs (https://docs.gen3.org/gen3-resources/user-guide/analyze-data/) * Update to v0.11.58 (uc-cdis#147) * add height to tailwind config * add package * add height to tailwind config * update to 0.11.55 * update deps * update to v0.11.58 * update to 0.11.59 (uc-cdis#148) * package lock update * revert unentended changes * revert unentended changes * update package lock * update ci file --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Co-authored-by: smvgarcia <111767892+smvgarcia@users.noreply.github.com>
ocshawn
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Mar 12, 2026
* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * update gen3 to 0.11.18 * update gen3 to 0.11.19 and add footer links * update to Gen3 FEF 0.11.43 (uc-cdis#127) * add GradioApp support (uc-cdis#128) * add GradioApp support * fix default * update dependencies * update more dependencies * update more dependencies * add the hugging face apps (uc-cdis#129) * update tailwind paths for Gen3/frontend (uc-cdis#136) * fix default * update package-lock * fix build error * remove gradio * remove older tailwind path * update gen3 version and package lock * update gen3 to 0.11.47 * update gen3 to 0.11.48 remove unneeded cookies-next * Feat/footer (uc-cdis#139) * add the hugging face apps * Update README for clarity on Gen3 Data Commons * update development configuration * darken footer * partially revert footer changed (uc-cdis#140) * update docker image for faster builds (uc-cdis#141) * Changes to landingPage (uc-cdis#142) * Revert landingPage change (uc-cdis#143) * Update from old Gen3 Docs to new Gen3 Docs link (uc-cdis#146) * Update Gen3 docs link Update the default Documentation link from the old Gen3 docs site (https://gen3.org/resources/user/) to the new Gen3 docs site (https://docs.gen3.org/) * Update to new docs link Change the workspace docs reference from the old docs (https://gen3.org/resources/user/analyze-data/) to the new docs (https://docs.gen3.org/gen3-resources/user-guide/analyze-data/) * Update to v0.11.58 (uc-cdis#147) * add height to tailwind config * add package * add height to tailwind config * update to 0.11.55 * update deps * update to v0.11.58 * update to 0.11.59 (uc-cdis#148) * update node version in ci * update to nextjs 15.5.7 (uc-cdis#153) --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Co-authored-by: smvgarcia <111767892+smvgarcia@users.noreply.github.com>
ocshawn
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Mar 12, 2026
* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * update gen3 to 0.11.18 * update gen3 to 0.11.19 and add footer links * update to Gen3 FEF 0.11.43 (uc-cdis#127) * add GradioApp support (uc-cdis#128) * add GradioApp support * fix default * update dependencies * update more dependencies * update more dependencies * add the hugging face apps (uc-cdis#129) * update tailwind paths for Gen3/frontend (uc-cdis#136) * fix default * update package-lock * fix build error * remove gradio * remove older tailwind path * update gen3 version and package lock * update gen3 to 0.11.47 * update gen3 to 0.11.48 remove unneeded cookies-next * Feat/footer (uc-cdis#139) * add the hugging face apps * Update README for clarity on Gen3 Data Commons * update development configuration * darken footer * partially revert footer changed (uc-cdis#140) * update docker image for faster builds (uc-cdis#141) * Changes to landingPage (uc-cdis#142) * Revert landingPage change (uc-cdis#143) * Update from old Gen3 Docs to new Gen3 Docs link (uc-cdis#146) * Update Gen3 docs link Update the default Documentation link from the old Gen3 docs site (https://gen3.org/resources/user/) to the new Gen3 docs site (https://docs.gen3.org/) * Update to new docs link Change the workspace docs reference from the old docs (https://gen3.org/resources/user/analyze-data/) to the new docs (https://docs.gen3.org/gen3-resources/user-guide/analyze-data/) * Update to v0.11.58 (uc-cdis#147) * add height to tailwind config * add package * add height to tailwind config * update to 0.11.55 * update deps * update to v0.11.58 * update to 0.11.59 (uc-cdis#148) * update node version in ci * update to nextjs 15.5.7 (uc-cdis#153) * Add Authz Middleware (uc-cdis#156) * update to new auth model * update to 0.12.0 * Setup for data dog * Add missing icons and update tailwind config (uc-cdis#158) * add missing icons * update app with dataDog * update tailwind config * update tailwind config * refactor data dog * update to NextJS 15.5.9 (uc-cdis#162) * add missing config file * fix merge errors --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Co-authored-by: smvgarcia <111767892+smvgarcia@users.noreply.github.com>
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Mar 12, 2026
* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * update gen3 to 0.11.18 * update gen3 to 0.11.19 and add footer links * update to Gen3 FEF 0.11.43 (uc-cdis#127) * add GradioApp support (uc-cdis#128) * add GradioApp support * fix default * update dependencies * update more dependencies * update more dependencies * add the hugging face apps (uc-cdis#129) * update tailwind paths for Gen3/frontend (uc-cdis#136) * fix default * update package-lock * fix build error * remove gradio * remove older tailwind path * update gen3 version and package lock * update gen3 to 0.11.47 * update gen3 to 0.11.48 remove unneeded cookies-next * Feat/footer (uc-cdis#139) * add the hugging face apps * Update README for clarity on Gen3 Data Commons * update development configuration * darken footer * partially revert footer changed (uc-cdis#140) * update docker image for faster builds (uc-cdis#141) * Changes to landingPage (uc-cdis#142) * Revert landingPage change (uc-cdis#143) * Update from old Gen3 Docs to new Gen3 Docs link (uc-cdis#146) * Update Gen3 docs link Update the default Documentation link from the old Gen3 docs site (https://gen3.org/resources/user/) to the new Gen3 docs site (https://docs.gen3.org/) * Update to new docs link Change the workspace docs reference from the old docs (https://gen3.org/resources/user/analyze-data/) to the new docs (https://docs.gen3.org/gen3-resources/user-guide/analyze-data/) * Update to v0.11.58 (uc-cdis#147) * add height to tailwind config * add package * add height to tailwind config * update to 0.11.55 * update deps * update to v0.11.58 * update to 0.11.59 (uc-cdis#148) * update node version in ci * update to nextjs 15.5.7 (uc-cdis#153) * Add Authz Middleware (uc-cdis#156) * update to new auth model * update to 0.12.0 * Setup for data dog * Add missing icons and update tailwind config (uc-cdis#158) * add missing icons * update app with dataDog * update tailwind config * update tailwind config * refactor data dog * update to NextJS 15.5.9 (uc-cdis#162) * Add linkWithIconAndTooltip custom cell renderer (uc-cdis#166) * fix a bug when app page is not found react expecting null * Update middleware to use code generation (uc-cdis#167) * update to NextJS 15.5.9 * fix fetchArboristResources to use the correct endpoint * get working scanPaths and update middleware * set NODE_ENV for dev and prod builds * update to 0.12.5 * update to 0.12.5 * new package-lock.json * add package lock * new package-lock.json part 2 * update dependencies * update dependencies (uc-cdis#169) * update dependencies (uc-cdis#171) * update gen3 to 12.10 * fix storybook --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Co-authored-by: smvgarcia <111767892+smvgarcia@users.noreply.github.com> Co-authored-by: Pauline Ribeyre <4224001+paulineribeyre@users.noreply.github.com>
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Mar 12, 2026
* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * update gen3 to 0.11.18 * update gen3 to 0.11.19 and add footer links * update to Gen3 FEF 0.11.43 (uc-cdis#127) * add GradioApp support (uc-cdis#128) * add GradioApp support * fix default * update dependencies * update more dependencies * update more dependencies * add the hugging face apps (uc-cdis#129) * update tailwind paths for Gen3/frontend (uc-cdis#136) * fix default * update package-lock * fix build error * remove gradio * remove older tailwind path * update gen3 version and package lock * update gen3 to 0.11.47 * update gen3 to 0.11.48 remove unneeded cookies-next * Feat/footer (uc-cdis#139) * add the hugging face apps * Update README for clarity on Gen3 Data Commons * update development configuration * darken footer * partially revert footer changed (uc-cdis#140) * update docker image for faster builds (uc-cdis#141) * Changes to landingPage (uc-cdis#142) * Revert landingPage change (uc-cdis#143) * Update from old Gen3 Docs to new Gen3 Docs link (uc-cdis#146) * Update Gen3 docs link Update the default Documentation link from the old Gen3 docs site (https://gen3.org/resources/user/) to the new Gen3 docs site (https://docs.gen3.org/) * Update to new docs link Change the workspace docs reference from the old docs (https://gen3.org/resources/user/analyze-data/) to the new docs (https://docs.gen3.org/gen3-resources/user-guide/analyze-data/) * Update to v0.11.58 (uc-cdis#147) * add height to tailwind config * add package * add height to tailwind config * update to 0.11.55 * update deps * update to v0.11.58 * update to 0.11.59 (uc-cdis#148) * update node version in ci * update to nextjs 15.5.7 (uc-cdis#153) * Add Authz Middleware (uc-cdis#156) * update to new auth model * update to 0.12.0 * Setup for data dog * Add missing icons and update tailwind config (uc-cdis#158) * add missing icons * update app with dataDog * update tailwind config * update tailwind config * refactor data dog * update to NextJS 15.5.9 (uc-cdis#162) * Add linkWithIconAndTooltip custom cell renderer (uc-cdis#166) * fix a bug when app page is not found react expecting null * Update middleware to use code generation (uc-cdis#167) * update to NextJS 15.5.9 * fix fetchArboristResources to use the correct endpoint * get working scanPaths and update middleware * set NODE_ENV for dev and prod builds * update to 0.12.5 * update to 0.12.5 * new package-lock.json * add package lock * new package-lock.json part 2 * update dependencies * update dependencies (uc-cdis#169) * update dependencies (uc-cdis#171) * update gen3 to 12.10 * update to node24 (uc-cdis#173) * Remove authz_default.json (uc-cdis#176) * remove support for authz_default.json and update tools to fail if @gen3/toolsff not built or fails * update to @gen3 0.12.12, remove authz record from workspace entry * dont load datadog if values are not set, add comment for adding values * fix node version * update lock --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Co-authored-by: smvgarcia <111767892+smvgarcia@users.noreply.github.com> Co-authored-by: Pauline Ribeyre <4224001+paulineribeyre@users.noreply.github.com>
Add dependabot for frontend packages
…ed_repo Update integration_tests.yaml
This reverts commit b2e0c7f.
ocshawn
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Mar 13, 2026
* fix: package.json & package-lock.json to reduce vulnerabilities (#82) The following vulnerabilities are fixed with an upgrade: - https://snyk.io/vuln/SNYK-JS-NEXT-9508709 Co-authored-by: snyk-bot <snyk-bot@snyk.io> * update next dependencies to 15.2.4 * Update README.md (#84) * update to @gen3/ff 0.10.85 (#85) * Update README.md (#86) add unrelated-histories information * Fix docker start (#88) * fix Docker not starting * fix Docker not starting * update env files (#89) * Release 0.10.89 (#91) * update to 0.10.89 * update to 0.10.89 * remove old config files/images * update ContentDatabase * update ContentDatabase paths (#93) * update apps config path (uc-cdis#94) * add theme colors into safelist (uc-cdis#95) * update to 0.10.91 (uc-cdis#96) * fix version to 0.10.91 (uc-cdis#97) * update to 0.10.92 (uc-cdis#104) * update to node 22.11, gen3FF 0.10.94 (uc-cdis#107) * update git node version * update gen3 to 0.11.11 * add favicon (uc-cdis#109) * add favicon * add favicon --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Add Datadog/remove faro (uc-cdis#105) * add Datadog/remove faro * remove Grafana * update gen3 to 0.11.18 * update gen3 to 0.11.19 and add footer links * update to Gen3 FEF 0.11.43 (uc-cdis#127) * add GradioApp support (uc-cdis#128) * add GradioApp support * fix default * update dependencies * update more dependencies * update more dependencies * add the hugging face apps (uc-cdis#129) * update tailwind paths for Gen3/frontend (uc-cdis#136) * fix default * update package-lock * fix build error * remove gradio * remove older tailwind path * update gen3 version and package lock * update gen3 to 0.11.47 * update gen3 to 0.11.48 remove unneeded cookies-next * Feat/footer (uc-cdis#139) * add the hugging face apps * Update README for clarity on Gen3 Data Commons * update development configuration * darken footer * partially revert footer changed (uc-cdis#140) * update docker image for faster builds (uc-cdis#141) * Changes to landingPage (uc-cdis#142) * Revert landingPage change (uc-cdis#143) * Update from old Gen3 Docs to new Gen3 Docs link (uc-cdis#146) * Update Gen3 docs link Update the default Documentation link from the old Gen3 docs site (https://gen3.org/resources/user/) to the new Gen3 docs site (https://docs.gen3.org/) * Update to new docs link Change the workspace docs reference from the old docs (https://gen3.org/resources/user/analyze-data/) to the new docs (https://docs.gen3.org/gen3-resources/user-guide/analyze-data/) * Update to v0.11.58 (uc-cdis#147) * add height to tailwind config * add package * add height to tailwind config * update to 0.11.55 * update deps * update to v0.11.58 * update to 0.11.59 (uc-cdis#148) * update node version in ci * update to nextjs 15.5.7 (uc-cdis#153) * Add Authz Middleware (uc-cdis#156) * update to new auth model * update to 0.12.0 * Setup for data dog * Add missing icons and update tailwind config (uc-cdis#158) * add missing icons * update app with dataDog * update tailwind config * update tailwind config * refactor data dog * update to NextJS 15.5.9 (uc-cdis#162) * Add linkWithIconAndTooltip custom cell renderer (uc-cdis#166) * fix a bug when app page is not found react expecting null * Update middleware to use code generation (uc-cdis#167) * update to NextJS 15.5.9 * fix fetchArboristResources to use the correct endpoint * get working scanPaths and update middleware * set NODE_ENV for dev and prod builds * update to 0.12.5 * update to 0.12.5 * new package-lock.json * add package lock * new package-lock.json part 2 * update dependencies * update dependencies (uc-cdis#169) * update dependencies (uc-cdis#171) * update gen3 to 12.10 * update to node24 (uc-cdis#173) * Remove authz_default.json (uc-cdis#176) * remove support for authz_default.json and update tools to fail if @gen3/toolsff not built or fails * update to @gen3 0.12.12, remove authz record from workspace entry * dont load datadog if values are not set, add comment for adding values * Update copyright year and owner in LICENSE file (uc-cdis#181) * Change license to Apache Software License 2.0 (uc-cdis#182) Updated the license to Apache Software License 2.0 and modified copyright year. * Bump Node.js version to 24.13.0 and update Dockerfile and CI workflow accordingly. (uc-cdis#185) * GFF-281: pull config and mount on volume (uc-cdis#98) * update Dockerfile * update hostname * update hostname * update hostname * update hostname * update hostname * update labnding page * update landing page * update middleware config and Dockerfile * add Dockerfile.main and update workflow to specify Dockerfile location * bump dependencies to version 0.12.16 and update Dockerfile with volume configuration changes * add header metadata configuration file for Gen3 Data Commons * update start script, middleware config, and Dockerfile for standalone server setup and permissions adjustments * update start script and Dockerfile for standalone Next.js server, add config and public directories, and adjust permissions * update start script and Dockerfile for standalone Next.js server, add config and public directories, and adjust permissions * update workflow to use Dockerfile.config and add new icons to gen3.json config * update icons * update workflow to include override tag name and add deployment instructions to documentation * bump dependencies to version 0.12.17 * add debug log to print Datadog application ID environment variable * integrate Datadog initialization with public runtime configuration inputs * remove unnecessary debug logs and update middleware matcher configuration * Associate Tailwind theme names to mantine CSS variables and load theme dynamically. (uc-cdis#187) * Add initial configuration for Canine Data Commons Co-authored-by: craigrbarnes <craigrbarnes@uchicago.edu> * Refactor Mantine theme handling to dynamically support CSS variables and theme merging * remove canine config * Remove CSS variables support and related environment configuration * Remove debugging console logs from Tailwind config * Update LICENSE to include full Apache License v2.0 text --------- Co-authored-by: craigrbarnes <craigrbarnes@uchicago.edu> * update gen3 to 0.12.22 * update version number * Update discovery.json (uc-cdis#189) Update docs links to use new Gen3 docs sites * Add Test Config for CI (uc-cdis#186) * Add Test Config for CI * Add fix * revery ci * Fix * Set `NODE_ENV` to `test` in Dockerfile.test * Update image name for test * Add compute_tag job * Add integration tests * File issue * Reduce workflows * Revert the change * Merge into single workflow * Revert change * Update integration_tests.yaml * Switch to `start_with_config.sh` for Dockerfile.config, update shell to Bash in start.sh, standardize `npm prune` flags in Dockerfiles. --------- Co-authored-by: craigrbarnes <craig.barnes@intelligentlight.com> * Skip CI image build and integration tests for forked repository (uc-cdis#191) * Skip CI image build and integration tests for forked repository * Update integration_tests.yaml * Update ci_image_build_push.yaml * Add API rewrites for development environment and bump Gen3 dependencies to v0.12.24 (uc-cdis#192) * Add API rewrites for development environment and bump Gen3 dependencies to v0.12.24 * Remove unused `CustomRowRenderers` and associated registration logic * Add configuration for clinical data analysis and update Gen3 explorer settings - Introduced `clinicalDataAnalysis.json` and `analysisTools.json` for supporting clinical and cohort analysis. - Updated `explorer.json` with new fields, tabs, and chart configurations for subjects and files. - Adjusted development environment API settings. * Bump `lodash` and `@types/lodash` to v4.17.23 * Fix workflow fork check * Update package lock remove victory and validator (uc-cdis#196) * Update package lock remove victory and validator * add back victory --------- Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> * Update to version 0.12.25 (uc-cdis#197) * Update to version 0.12.25 * Bump version to 0.12.26 and update dependencies to use local . Rename `GdcApp` to `Gen3App` in `[appName].tsx`. * Bump version to 0.12.26 and update dependencies to use local . Rename `GdcApp` to `Gen3App` in `[appName].tsx`. * Bump `@gen3/core` and `@gen3/frontend` to version 0.12.26 and update `package-lock.json`. * Update node to 24.14.0 and npm to 11.9.0 * Add dependabot for frontend packages * Update update_dependencies.yaml * update to Gen3 0.12.27 (uc-cdis#202) * add missing config files * Update integration_tests.yaml * possable build fix * possable build fix * possable build fix * test fix for non gen3 directory builds * fix spacing * Fix dependabot failures (uc-cdis#205) * fix build ? * Revert "fix build ?" This reverts commit b2e0c7f. * fix build ?2 --------- Co-authored-by: cmlsn <100160785+cmlsn@users.noreply.github.com> Co-authored-by: snyk-bot <snyk-bot@snyk.io> Co-authored-by: Shawn O'Connor <shawnoconnor@uchicago.edu> Co-authored-by: Craig Barnes <craig.barnes@intelligentlight.com> Co-authored-by: Krishna Agarwal <159047652+krishnaa05@users.noreply.github.com> Co-authored-by: smvgarcia <111767892+smvgarcia@users.noreply.github.com> Co-authored-by: Pauline Ribeyre <4224001+paulineribeyre@users.noreply.github.com> Co-authored-by: craigrbarnes <craigrbarnes@uchicago.edu> Co-authored-by: krishna <krishnaa@uchicago.edu>
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Chore sync upstream 2026-03-11