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sync pcdc with cdis and changes for running with gen3 in cloud#60

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grugna merged 448 commits into
pcdc_devfrom
pcdc-test
May 12, 2026
Merged

sync pcdc with cdis and changes for running with gen3 in cloud#60
grugna merged 448 commits into
pcdc_devfrom
pcdc-test

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@paulmurdoch19
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this is the branch I used to run pcdc and gearbox in aws with gen3-terrafom as well as locally. you can ignore all the files that are not our specific charts as those are just sync with upstream.

emalinowski and others added 30 commits February 17, 2026 13:16
* setting agg mds job to default "false"

* lint fix
…rator. (uc-cdis#514)

* Creating proper resoures to allow for GCP to use External Secrets Operator.

* updating common chart

* version bump

* version bump

* updating logic

* syntax fix

* lint fix
update docs link to point to new Gen3 docs
update docs links to new gen3 docs site
update docs link to point to new docs site
update old support email address to new @gen3.org address
Update docs links to new Gen3 docs site
…#528)

* add info to indexd prefix comment

Add explanation that the slash after the prefix is required

* Update Chart.yaml

increment indexd chart version

* Update Chart.yaml

increment indexd dep version and gen3 chart version

* Update README.md

increment gen3 version

* Update README.md

increment indexd version and update prefix comment

* Update common dependency version to 0.1.33

---------

Co-authored-by: EliseCastle23 <109446148+EliseCastle23@users.noreply.github.com>
 - includes "create fence client" step for ohdsi-webapi
paulineribeyre and others added 24 commits April 24, 2026 09:39
Update funnel network policies to enable task isolation and secure hosts
…migration

Add single table indexd migration job
fix(karpenter-alias): Updated karpenter to allow usage of an ami alias
Fix: set readinessProbe.address to "" so the healthz server binds on all  interfaces
Update default Helm values: bump multiple service images and tags (arborist, fence, revproxy/nginx, gearbox, gearbox-middleware, guppy, pcdcanalysistools, peregrine, portal/windmill, sheepdog) and align pullPolicies. Disable gearbox by default and remove numerous volume/volumeMount and podSecurityContext entries to simplify dev defaults. Update pcdc globals (dictionaryUrl -> 20260113, add arborist/manifest/fence URLs) and add amanuensis configuration and enablement. Also adjust amanuensis image/pullPolicy and fence USER_YAML/tag changes to use fence 3.8.4. These changes streamline local/dev Helm defaults and prepare services for 2026 image versions.
@grugna
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grugna commented May 12, 2026

@paulmurdoch19 is this the one including the changes Ed worked on?

@paulmurdoch19
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@grugna yes I merged Ed's work into this

@grugna grugna merged commit 1f2df61 into pcdc_dev May 12, 2026
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@grugna grugna deleted the pcdc-test branch May 12, 2026 18:17
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