changes to run services in openshift #478
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…onjob to work with openshift
Updated nginx.conf to use values from values.yaml for the pid file location and listen port. Added 'pidFile' to the nginx section in values.yaml to allow configuration of the pid file path.
Eliminates a redundant securityContext definition in the fence-deployment.yaml template, ensuring only a single securityContext is set for the pod spec.
make some changes to allow for persistent postgres storage, running charts with db's using tilt, GEAR-527, some updates to default values
Replaced custom HPA logic in amanuensis, gearbox, and gearbox-middleware Helm charts with a shared 'common.hpa' template for consistency and maintainability. Updated autoscaling configuration in values.yaml files: fixed typo 'minAvialable' to 'minAvailable', reduced maxReplicas from 100 to 10, and switched CPU/memory autoscaling from utilization percentage to average value.
Sync cdis pcdc
Introduced environment variables for database connection (DB_DATABASE, DB_HOST, DB_USER, DB_PASSWORD, DBREADY) sourced from the gearbox-dbcreds secret in values.yaml. This enables the application to securely access database credentials via Kubernetes secrets.
Sync: Upstream Master into pcdc_dev (2025-10-27)
Add DB credentials to environment variables
paulmurdoch19
commented
Dec 19, 2025
| # run arborist | ||
| /go/src/github.com/uc-cdis/arborist/bin/arborist | ||
| /go/src/github.com/uc-cdis/arborist/bin/arborist --port 8080 |
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run the arborist server on port 8080 instead of 80
paulmurdoch19
commented
Dec 19, 2025
| user {{ .Values.nginx.user }}; | ||
| worker_processes 4; | ||
| pid /var/run/nginx.pid; | ||
| pid {{ .Values.nginx.pidFile }}; |
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I made these variables in case the folder needs to be changed
paulmurdoch19
commented
Dec 19, 2025
| @@ -0,0 +1,27 @@ | |||
| {{- if .Values.openshiftRoute.enabled }} | |||
| apiVersion: route.openshift.io/v1 | |||
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This is an OpenShift resource that I believe is preferred over ingress
paulmurdoch19
commented
Dec 19, 2025
| # - chart-example.local | ||
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| # -- (map) Configuration for OpenShift Route. | ||
| openshiftRoute: |
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add values for the route resource
paulmurdoch19
commented
Dec 19, 2025
| # https://distinctplace.com/2017/04/19/nginx-resolver-explained/ | ||
| # | ||
| resolver kube-dns.kube-system.svc.cluster.local ipv6=off; | ||
| resolver {{ .Values.nginx.resolver }} ipv6=off; |
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I made this a variable since the value is different for openshift
paulmurdoch19
commented
Dec 19, 2025
| source "${GEN3_HOME}/gen3/lib/utils.sh" | ||
| gen3_load "gen3/gen3setup" | ||
| #source "${GEN3_HOME}/gen3/lib/utils.sh" | ||
| #gen3_load "gen3/gen3setup" |
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cant run this in openshift
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