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commit
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@ -0,0 +1,9 @@
|
||||
dependencies:
|
||||
- name: postgresql
|
||||
repository: oci://registry-1.docker.io/bitnamicharts
|
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version: 16.5.5
|
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- name: common
|
||||
repository: oci://registry-1.docker.io/bitnamicharts
|
||||
version: 2.30.0
|
||||
digest: sha256:c114b296b53007a7973260de8bad61917fe741c0ad9de15fdbeea5743c8f4910
|
||||
generated: "2025-03-21T21:44:22.334197366+01:00"
|
||||
34
hapi-fhir-jpaserver/charts/hapi-fhir-jpaserver/Chart.yaml
Normal file
34
hapi-fhir-jpaserver/charts/hapi-fhir-jpaserver/Chart.yaml
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|
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apiVersion: v2
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name: hapi-fhir-jpaserver
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description: A Helm chart for deploying the HAPI FHIR JPA server starter on Kubernetes.
|
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type: application
|
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home: https://github.com/hapifhir/hapi-fhir-jpaserver-starter
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sources:
|
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- https://github.com/hapifhir/hapi-fhir-jpaserver-starter
|
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dependencies:
|
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- name: postgresql
|
||||
version: 16.5.5
|
||||
repository: oci://registry-1.docker.io/bitnamicharts
|
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condition: postgresql.enabled
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||||
- name: common
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||||
repository: oci://registry-1.docker.io/bitnamicharts
|
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version: 2.30.0
|
||||
appVersion: 8.0.0
|
||||
version: 0.19.0
|
||||
annotations:
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artifacthub.io/license: Apache-2.0
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artifacthub.io/containsSecurityUpdates: "false"
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artifacthub.io/operator: "false"
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artifacthub.io/prerelease: "false"
|
||||
artifacthub.io/recommendations: |
|
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- url: https://artifacthub.io/packages/helm/prometheus-community/kube-prometheus-stack
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- url: https://artifacthub.io/packages/helm/bitnami/postgresql
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artifacthub.io/changes: |
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# When using the list of objects option the valid supported kinds are
|
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# added, changed, deprecated, removed, fixed, and security.
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- kind: changed
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description: "updated postgresql sub-chart to 16.5.5"
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- kind: changed
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description: "updated curlimages/curl to 8.12.1"
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- kind: changed
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description: "updated hapiproject/hapi to v8.0.0-1"
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150
hapi-fhir-jpaserver/charts/hapi-fhir-jpaserver/README.md
Normal file
150
hapi-fhir-jpaserver/charts/hapi-fhir-jpaserver/README.md
Normal file
@ -0,0 +1,150 @@
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# HAPI FHIR JPA Server Starter Helm Chart
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This helm chart will help you install the HAPI FHIR JPA Server in a Kubernetes environment.
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## Sample usage
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|
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```sh
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helm repo add hapifhir https://hapifhir.github.io/hapi-fhir-jpaserver-starter/
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helm install hapi-fhir-jpaserver hapifhir/hapi-fhir-jpaserver
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```
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## Requirements
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| Repository | Name | Version |
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|------------|------|---------|
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| oci://registry-1.docker.io/bitnamicharts | common | 2.30.0 |
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| oci://registry-1.docker.io/bitnamicharts | postgresql | 16.5.5 |
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|
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## Values
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|
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| Key | Type | Default | Description |
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|-----|------|---------|-------------|
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| affinity | object | `{}` | pod affinity |
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| deploymentAnnotations | object | `{}` | annotations applied to the server deployment |
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| externalDatabase.database | string | `"fhir"` | database name |
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| externalDatabase.existingSecret | string | `""` | name of an existing secret resource containing the DB password in the `existingSecretKey` key |
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| externalDatabase.existingSecretKey | string | `"postgresql-password"` | name of the key inside the `existingSecret` |
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| externalDatabase.host | string | `"localhost"` | external database host used with `postgresql.enabled=false` |
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| externalDatabase.password | string | `""` | database password |
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| externalDatabase.port | int | `5432` | database port number |
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| externalDatabase.user | string | `"fhir"` | username for the external database |
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| extraConfig | string | `""` | additional Spring Boot application config. Mounted as a file and automatically loaded by the application. |
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| extraEnv | list | `[]` | extra environment variables to set on the server container |
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| extraVolumeMounts | list | `[]` | Optionally specify extra list of additional volumeMounts |
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| extraVolumes | list | `[]` | Optionally specify extra list of additional volumes |
|
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| fullnameOverride | string | `""` | override the chart fullname |
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| image.pullPolicy | string | `"IfNotPresent"` | image pullPolicy to use |
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| image.registry | string | `"docker.io"` | registry where the HAPI FHIR server image is hosted |
|
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| image.repository | string | `"hapiproject/hapi"` | the path inside the repository |
|
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| image.tag | string | `"v8.0.0-1@sha256:9fbac7b012b4be91ba481e7008f1353ede4598bc99a36f3902b8abf873e70ed8"` | the image tag. As of v5.7.0, this is the `distroless` flavor by default, add `-tomcat` to use the Tomcat-based image. |
|
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| imagePullSecrets | list | `[]` | image pull secrets to use when pulling the image |
|
||||
| ingress.annotations | object | `{}` | provide any additional annotations which may be required. Evaluated as a template. |
|
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| ingress.enabled | bool | `false` | whether to create an Ingress to expose the FHIR server HTTP endpoint |
|
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| ingress.hosts[0].host | string | `"fhir-server.127.0.0.1.nip.io"` | |
|
||||
| ingress.hosts[0].pathType | string | `"ImplementationSpecific"` | |
|
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| ingress.hosts[0].paths[0] | string | `"/"` | |
|
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| ingress.tls | list | `[]` | ingress TLS config |
|
||||
| initContainers.resources | object | `{}` | configure the init containers pods resource requests and limits |
|
||||
| initContainers.resourcesPreset | string | `"nano"` | set container resources according to one common preset (allowed values: none, nano, micro, small, medium, large, xlarge, 2xlarge). This is ignored if `resources` is set (`resources` is recommended for production). More information: <https://github.com/bitnami/charts/blob/main/bitnami/common/templates/_resources.tpl#L15> |
|
||||
| metrics.service.port | int | `8081` | |
|
||||
| metrics.serviceMonitor.additionalLabels | object | `{}` | additional labels to apply to the ServiceMonitor object, e.g. `release: prometheus` |
|
||||
| metrics.serviceMonitor.enabled | bool | `false` | if enabled, creates a ServiceMonitor instance for Prometheus Operator-based monitoring |
|
||||
| nameOverride | string | `""` | override the chart name |
|
||||
| nodeSelector | object | `{}` | node selector for the pod |
|
||||
| podAnnotations | object | `{}` | annotations applied to the server pod |
|
||||
| podDisruptionBudget.enabled | bool | `false` | Enable PodDisruptionBudget for the server pods. uses policy/v1/PodDisruptionBudget thus requiring k8s 1.21+ |
|
||||
| podDisruptionBudget.maxUnavailable | string | `""` | maximum unavailable instances |
|
||||
| podDisruptionBudget.minAvailable | int | `1` | minimum available instances |
|
||||
| podSecurityContext | object | `{"fsGroup":65532,"fsGroupChangePolicy":"OnRootMismatch","runAsGroup":65532,"runAsNonRoot":true,"runAsUser":65532,"seccompProfile":{"type":"RuntimeDefault"}}` | pod security context |
|
||||
| postgresql.auth.database | string | `"fhir"` | name for a custom database to create |
|
||||
| postgresql.auth.existingSecret | string | `""` | Name of existing secret to use for PostgreSQL credentials `auth.postgresPassword`, `auth.password`, and `auth.replicationPassword` will be ignored and picked up from this secret The secret must contain the keys `postgres-password` (which is the password for "postgres" admin user), `password` (which is the password for the custom user to create when `auth.username` is set), and `replication-password` (which is the password for replication user). The secret might also contains the key `ldap-password` if LDAP is enabled. `ldap.bind_password` will be ignored and picked from this secret in this case. The value is evaluated as a template. |
|
||||
| postgresql.enabled | bool | `true` | enable an included PostgreSQL DB. see <https://github.com/bitnami/charts/tree/master/bitnami/postgresql> for details if set to `false`, the values under `externalDatabase` are used |
|
||||
| replicaCount | int | `1` | number of replicas to deploy |
|
||||
| resources | object | `{}` | configure the FHIR server's resource requests and limits |
|
||||
| resourcesPreset | string | `"medium"` | set container resources according to one common preset (allowed values: none, nano, micro, small, medium, large, xlarge, 2xlarge). This is ignored if `resources` is set (`resources` is recommended for production). More information: <https://github.com/bitnami/charts/blob/main/bitnami/common/templates/_resources.tpl#L15> |
|
||||
| securityContext.allowPrivilegeEscalation | bool | `false` | |
|
||||
| securityContext.capabilities.drop[0] | string | `"ALL"` | |
|
||||
| securityContext.privileged | bool | `false` | |
|
||||
| securityContext.readOnlyRootFilesystem | bool | `true` | |
|
||||
| securityContext.runAsGroup | int | `65532` | |
|
||||
| securityContext.runAsNonRoot | bool | `true` | |
|
||||
| securityContext.runAsUser | int | `65532` | |
|
||||
| securityContext.seccompProfile.type | string | `"RuntimeDefault"` | |
|
||||
| service.port | int | `8080` | port where the server will be exposed at |
|
||||
| service.type | string | `"ClusterIP"` | service type |
|
||||
| serviceAccount.annotations | object | `{}` | Annotations to add to the service account |
|
||||
| serviceAccount.automount | bool | `true` | Automatically mount a ServiceAccount's API credentials? |
|
||||
| serviceAccount.create | bool | `false` | Specifies whether a service account should be created. |
|
||||
| serviceAccount.name | string | `""` | The name of the service account to use. If not set and create is true, a name is generated using the fullname template |
|
||||
| tests.automountServiceAccountToken | bool | `false` | whether the service account token should be auto-mounted for the test pods |
|
||||
| tests.resources | object | `{}` | configure the test pods resource requests and limits |
|
||||
| tests.resourcesPreset | string | `"nano"` | set container resources according to one common preset (allowed values: none, nano, micro, small, medium, large, xlarge, 2xlarge). This is ignored if `resources` is set (`resources` is recommended for production). More information: <https://github.com/bitnami/charts/blob/main/bitnami/common/templates/_resources.tpl#L15> |
|
||||
| tolerations | list | `[]` | pod tolerations |
|
||||
| topologySpreadConstraints | list | `[]` | pod topology spread configuration see: https://kubernetes.io/docs/concepts/workloads/pods/pod-topology-spread-constraints/#api |
|
||||
|
||||
## Development
|
||||
|
||||
To update the Helm chart when a new version of the `hapiproject/hapi` image is released, [values.yaml](values.yaml) `image.tag` and the [Chart.yaml](Chart.yaml)'s
|
||||
`version` and optionally the `appVersion` field need to be updated. Afterwards, re-generate the [README.md](README.md)
|
||||
by running:
|
||||
|
||||
```sh
|
||||
$ helm-docs
|
||||
INFO[2021-11-20T12:38:04Z] Found Chart directories [charts/hapi-fhir-jpaserver]
|
||||
INFO[2021-11-20T12:38:04Z] Generating README Documentation for chart /usr/src/app/charts/hapi-fhir-jpaserver
|
||||
```
|
||||
|
||||
## Enable Distributed Tracing based on the OpenTelemtry Java Agent
|
||||
|
||||
The container image includes the [OpenTelemetry Java agent JAR](https://github.com/open-telemetry/opentelemetry-java-instrumentation)
|
||||
which can be used to enable distributed tracing. It can be configured entirely using environment variables,
|
||||
see <https://opentelemetry.io/docs/instrumentation/java/automatic/agent-config/> for details.
|
||||
|
||||
Here's an example setup deploying [Jaeger](https://www.jaegertracing.io/) as a tracing backend:
|
||||
|
||||
```sh
|
||||
# required by the Jaeger Operator
|
||||
kubectl apply -f https://github.com/cert-manager/cert-manager/releases/download/v1.9.1/cert-manager.yaml
|
||||
kubectl create namespace observability
|
||||
kubectl create -f https://github.com/jaegertracing/jaeger-operator/releases/download/v1.37.0/jaeger-operator.yaml -n observability
|
||||
|
||||
cat <<EOF | kubectl apply -n observability -f -
|
||||
# simple, all-in-one Jaeger installation. Not suitable for production use.
|
||||
apiVersion: jaegertracing.io/v1
|
||||
kind: Jaeger
|
||||
metadata:
|
||||
name: simplest
|
||||
EOF
|
||||
```
|
||||
|
||||
Use this chart's `extraEnv` value to set the required environment variables:
|
||||
|
||||
```yaml
|
||||
extraEnv:
|
||||
- name: JAVA_TOOL_OPTIONS
|
||||
value: "-javaagent:/app/opentelemetry-javaagent.jar"
|
||||
- name: OTEL_METRICS_EXPORTER
|
||||
value: "none"
|
||||
- name: OTEL_LOGS_EXPORTER
|
||||
value: "none"
|
||||
- name: OTEL_TRACES_EXPORTER
|
||||
value: "jaeger"
|
||||
- name: OTEL_SERVICE_NAME
|
||||
value: "hapi-fhir-jpaserver"
|
||||
- name: OTEL_EXPORTER_JAEGER_ENDPOINT
|
||||
value: "http://simplest-collector.observability.svc:14250"
|
||||
```
|
||||
|
||||
Finally, you can open the Jaeger query UI by running:
|
||||
|
||||
```sh
|
||||
kubectl port-forward -n observability service/simplest-query 16686:16686
|
||||
```
|
||||
|
||||
and opening <http://localhost:16686/> in your browser.
|
||||
|
||||
----------------------------------------------
|
||||
Autogenerated from chart metadata using [helm-docs v1.14.2](https://github.com/norwoodj/helm-docs/releases/v1.14.2)
|
||||
@ -0,0 +1,79 @@
|
||||
# HAPI FHIR JPA Server Starter Helm Chart
|
||||
|
||||
{{ template "chart.versionBadge" . }}{{ template "chart.typeBadge" . }}{{ template "chart.appVersionBadge" . }}
|
||||
|
||||
This helm chart will help you install the HAPI FHIR JPA Server in a Kubernetes environment.
|
||||
|
||||
## Sample usage
|
||||
|
||||
```sh
|
||||
helm repo add hapifhir https://hapifhir.github.io/hapi-fhir-jpaserver-starter/
|
||||
helm install hapi-fhir-jpaserver hapifhir/hapi-fhir-jpaserver
|
||||
```
|
||||
|
||||
{{ template "chart.requirementsSection" . }}
|
||||
|
||||
{{ template "chart.valuesSection" . }}
|
||||
|
||||
## Development
|
||||
|
||||
To update the Helm chart when a new version of the `hapiproject/hapi` image is released, [values.yaml](values.yaml) `image.tag` and the [Chart.yaml](Chart.yaml)'s
|
||||
`version` and optionally the `appVersion` field need to be updated. Afterwards, re-generate the [README.md](README.md)
|
||||
by running:
|
||||
|
||||
```sh
|
||||
$ helm-docs
|
||||
INFO[2021-11-20T12:38:04Z] Found Chart directories [charts/hapi-fhir-jpaserver]
|
||||
INFO[2021-11-20T12:38:04Z] Generating README Documentation for chart /usr/src/app/charts/hapi-fhir-jpaserver
|
||||
```
|
||||
|
||||
## Enable Distributed Tracing based on the OpenTelemtry Java Agent
|
||||
|
||||
The container image includes the [OpenTelemetry Java agent JAR](https://github.com/open-telemetry/opentelemetry-java-instrumentation)
|
||||
which can be used to enable distributed tracing. It can be configured entirely using environment variables,
|
||||
see <https://opentelemetry.io/docs/instrumentation/java/automatic/agent-config/> for details.
|
||||
|
||||
Here's an example setup deploying [Jaeger](https://www.jaegertracing.io/) as a tracing backend:
|
||||
|
||||
```sh
|
||||
# required by the Jaeger Operator
|
||||
kubectl apply -f https://github.com/cert-manager/cert-manager/releases/download/v1.9.1/cert-manager.yaml
|
||||
kubectl create namespace observability
|
||||
kubectl create -f https://github.com/jaegertracing/jaeger-operator/releases/download/v1.37.0/jaeger-operator.yaml -n observability
|
||||
|
||||
cat <<EOF | kubectl apply -n observability -f -
|
||||
# simple, all-in-one Jaeger installation. Not suitable for production use.
|
||||
apiVersion: jaegertracing.io/v1
|
||||
kind: Jaeger
|
||||
metadata:
|
||||
name: simplest
|
||||
EOF
|
||||
```
|
||||
|
||||
Use this chart's `extraEnv` value to set the required environment variables:
|
||||
|
||||
```yaml
|
||||
extraEnv:
|
||||
- name: JAVA_TOOL_OPTIONS
|
||||
value: "-javaagent:/app/opentelemetry-javaagent.jar"
|
||||
- name: OTEL_METRICS_EXPORTER
|
||||
value: "none"
|
||||
- name: OTEL_LOGS_EXPORTER
|
||||
value: "none"
|
||||
- name: OTEL_TRACES_EXPORTER
|
||||
value: "jaeger"
|
||||
- name: OTEL_SERVICE_NAME
|
||||
value: "hapi-fhir-jpaserver"
|
||||
- name: OTEL_EXPORTER_JAEGER_ENDPOINT
|
||||
value: "http://simplest-collector.observability.svc:14250"
|
||||
```
|
||||
|
||||
Finally, you can open the Jaeger query UI by running:
|
||||
|
||||
```sh
|
||||
kubectl port-forward -n observability service/simplest-query 16686:16686
|
||||
```
|
||||
|
||||
and opening <http://localhost:16686/> in your browser.
|
||||
|
||||
{{ template "helm-docs.versionFooter" . }}
|
||||
@ -0,0 +1,7 @@
|
||||
postgresql:
|
||||
enabled: true
|
||||
auth:
|
||||
username: hapi_fhir_jpaserver_starter_user
|
||||
database: hapi_fhir_jpaserver_starter
|
||||
password: secret_user_password
|
||||
postgresPassword: secret_postgres_password
|
||||
@ -0,0 +1,6 @@
|
||||
ingress:
|
||||
enabled: true
|
||||
|
||||
postgresql:
|
||||
auth:
|
||||
postgresPassword: secretpassword
|
||||
@ -0,0 +1,17 @@
|
||||
extraConfig: |
|
||||
hapi:
|
||||
fhir:
|
||||
cr_enabled: true
|
||||
tester:
|
||||
home:
|
||||
name: Hello HAPI FHIR
|
||||
server_address: "http://fhir-server.127.0.0.1.nip.io/fhir"
|
||||
refuse_to_fetch_third_party_urls: true
|
||||
fhir_version: R4
|
||||
|
||||
ingress:
|
||||
enabled: true
|
||||
hosts:
|
||||
- host: fhir-server.127.0.0.1.nip.io
|
||||
pathType: ImplementationSpecific
|
||||
paths: ["/"]
|
||||
@ -0,0 +1,11 @@
|
||||
extraVolumes:
|
||||
- name: config-kube-root-ca
|
||||
configMap:
|
||||
name: kube-root-ca.crt
|
||||
items:
|
||||
- key: ca.crt
|
||||
path: ca.crt
|
||||
|
||||
extraVolumeMounts:
|
||||
- name: config-kube-root-ca
|
||||
mountPath: /etc/test
|
||||
@ -0,0 +1,22 @@
|
||||
1. Get the application URL by running these commands:
|
||||
{{- if .Values.ingress.enabled }}
|
||||
{{- range $host := .Values.ingress.hosts }}
|
||||
{{- range .paths }}
|
||||
http{{ if $.Values.ingress.tls }}s{{ end }}://{{ $host.host }}{{ . }}
|
||||
{{- end }}
|
||||
{{- end }}
|
||||
{{- else if contains "NodePort" .Values.service.type }}
|
||||
export NODE_PORT=$(kubectl get --namespace {{ .Release.Namespace }} -o jsonpath="{.spec.ports[0].nodePort}" services {{ include "hapi-fhir-jpaserver.fullname" . }})
|
||||
export NODE_IP=$(kubectl get nodes --namespace {{ .Release.Namespace }} -o jsonpath="{.items[0].status.addresses[0].address}")
|
||||
echo http://$NODE_IP:$NODE_PORT
|
||||
{{- else if contains "LoadBalancer" .Values.service.type }}
|
||||
NOTE: It may take a few minutes for the LoadBalancer IP to be available.
|
||||
You can watch the status of by running 'kubectl get --namespace {{ .Release.Namespace }} svc -w {{ include "hapi-fhir-jpaserver.fullname" . }}'
|
||||
export SERVICE_IP=$(kubectl get svc --namespace {{ .Release.Namespace }} {{ include "hapi-fhir-jpaserver.fullname" . }} --template "{{"{{ range (index .status.loadBalancer.ingress 0) }}{{.}}{{ end }}"}}")
|
||||
echo http://$SERVICE_IP:{{ .Values.service.port }}
|
||||
{{- else if contains "ClusterIP" .Values.service.type }}
|
||||
export POD_NAME=$(kubectl get pods --namespace {{ .Release.Namespace }} -l "app.kubernetes.io/name={{ include "hapi-fhir-jpaserver.name" . }},app.kubernetes.io/instance={{ .Release.Name }}" -o jsonpath="{.items[0].metadata.name}")
|
||||
export CONTAINER_PORT=$(kubectl get pod --namespace {{ .Release.Namespace }} $POD_NAME -o jsonpath="{.spec.containers[0].ports[0].containerPort}")
|
||||
echo "Visit http://127.0.0.1:8080 to use your application"
|
||||
kubectl --namespace {{ .Release.Namespace }} port-forward $POD_NAME 8080:$CONTAINER_PORT
|
||||
{{- end }}
|
||||
@ -0,0 +1,152 @@
|
||||
{{/*
|
||||
Expand the name of the chart.
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.name" -}}
|
||||
{{- default .Chart.Name .Values.nameOverride | trunc 63 | trimSuffix "-" }}
|
||||
{{- end }}
|
||||
|
||||
{{/*
|
||||
Create a default fully qualified app name.
|
||||
We truncate at 63 chars because some Kubernetes name fields are limited to this (by the DNS naming spec).
|
||||
If release name contains chart name it will be used as a full name.
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.fullname" -}}
|
||||
{{- if .Values.fullnameOverride }}
|
||||
{{- .Values.fullnameOverride | trunc 63 | trimSuffix "-" }}
|
||||
{{- else }}
|
||||
{{- $name := default .Chart.Name .Values.nameOverride }}
|
||||
{{- if contains $name .Release.Name }}
|
||||
{{- .Release.Name | trunc 63 | trimSuffix "-" }}
|
||||
{{- else }}
|
||||
{{- printf "%s-%s" .Release.Name $name | trunc 63 | trimSuffix "-" }}
|
||||
{{- end }}
|
||||
{{- end }}
|
||||
{{- end }}
|
||||
|
||||
{{/*
|
||||
Create chart name and version as used by the chart label.
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.chart" -}}
|
||||
{{- printf "%s-%s" .Chart.Name .Chart.Version | replace "+" "_" | trunc 63 | trimSuffix "-" }}
|
||||
{{- end }}
|
||||
|
||||
{{/*
|
||||
Common labels
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.labels" -}}
|
||||
helm.sh/chart: {{ include "hapi-fhir-jpaserver.chart" . }}
|
||||
{{ include "hapi-fhir-jpaserver.selectorLabels" . }}
|
||||
{{- if .Chart.AppVersion }}
|
||||
app.kubernetes.io/version: {{ .Chart.AppVersion | quote }}
|
||||
{{- end }}
|
||||
app.kubernetes.io/managed-by: {{ .Release.Service }}
|
||||
{{- end }}
|
||||
|
||||
{{/*
|
||||
Selector labels
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.selectorLabels" -}}
|
||||
app.kubernetes.io/name: {{ include "hapi-fhir-jpaserver.name" . }}
|
||||
app.kubernetes.io/instance: {{ .Release.Name }}
|
||||
{{- end }}
|
||||
|
||||
{{/*
|
||||
Create the name of the service account to use
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.serviceAccountName" -}}
|
||||
{{- if .Values.serviceAccount.create }}
|
||||
{{- default (include "hapi-fhir-jpaserver.fullname" .) .Values.serviceAccount.name }}
|
||||
{{- else }}
|
||||
{{- default "default" .Values.serviceAccount.name }}
|
||||
{{- end }}
|
||||
{{- end }}
|
||||
|
||||
{{/*
|
||||
Create a default fully qualified postgresql name.
|
||||
We truncate at 63 chars because some Kubernetes name fields are limited to this (by the DNS naming spec).
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.postgresql.fullname" -}}
|
||||
{{- $name := default "postgresql" .Values.postgresql.nameOverride -}}
|
||||
{{- printf "%s-%s" .Release.Name $name | trunc 63 | trimSuffix "-" -}}
|
||||
{{- end -}}
|
||||
|
||||
{{/*
|
||||
Get the Postgresql credentials secret name.
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.postgresql.secretName" -}}
|
||||
{{- if .Values.postgresql.enabled -}}
|
||||
{{- if .Values.postgresql.auth.existingSecret -}}
|
||||
{{- printf "%s" .Values.postgresql.auth.existingSecret -}}
|
||||
{{- else -}}
|
||||
{{- printf "%s" (include "hapi-fhir-jpaserver.postgresql.fullname" .) -}}
|
||||
{{- end -}}
|
||||
{{- else }}
|
||||
{{- if .Values.externalDatabase.existingSecret -}}
|
||||
{{- printf "%s" .Values.externalDatabase.existingSecret -}}
|
||||
{{- else -}}
|
||||
{{ printf "%s-%s" (include "hapi-fhir-jpaserver.fullname" .) "external-db" }}
|
||||
{{- end -}}
|
||||
{{- end -}}
|
||||
{{- end -}}
|
||||
|
||||
{{/*
|
||||
Get the Postgresql credentials secret key.
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.postgresql.secretKey" -}}
|
||||
{{- if .Values.postgresql.enabled -}}
|
||||
{{- if .Values.postgresql.auth.username -}}
|
||||
{{- printf "%s" .Values.postgresql.auth.secretKeys.userPasswordKey -}}
|
||||
{{- else -}}
|
||||
{{- printf "%s" .Values.postgresql.auth.secretKeys.adminPasswordKey -}}
|
||||
{{- end -}}
|
||||
{{- else }}
|
||||
{{- if .Values.externalDatabase.existingSecret -}}
|
||||
{{- printf "%s" .Values.externalDatabase.existingSecretKey -}}
|
||||
{{- else -}}
|
||||
{{- printf "postgres-password" -}}
|
||||
{{- end -}}
|
||||
{{- end -}}
|
||||
{{- end -}}
|
||||
|
||||
{{/*
|
||||
Add environment variables to configure database values
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.database.host" -}}
|
||||
{{- ternary (include "hapi-fhir-jpaserver.postgresql.fullname" .) .Values.externalDatabase.host .Values.postgresql.enabled -}}
|
||||
{{- end -}}
|
||||
|
||||
{{/*
|
||||
Add environment variables to configure database values
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.database.user" -}}
|
||||
{{- if .Values.postgresql.enabled -}}
|
||||
{{- printf "%s" .Values.postgresql.auth.username | default "postgres" -}}
|
||||
{{- else -}}
|
||||
{{- printf "%s" .Values.externalDatabase.user -}}
|
||||
{{- end -}}
|
||||
{{- end -}}
|
||||
|
||||
{{/*
|
||||
Add environment variables to configure database values
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.database.name" -}}
|
||||
{{- ternary .Values.postgresql.auth.database .Values.externalDatabase.database .Values.postgresql.enabled -}}
|
||||
{{- end -}}
|
||||
|
||||
{{/*
|
||||
Add environment variables to configure database values
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.database.port" -}}
|
||||
{{- ternary "5432" .Values.externalDatabase.port .Values.postgresql.enabled -}}
|
||||
{{- end -}}
|
||||
|
||||
{{/*
|
||||
Create the JDBC URL from the host, port and database name.
|
||||
*/}}
|
||||
{{- define "hapi-fhir-jpaserver.database.jdbcUrl" -}}
|
||||
{{- $host := (include "hapi-fhir-jpaserver.database.host" .) -}}
|
||||
{{- $port := (include "hapi-fhir-jpaserver.database.port" .) -}}
|
||||
{{- $name := (include "hapi-fhir-jpaserver.database.name" .) -}}
|
||||
{{- $appName := .Release.Name -}}
|
||||
{{ printf "jdbc:postgresql://%s:%d/%s?ApplicationName=%s" $host (int $port) $name $appName }}
|
||||
{{- end -}}
|
||||
@ -0,0 +1,11 @@
|
||||
{{- if .Values.extraConfig -}}
|
||||
apiVersion: v1
|
||||
kind: ConfigMap
|
||||
metadata:
|
||||
name: {{ include "hapi-fhir-jpaserver.fullname" . }}-application-config
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.labels" . | nindent 4 }}
|
||||
data:
|
||||
application-extra.yaml: |-
|
||||
{{ .Values.extraConfig | nindent 4 }}
|
||||
{{- end }}
|
||||
@ -0,0 +1,160 @@
|
||||
apiVersion: apps/v1
|
||||
kind: Deployment
|
||||
metadata:
|
||||
name: {{ include "hapi-fhir-jpaserver.fullname" . }}
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.labels" . | nindent 4 }}
|
||||
{{- with .Values.deploymentAnnotations }}
|
||||
annotations:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
spec:
|
||||
replicas: {{ .Values.replicaCount }}
|
||||
selector:
|
||||
matchLabels:
|
||||
{{- include "hapi-fhir-jpaserver.selectorLabels" . | nindent 6 }}
|
||||
template:
|
||||
metadata:
|
||||
{{- with .Values.podAnnotations }}
|
||||
annotations:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.selectorLabels" . | nindent 8 }}
|
||||
spec:
|
||||
{{- with .Values.imagePullSecrets }}
|
||||
imagePullSecrets:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
serviceAccountName: {{ include "hapi-fhir-jpaserver.serviceAccountName" . }}
|
||||
securityContext:
|
||||
{{- toYaml .Values.podSecurityContext | nindent 8 }}
|
||||
initContainers:
|
||||
- name: wait-for-db-to-be-ready
|
||||
image: docker.io/bitnami/postgresql:17.4.0-debian-12-r10@sha256:7b9af9dd759055265998bbf12368e6d7d6326e6fd23f8157be841fad0915c1a1
|
||||
imagePullPolicy: IfNotPresent
|
||||
{{- with .Values.restrictedContainerSecurityContext }}
|
||||
securityContext:
|
||||
{{- toYaml . | nindent 12 }}
|
||||
{{- end }}
|
||||
{{- if .Values.initContainers.resources }}
|
||||
resources: {{- toYaml .Values.initContainers.resources | nindent 12 }}
|
||||
{{- else if ne .Values.initContainers.resourcesPreset "none" }}
|
||||
resources: {{- include "common.resources.preset" (dict "type" .Values.initContainers.resourcesPreset) | nindent 12 }}
|
||||
{{- end }}
|
||||
env:
|
||||
- name: PGHOST
|
||||
value: "{{ include "hapi-fhir-jpaserver.database.host" . }}"
|
||||
- name: PGPORT
|
||||
value: "{{ include "hapi-fhir-jpaserver.database.port" . }}"
|
||||
- name: PGUSER
|
||||
value: "{{ include "hapi-fhir-jpaserver.database.user" . }}"
|
||||
command: ["/bin/sh", "-c"]
|
||||
args:
|
||||
- |
|
||||
until pg_isready; do
|
||||
echo "Waiting for DB ${PGUSER}@${PGHOST}:${PGPORT} to be up";
|
||||
sleep 15;
|
||||
done;
|
||||
containers:
|
||||
- name: {{ .Chart.Name }}
|
||||
securityContext:
|
||||
{{- toYaml .Values.securityContext | nindent 12 }}
|
||||
image: {{ .Values.image.registry }}/{{ .Values.image.repository }}:{{ .Values.image.tag }}
|
||||
imagePullPolicy: {{ .Values.image.pullPolicy }}
|
||||
ports:
|
||||
- name: http
|
||||
containerPort: 8080
|
||||
protocol: TCP
|
||||
- name: http-metrics
|
||||
containerPort: 8081
|
||||
protocol: TCP
|
||||
{{- with .Values.startupProbe }}
|
||||
startupProbe:
|
||||
{{- toYaml . | nindent 12 }}
|
||||
{{- end }}
|
||||
{{- with .Values.livenessProbe }}
|
||||
livenessProbe:
|
||||
{{- toYaml . | nindent 12 }}
|
||||
{{- end }}
|
||||
{{- with .Values.readinessProbe }}
|
||||
readinessProbe:
|
||||
{{- toYaml . | nindent 12 }}
|
||||
{{- end }}
|
||||
{{- if .Values.resources }}
|
||||
resources: {{- toYaml .Values.resources | nindent 12 }}
|
||||
{{- else if ne .Values.resourcesPreset "none" }}
|
||||
resources: {{- include "common.resources.preset" (dict "type" .Values.resourcesPreset) | nindent 12 }}
|
||||
{{- end }}
|
||||
env:
|
||||
- name: SPRING_DATASOURCE_URL
|
||||
value: {{ include "hapi-fhir-jpaserver.database.jdbcUrl" $ }}
|
||||
- name: SPRING_DATASOURCE_USERNAME
|
||||
value: {{ include "hapi-fhir-jpaserver.database.user" $ }}
|
||||
- name: SPRING_DATASOURCE_PASSWORD
|
||||
valueFrom:
|
||||
secretKeyRef:
|
||||
name: {{ include "hapi-fhir-jpaserver.postgresql.secretName" . }}
|
||||
key: {{ include "hapi-fhir-jpaserver.postgresql.secretKey" . }}
|
||||
- name: SPRING_DATASOURCE_DRIVERCLASSNAME
|
||||
value: org.postgresql.Driver
|
||||
- name: spring.jpa.properties.hibernate.dialect
|
||||
value: ca.uhn.fhir.jpa.model.dialect.HapiFhirPostgres94Dialect
|
||||
- name: HAPI_FHIR_USE_APACHE_ADDRESS_STRATEGY
|
||||
value: "true"
|
||||
- name: MANAGEMENT_ENDPOINT_HEALTH_PROBES_ADD_ADDITIONAL_PATHS
|
||||
value: "true"
|
||||
- name: MANAGEMENT_SERVER_PORT
|
||||
value: "8081"
|
||||
- name: MANAGEMENT_ENDPOINTS_WEB_EXPOSURE_INCLUDE
|
||||
value: "health,prometheus"
|
||||
{{- if .Values.extraConfig }}
|
||||
- name: SPRING_CONFIG_IMPORT
|
||||
value: "/app/config/application-extra.yaml"
|
||||
{{- end }}
|
||||
{{- if .Values.extraEnv }}
|
||||
{{ toYaml .Values.extraEnv | nindent 12 }}
|
||||
{{- end }}
|
||||
volumeMounts:
|
||||
- mountPath: /tmp
|
||||
name: tmp-volume
|
||||
- mountPath: /app/target
|
||||
name: lucenefiles-volume
|
||||
{{- if .Values.extraConfig }}
|
||||
- name: application-extra-config
|
||||
mountPath: /app/config/application-extra.yaml
|
||||
readOnly: true
|
||||
subPath: application-extra.yaml
|
||||
{{- end }}
|
||||
{{- if .Values.extraVolumeMounts }}
|
||||
{{- include "common.tplvalues.render" (dict "value" .Values.extraVolumeMounts "context" $) | nindent 12 }}
|
||||
{{- end }}
|
||||
{{- with .Values.nodeSelector }}
|
||||
nodeSelector:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
{{- with .Values.affinity }}
|
||||
affinity:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
{{- with .Values.tolerations }}
|
||||
tolerations:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
{{- with .Values.topologySpreadConstraints }}
|
||||
topologySpreadConstraints:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
volumes:
|
||||
- name: tmp-volume
|
||||
emptyDir: {}
|
||||
- name: lucenefiles-volume
|
||||
emptyDir: {}
|
||||
{{- if .Values.extraConfig }}
|
||||
- name: application-extra-config
|
||||
configMap:
|
||||
name: {{ include "hapi-fhir-jpaserver.fullname" . }}-application-config
|
||||
{{- end }}
|
||||
{{- if .Values.extraVolumes }}
|
||||
{{- include "common.tplvalues.render" (dict "value" .Values.extraVolumes "context" $) | nindent 8 }}
|
||||
{{- end }}
|
||||
@ -0,0 +1,11 @@
|
||||
{{- if and (not .Values.postgresql.enabled) (not .Values.externalDatabase.existingSecret) (not .Values.postgresql.auth.existingSecret) }}
|
||||
apiVersion: v1
|
||||
kind: Secret
|
||||
metadata:
|
||||
name: {{ include "hapi-fhir-jpaserver.fullname" . }}-external-db
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.labels" . | nindent 4 }}
|
||||
type: Opaque
|
||||
data:
|
||||
postgres-password: {{ .Values.externalDatabase.password | b64enc | quote }}
|
||||
{{- end }}
|
||||
@ -0,0 +1,53 @@
|
||||
{{- if .Values.ingress.enabled -}}
|
||||
{{- $fullName := include "hapi-fhir-jpaserver.fullname" . -}}
|
||||
{{- if semverCompare ">=1.19-0" .Capabilities.KubeVersion.GitVersion }}
|
||||
apiVersion: networking.k8s.io/v1
|
||||
{{- else if semverCompare ">=1.14-0" .Capabilities.KubeVersion.GitVersion }}
|
||||
apiVersion: networking.k8s.io/v1beta1
|
||||
{{ else }}
|
||||
apiVersion: extensions/v1beta1
|
||||
{{- end }}
|
||||
kind: Ingress
|
||||
metadata:
|
||||
name: {{ $fullName }}
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.labels" . | nindent 4 }}
|
||||
{{- with .Values.ingress.annotations }}
|
||||
annotations:
|
||||
{{- toYaml . | nindent 4 }}
|
||||
{{- end }}
|
||||
spec:
|
||||
{{- if .Values.ingress.tls }}
|
||||
tls:
|
||||
{{- range .Values.ingress.tls }}
|
||||
- hosts:
|
||||
{{- range .hosts }}
|
||||
- {{ . | quote }}
|
||||
{{- end }}
|
||||
secretName: {{ .secretName }}
|
||||
{{- end }}
|
||||
{{- end }}
|
||||
rules:
|
||||
{{- range .Values.ingress.hosts }}
|
||||
{{- $pathType := .pathType }}
|
||||
- host: {{ .host | quote }}
|
||||
http:
|
||||
paths:
|
||||
{{- range .paths }}
|
||||
- path: {{ . }}
|
||||
{{- if semverCompare ">=1.19-0" $.Capabilities.KubeVersion.GitVersion }}
|
||||
pathType: {{ $pathType | default "ImplementationSpecific" }}
|
||||
{{- end }}
|
||||
backend:
|
||||
{{- if semverCompare ">=1.19-0" $.Capabilities.KubeVersion.GitVersion }}
|
||||
service:
|
||||
name: {{ $fullName }}
|
||||
port:
|
||||
name: http
|
||||
{{ else }}
|
||||
serviceName: {{ $fullName }}
|
||||
servicePort: http
|
||||
{{- end }}
|
||||
{{- end }}
|
||||
{{- end }}
|
||||
{{- end }}
|
||||
@ -0,0 +1,18 @@
|
||||
{{- if .Values.podDisruptionBudget.enabled }}
|
||||
kind: PodDisruptionBudget
|
||||
apiVersion: policy/v1
|
||||
metadata:
|
||||
name: {{ include "hapi-fhir-jpaserver.fullname" . }}
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.labels" . | nindent 4 }}
|
||||
spec:
|
||||
{{- if .Values.podDisruptionBudget.minAvailable }}
|
||||
minAvailable: {{ .Values.podDisruptionBudget.minAvailable }}
|
||||
{{- end }}
|
||||
{{- if .Values.podDisruptionBudget.maxUnavailable }}
|
||||
maxUnavailable: {{ .Values.podDisruptionBudget.maxUnavailable }}
|
||||
{{- end }}
|
||||
selector:
|
||||
matchLabels:
|
||||
{{- include "hapi-fhir-jpaserver.selectorLabels" . | nindent 6 }}
|
||||
{{- end }}
|
||||
@ -0,0 +1,19 @@
|
||||
apiVersion: v1
|
||||
kind: Service
|
||||
metadata:
|
||||
name: {{ include "hapi-fhir-jpaserver.fullname" . }}
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.labels" . | nindent 4 }}
|
||||
spec:
|
||||
type: {{ .Values.service.type }}
|
||||
ports:
|
||||
- port: {{ .Values.service.port }}
|
||||
targetPort: http
|
||||
protocol: TCP
|
||||
name: http
|
||||
- port: {{ .Values.metrics.service.port }}
|
||||
targetPort: http-metrics
|
||||
protocol: TCP
|
||||
name: http-metrics
|
||||
selector:
|
||||
{{- include "hapi-fhir-jpaserver.selectorLabels" . | nindent 4 }}
|
||||
@ -0,0 +1,13 @@
|
||||
{{- if .Values.serviceAccount.create -}}
|
||||
apiVersion: v1
|
||||
kind: ServiceAccount
|
||||
metadata:
|
||||
name: {{ include "hapi-fhir-jpaserver.serviceAccountName" . }}
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.labels" . | nindent 4 }}
|
||||
{{- with .Values.serviceAccount.annotations }}
|
||||
annotations:
|
||||
{{- toYaml . | nindent 4 }}
|
||||
{{- end }}
|
||||
automountServiceAccountToken: {{ .Values.serviceAccount.automount }}
|
||||
{{- end }}
|
||||
@ -0,0 +1,30 @@
|
||||
{{- if .Values.metrics.serviceMonitor.enabled }}
|
||||
apiVersion: monitoring.coreos.com/v1
|
||||
kind: ServiceMonitor
|
||||
metadata:
|
||||
name: {{ include "hapi-fhir-jpaserver.fullname" . }}
|
||||
{{- if .Values.metrics.serviceMonitor.namespace }}
|
||||
namespace: {{ .Values.metrics.serviceMonitor.namespace }}
|
||||
{{- end }}
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.labels" . | nindent 4 }}
|
||||
{{- if .Values.metrics.serviceMonitor.additionalLabels }}
|
||||
{{- toYaml .Values.metrics.serviceMonitor.additionalLabels | nindent 4 }}
|
||||
{{- end }}
|
||||
spec:
|
||||
endpoints:
|
||||
- port: http-metrics
|
||||
path: /actuator/prometheus
|
||||
{{- if .Values.metrics.serviceMonitor.interval }}
|
||||
interval: {{ .Values.metrics.serviceMonitor.interval }}
|
||||
{{- end }}
|
||||
{{- if .Values.metrics.serviceMonitor.scrapeTimeout }}
|
||||
scrapeTimeout: {{ .Values.metrics.serviceMonitor.scrapeTimeout }}
|
||||
{{- end }}
|
||||
namespaceSelector:
|
||||
matchNames:
|
||||
- {{ .Release.Namespace }}
|
||||
selector:
|
||||
matchLabels:
|
||||
{{- include "hapi-fhir-jpaserver.selectorLabels" . | nindent 6 }}
|
||||
{{- end }}
|
||||
@ -0,0 +1,73 @@
|
||||
apiVersion: v1
|
||||
kind: Pod
|
||||
metadata:
|
||||
name: "{{ include "hapi-fhir-jpaserver.fullname" . }}-test-endpoints"
|
||||
labels:
|
||||
{{- include "hapi-fhir-jpaserver.labels" . | nindent 4 }}
|
||||
{{ include "hapi-fhir-jpaserver.fullname" . }}-client: "true"
|
||||
app.kubernetes.io/component: tests
|
||||
annotations:
|
||||
"helm.sh/hook": test
|
||||
spec:
|
||||
restartPolicy: Never
|
||||
automountServiceAccountToken: {{ .Values.tests.automountServiceAccountToken }}
|
||||
securityContext:
|
||||
{{- toYaml .Values.tests.podSecurityContext | nindent 4 }}
|
||||
containers:
|
||||
- name: test-metadata-endpoint
|
||||
image: "{{ .Values.curl.image.registry }}/{{ .Values.curl.image.repository }}:{{ .Values.curl.image.tag }}"
|
||||
command: ["curl", "--fail-with-body"]
|
||||
args: ["http://{{ include "hapi-fhir-jpaserver.fullname" . }}:{{ .Values.service.port }}/fhir/metadata?_summary=true"]
|
||||
{{- with .Values.restrictedContainerSecurityContext }}
|
||||
securityContext:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
{{- if .Values.tests.resources }}
|
||||
resources: {{- toYaml .Values.tests.resources | nindent 10 }}
|
||||
{{- else if ne .Values.tests.resourcesPreset "none" }}
|
||||
resources: {{- include "common.resources.preset" (dict "type" .Values.tests.resourcesPreset) | nindent 10 }}
|
||||
{{- end }}
|
||||
livenessProbe:
|
||||
exec:
|
||||
command: ["true"]
|
||||
readinessProbe:
|
||||
exec:
|
||||
command: ["true"]
|
||||
- name: test-patient-endpoint
|
||||
image: "{{ .Values.curl.image.registry }}/{{ .Values.curl.image.repository }}:{{ .Values.curl.image.tag }}"
|
||||
command: ["curl", "--fail-with-body"]
|
||||
args: ["http://{{ include "hapi-fhir-jpaserver.fullname" . }}:{{ .Values.service.port }}/fhir/Patient?_count=1&_summary=true"]
|
||||
{{- with .Values.restrictedContainerSecurityContext }}
|
||||
securityContext:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
{{- if .Values.tests.resources }}
|
||||
resources: {{- toYaml .Values.tests.resources | nindent 10 }}
|
||||
{{- else if ne .Values.tests.resourcesPreset "none" }}
|
||||
resources: {{- include "common.resources.preset" (dict "type" .Values.tests.resourcesPreset) | nindent 10 }}
|
||||
{{- end }}
|
||||
livenessProbe:
|
||||
exec:
|
||||
command: ["true"]
|
||||
readinessProbe:
|
||||
exec:
|
||||
command: ["true"]
|
||||
- name: test-metrics-endpoint
|
||||
image: "{{ .Values.curl.image.registry }}/{{ .Values.curl.image.repository }}:{{ .Values.curl.image.tag }}"
|
||||
command: ["curl", "--fail-with-body"]
|
||||
args: ["http://{{ include "hapi-fhir-jpaserver.fullname" . }}:{{ .Values.metrics.service.port }}/actuator/prometheus"]
|
||||
{{- with .Values.restrictedContainerSecurityContext }}
|
||||
securityContext:
|
||||
{{- toYaml . | nindent 8 }}
|
||||
{{- end }}
|
||||
{{- if .Values.tests.resources }}
|
||||
resources: {{- toYaml .Values.tests.resources | nindent 10 }}
|
||||
{{- else if ne .Values.tests.resourcesPreset "none" }}
|
||||
resources: {{- include "common.resources.preset" (dict "type" .Values.tests.resourcesPreset) | nindent 10 }}
|
||||
{{- end }}
|
||||
livenessProbe:
|
||||
exec:
|
||||
command: ["true"]
|
||||
readinessProbe:
|
||||
exec:
|
||||
command: ["true"]
|
||||
302
hapi-fhir-jpaserver/charts/hapi-fhir-jpaserver/values.yaml
Normal file
302
hapi-fhir-jpaserver/charts/hapi-fhir-jpaserver/values.yaml
Normal file
@ -0,0 +1,302 @@
|
||||
# -- number of replicas to deploy
|
||||
replicaCount: 1
|
||||
|
||||
image:
|
||||
# -- registry where the HAPI FHIR server image is hosted
|
||||
registry: docker.io
|
||||
# -- the path inside the repository
|
||||
repository: hapiproject/hapi
|
||||
# -- the image tag. As of v5.7.0, this is the `distroless` flavor by default, add `-tomcat` to use the Tomcat-based image.
|
||||
tag: "v8.0.0-1@sha256:9fbac7b012b4be91ba481e7008f1353ede4598bc99a36f3902b8abf873e70ed8"
|
||||
# -- image pullPolicy to use
|
||||
pullPolicy: IfNotPresent
|
||||
|
||||
# -- image pull secrets to use when pulling the image
|
||||
imagePullSecrets: []
|
||||
|
||||
# -- override the chart name
|
||||
nameOverride: ""
|
||||
|
||||
# -- override the chart fullname
|
||||
fullnameOverride: ""
|
||||
|
||||
# -- annotations applied to the server deployment
|
||||
deploymentAnnotations: {}
|
||||
|
||||
# -- annotations applied to the server pod
|
||||
podAnnotations: {}
|
||||
|
||||
# -- pod security context
|
||||
podSecurityContext:
|
||||
fsGroupChangePolicy: OnRootMismatch
|
||||
runAsNonRoot: true
|
||||
runAsGroup: 65532
|
||||
runAsUser: 65532
|
||||
fsGroup: 65532
|
||||
seccompProfile:
|
||||
type: RuntimeDefault
|
||||
|
||||
securityContext:
|
||||
allowPrivilegeEscalation: false
|
||||
capabilities:
|
||||
drop:
|
||||
- ALL
|
||||
readOnlyRootFilesystem: true
|
||||
runAsNonRoot: true
|
||||
runAsUser: 65532
|
||||
runAsGroup: 65532
|
||||
privileged: false
|
||||
seccompProfile:
|
||||
type: RuntimeDefault
|
||||
|
||||
# service to expose the server
|
||||
service:
|
||||
# -- service type
|
||||
type: ClusterIP
|
||||
# -- port where the server will be exposed at
|
||||
port: 8080
|
||||
|
||||
ingress:
|
||||
# -- whether to create an Ingress to expose the FHIR server HTTP endpoint
|
||||
enabled: false
|
||||
# -- provide any additional annotations which may be required. Evaluated as a template.
|
||||
annotations:
|
||||
{}
|
||||
# kubernetes.io/ingress.class: nginx
|
||||
# kubernetes.io/tls-acme: "true"
|
||||
hosts:
|
||||
- host: fhir-server.127.0.0.1.nip.io
|
||||
pathType: ImplementationSpecific
|
||||
paths: ["/"]
|
||||
# -- ingress TLS config
|
||||
tls: []
|
||||
# - secretName: chart-example-tls
|
||||
# hosts:
|
||||
# - chart-example.local
|
||||
|
||||
# -- set container resources according to one common preset (allowed values: none, nano, micro, small, medium, large, xlarge, 2xlarge).
|
||||
# This is ignored if `resources` is set (`resources` is recommended for production).
|
||||
# More information: <https://github.com/bitnami/charts/blob/main/bitnami/common/templates/_resources.tpl#L15>
|
||||
resourcesPreset: "medium"
|
||||
|
||||
# -- configure the FHIR server's resource requests and limits
|
||||
resources:
|
||||
{}
|
||||
# We usually recommend not to specify default resources and to leave this as a conscious
|
||||
# choice for the user. This also increases chances charts run on environments with little
|
||||
# resources, such as Minikube. If you do want to specify resources, uncomment the following
|
||||
# lines, adjust them as necessary, and remove the curly braces after 'resources:'.
|
||||
# limits:
|
||||
# cpu: 100m
|
||||
# memory: 128Mi
|
||||
# requests:
|
||||
# cpu: 100m
|
||||
# memory: 128Mi
|
||||
|
||||
# -- node selector for the pod
|
||||
nodeSelector: {}
|
||||
|
||||
# -- pod tolerations
|
||||
tolerations: []
|
||||
|
||||
# -- pod affinity
|
||||
affinity: {}
|
||||
|
||||
# -- pod topology spread configuration
|
||||
# see: https://kubernetes.io/docs/concepts/workloads/pods/pod-topology-spread-constraints/#api
|
||||
topologySpreadConstraints:
|
||||
[]
|
||||
# - maxSkew: 1
|
||||
# topologyKey: topology.kubernetes.io/zone
|
||||
# whenUnsatisfiable: ScheduleAnyway
|
||||
# labelSelector:
|
||||
# matchLabels:
|
||||
# app.kubernetes.io/instance: hapi-fhir-jpaserver
|
||||
# app.kubernetes.io/name: hapi-fhir-jpaserver
|
||||
|
||||
postgresql:
|
||||
# -- enable an included PostgreSQL DB.
|
||||
# see <https://github.com/bitnami/charts/tree/master/bitnami/postgresql> for details
|
||||
# if set to `false`, the values under `externalDatabase` are used
|
||||
enabled: true
|
||||
auth:
|
||||
# -- name for a custom database to create
|
||||
database: "fhir"
|
||||
# -- Name of existing secret to use for PostgreSQL credentials
|
||||
# `auth.postgresPassword`, `auth.password`, and `auth.replicationPassword` will be ignored and picked up from this secret
|
||||
# The secret must contain the keys `postgres-password` (which is the password for "postgres" admin user),
|
||||
# `password` (which is the password for the custom user to create when `auth.username` is set),
|
||||
# and `replication-password` (which is the password for replication user).
|
||||
# The secret might also contains the key `ldap-password` if LDAP is enabled. `ldap.bind_password` will be ignored and
|
||||
# picked from this secret in this case.
|
||||
# The value is evaluated as a template.
|
||||
existingSecret: ""
|
||||
|
||||
# -- readiness probe
|
||||
# @ignored
|
||||
readinessProbe:
|
||||
httpGet:
|
||||
path: /readyz
|
||||
port: http
|
||||
failureThreshold: 5
|
||||
initialDelaySeconds: 30
|
||||
periodSeconds: 20
|
||||
successThreshold: 1
|
||||
timeoutSeconds: 20
|
||||
|
||||
# -- liveness probe
|
||||
# @ignored
|
||||
livenessProbe:
|
||||
httpGet:
|
||||
path: /livez
|
||||
port: http
|
||||
failureThreshold: 5
|
||||
initialDelaySeconds: 30
|
||||
periodSeconds: 20
|
||||
successThreshold: 1
|
||||
timeoutSeconds: 30
|
||||
|
||||
# -- startup probe
|
||||
# @ignored
|
||||
startupProbe:
|
||||
httpGet:
|
||||
path: /readyz
|
||||
port: http
|
||||
failureThreshold: 10
|
||||
initialDelaySeconds: 30
|
||||
periodSeconds: 30
|
||||
successThreshold: 1
|
||||
timeoutSeconds: 30
|
||||
|
||||
externalDatabase:
|
||||
# -- external database host used with `postgresql.enabled=false`
|
||||
host: localhost
|
||||
# -- database port number
|
||||
port: 5432
|
||||
# -- username for the external database
|
||||
user: fhir
|
||||
# -- database password
|
||||
password: ""
|
||||
# -- name of an existing secret resource containing the DB password in the `existingSecretKey` key
|
||||
existingSecret: ""
|
||||
# -- name of the key inside the `existingSecret`
|
||||
existingSecretKey: "postgresql-password"
|
||||
# -- database name
|
||||
database: fhir
|
||||
|
||||
# -- extra environment variables to set on the server container
|
||||
extraEnv:
|
||||
[]
|
||||
# - name: SPRING_FLYWAY_BASELINE_ON_MIGRATE
|
||||
# value: "true"
|
||||
|
||||
podDisruptionBudget:
|
||||
# -- Enable PodDisruptionBudget for the server pods.
|
||||
# uses policy/v1/PodDisruptionBudget thus requiring k8s 1.21+
|
||||
enabled: false
|
||||
# -- minimum available instances
|
||||
minAvailable: 1
|
||||
# -- maximum unavailable instances
|
||||
maxUnavailable: ""
|
||||
|
||||
serviceAccount:
|
||||
# -- Specifies whether a service account should be created.
|
||||
create: false
|
||||
# -- Annotations to add to the service account
|
||||
annotations: {}
|
||||
# -- The name of the service account to use.
|
||||
# If not set and create is true, a name is generated using the fullname template
|
||||
name: ""
|
||||
# -- Automatically mount a ServiceAccount's API credentials?
|
||||
automount: true
|
||||
|
||||
metrics:
|
||||
serviceMonitor:
|
||||
# -- if enabled, creates a ServiceMonitor instance for Prometheus Operator-based monitoring
|
||||
enabled: false
|
||||
# -- additional labels to apply to the ServiceMonitor object, e.g. `release: prometheus`
|
||||
additionalLabels: {}
|
||||
# namespace: monitoring
|
||||
# interval: 30s
|
||||
# scrapeTimeout: 10s
|
||||
service:
|
||||
port: 8081
|
||||
|
||||
# @ignore
|
||||
restrictedContainerSecurityContext:
|
||||
allowPrivilegeEscalation: false
|
||||
readOnlyRootFilesystem: true
|
||||
privileged: false
|
||||
capabilities:
|
||||
drop:
|
||||
- ALL
|
||||
runAsNonRoot: true
|
||||
runAsUser: 65534
|
||||
runAsGroup: 65534
|
||||
seccompProfile:
|
||||
type: RuntimeDefault
|
||||
|
||||
# @ignored
|
||||
curl:
|
||||
image:
|
||||
registry: docker.io
|
||||
repository: curlimages/curl
|
||||
tag: 8.12.1@sha256:94e9e444bcba979c2ea12e27ae39bee4cd10bc7041a472c4727a558e213744e6
|
||||
|
||||
tests:
|
||||
# -- whether the service account token should be auto-mounted for the test pods
|
||||
automountServiceAccountToken: false
|
||||
# -- set container resources according to one common preset (allowed values: none, nano, micro, small, medium, large, xlarge, 2xlarge).
|
||||
# This is ignored if `resources` is set (`resources` is recommended for production).
|
||||
# More information: <https://github.com/bitnami/charts/blob/main/bitnami/common/templates/_resources.tpl#L15>
|
||||
resourcesPreset: "nano"
|
||||
# -- configure the test pods resource requests and limits
|
||||
resources: {}
|
||||
# limits:
|
||||
# cpu: 100m
|
||||
# memory: 128Mi
|
||||
# requests:
|
||||
# cpu: 100m
|
||||
# memory: 128Mi
|
||||
# @ignored
|
||||
podSecurityContext:
|
||||
fsGroupChangePolicy: OnRootMismatch
|
||||
runAsNonRoot: true
|
||||
runAsGroup: 65532
|
||||
runAsUser: 65532
|
||||
fsGroup: 65532
|
||||
seccompProfile:
|
||||
type: RuntimeDefault
|
||||
|
||||
initContainers:
|
||||
# -- set container resources according to one common preset (allowed values: none, nano, micro, small, medium, large, xlarge, 2xlarge).
|
||||
# This is ignored if `resources` is set (`resources` is recommended for production).
|
||||
# More information: <https://github.com/bitnami/charts/blob/main/bitnami/common/templates/_resources.tpl#L15>
|
||||
resourcesPreset: "nano"
|
||||
# -- configure the init containers pods resource requests and limits
|
||||
resources: {}
|
||||
# limits:
|
||||
# cpu: 100m
|
||||
# memory: 128Mi
|
||||
# requests:
|
||||
# cpu: 100m
|
||||
# memory: 128Mi
|
||||
|
||||
# -- additional Spring Boot application config. Mounted as a file and automatically loaded by the application.
|
||||
extraConfig:
|
||||
""
|
||||
# # For example:
|
||||
# |
|
||||
# hapi:
|
||||
# fhir:
|
||||
# implementationguides:
|
||||
# gh_0_1_0:
|
||||
# url: https://build.fhir.org/ig/hl7-eu/gravitate-health/package.tgz
|
||||
# name: hl7.eu.fhir.gh
|
||||
# version: 0.1.0
|
||||
|
||||
# -- Optionally specify extra list of additional volumes
|
||||
extraVolumes: []
|
||||
|
||||
# -- Optionally specify extra list of additional volumeMounts
|
||||
extraVolumeMounts: []
|
||||
3
hapi-fhir-jpaserver/configs/app/index.html
Normal file
3
hapi-fhir-jpaserver/configs/app/index.html
Normal file
@ -0,0 +1,3 @@
|
||||
<p>
|
||||
Greetings from the custom web app page!
|
||||
</p>
|
||||
14
hapi-fhir-jpaserver/custom/about.html
Normal file
14
hapi-fhir-jpaserver/custom/about.html
Normal file
@ -0,0 +1,14 @@
|
||||
<p>
|
||||
<b>This is a custom about page! It means you have configured 'custom_content_path: ./custom' in the application.yaml</b>
|
||||
</p>
|
||||
<p>
|
||||
This server provides a complete implementation of the FHIR Specification
|
||||
using a 100% open source software stack.
|
||||
</p>
|
||||
<p>
|
||||
This server is built
|
||||
from a number of modules of the
|
||||
<a href="https://github.com/hapifhir/hapi-fhir/">HAPI FHIR</a>
|
||||
project, which is a 100% open-source (Apache 2.0 Licensed) Java based
|
||||
implementation of the FHIR specification.
|
||||
</p>
|
||||
BIN
hapi-fhir-jpaserver/custom/logo.jpg
Normal file
BIN
hapi-fhir-jpaserver/custom/logo.jpg
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 47 KiB |
14
hapi-fhir-jpaserver/custom/welcome.html
Normal file
14
hapi-fhir-jpaserver/custom/welcome.html
Normal file
@ -0,0 +1,14 @@
|
||||
<p>
|
||||
<b>This is a custom welcome page! It means you have configured 'custom_content_path: ./custom' in the application.yaml</b>
|
||||
</p>
|
||||
<p>
|
||||
This server provides a complete implementation of the FHIR Specification
|
||||
using a 100% open source software stack.
|
||||
</p>
|
||||
<p>
|
||||
This server is built
|
||||
from a number of modules of the
|
||||
<a href="https://github.com/hapifhir/hapi-fhir/">HAPI FHIR</a>
|
||||
project, which is a 100% open-source (Apache 2.0 Licensed) Java based
|
||||
implementation of the FHIR specification.
|
||||
</p>
|
||||
Loading…
x
Reference in New Issue
Block a user