fix up grip service so that it can be passed to sower

helm/fhir-server/templates/deployment.yaml

@@ -1,7 +1,7 @@
 apiVersion: apps/v1
 kind: Deployment
 metadata:
-  name: {{ include "fhir-server.fullname" . }}
+  name: fhir-server-deployment
   labels:
     {{- include "fhir-server.labels" . | nindent 4 }}
 spec:
@@ -49,7 +49,6 @@ spec:
               path: /_status
               port: http
             initialDelaySeconds: 30
-
           resources:
             {{- toYaml .Values.resources | nindent 12 }}
           command:

helm/grip/templates/deployment.yaml

@@ -1,7 +1,7 @@
 apiVersion: apps/v1
 kind: Deployment
 metadata:
-  name: local-grip
+  name: grip-deployment
   labels:
     {{- include "grip.labels" . | nindent 4 }}
 spec:
@@ -27,12 +27,21 @@ spec:
       serviceAccountName: {{ include "grip.serviceAccountName" . }}
       securityContext:
         {{- toYaml .Values.podSecurityContext | nindent 8 }}
+      volumes:
+        - name: mongo-config-volume
+          configMap:
+            name: grip-values
       containers:
         - name: {{ .Chart.Name }}
           securityContext:
             {{- toYaml .Values.securityContext | nindent 12 }}
           image: "{{ .Values.image.repository }}:{{ .Values.image.tag | default .Chart.AppVersion }}"
           imagePullPolicy: {{ .Values.image.pullPolicy }}
+          volumeMounts:
+          - name: mongo-config-volume
+            mountPath: /data/mongo.yml
+            subPath: mongoConfig
+            readOnly: true
           ports:
             - name: http
               containerPort: {{ .Values.service.port }}

helm/grip/templates/grip-values.yaml

@@ -0,0 +1,8 @@
+apiVersion: v1
+kind: ConfigMap
+metadata:
+  name: grip-values
+data:
+  serviceName: {{ .Values.serviceName | quote }}
+  mongoConfig: |-
+    {{ toYaml .Values.mongoConfig| nindent 4}}

helm/grip/templates/post-install.yaml

@@ -1,7 +1,7 @@
 apiVersion: batch/v1
 kind: Job
 metadata:
-  name: grip-mongo-initdb
+  name: grip-initdb
 spec:
   backoffLimit: 10
   template:
@@ -19,6 +19,5 @@ spec:
         args:
           - "-c"
           - |
-            apk add --no-cache curl && \
-            curl -X POST http://local-grip:8201/v1/graph/CALIPER
+            apk add --no-cache curl && sleep 10 && curl -X POST 'http://{{ .Values.serviceName }}:8201/v1/graph/CALIPER'
       restartPolicy: OnFailure

helm/grip/templates/service.yaml

@@ -1,7 +1,7 @@
 apiVersion: v1
 kind: Service
 metadata:
-  name: local-grip
+  name: {{ .Values.serviceName}}
   labels:
     {{- include "grip.labels" . | nindent 4 }}
 spec:

helm/grip/values.yaml

@@ -3,6 +3,7 @@
 # Declare variables to be passed into your templates.
 
 replicaCount: 1
+serviceName: grip-service
 
 image:
   repository: quay.io/ohsu-comp-bio/grip-caliper

helm/mongodb/values.yaml

@@ -30,7 +30,7 @@ global:
 nameOverride: ""
 ## @param fullnameOverride String to fully override mongodb.fullname template
 ##
-fullnameOverride: "mongodb-deployment"
+fullnameOverride: "mongodb"
 ## @param namespaceOverride String to fully override common.names.namespace
 ##
 namespaceOverride: ""
@@ -122,11 +122,11 @@ image:
   repository: zcube/bitnami-compat-mongodb
   tag: 6.0.5-debian-11
   digest: ""
-#image:
-  #registry: docker.io
-  #repository: bitnami/mongodb
-  #tag: 6.0.8-debian-11-r12
-  #digest: ""
+# image:
+  # registry: docker.io
+  # repository: bitnami/mongodb
+  # tag: 6.0.8-debian-11-r12
+  # digest: ""
   ## Specify a imagePullPolicy
   ## ref: https://kubernetes.io/docs/user-guide/images/#pre-pulling-images
   ##
@@ -721,7 +721,7 @@ pdb:
 service:
   ## @param service.nameOverride MongoDB(®) service name
   ##
-  nameOverride: ""
+  nameOverride: "mongodb-service"
   ## @param service.type Kubernetes Service type (only for standalone architecture)
   ##
   type: ClusterIP

helm/revproxy/gen3.nginx.conf/fhir-server-service.conf

@@ -0,0 +1,10 @@
+location /Bundle {
+    proxy_connect_timeout 600s;
+    proxy_send_timeout 600s;
+    proxy_read_timeout 600s;
+    send_timeout 600s;
+
+    set $upstream http://fhir-server-service.$namespace.svc.cluster.local:8000;
+    rewrite ^/Bundle/(.*) /$1 break;
+    proxy_pass $upstream;
+}

helm/revproxy/gen3.nginx.conf/local-grip.conf → helm/revproxy/gen3.nginx.conf/grip-service.conf

@@ -5,7 +5,7 @@ location /grip/reader {
     send_timeout 600s;
 
     rewrite ^/grip/(.*) /$1 break;
-    proxy_pass http://local-grip.$namespace.svc.cluster.local:8201/reader/api;
+    proxy_pass http://grip-service.$namespace.svc.cluster.local:8201/reader/api;
 }
 
 location /grip/writer/ {
@@ -15,5 +15,5 @@ location /grip/writer/ {
     send_timeout 600s;
 
     rewrite ^/grip/writer/(.*)$ /$1 break;
-    proxy_pass http://local-grip.$namespace.svc.cluster.local:8201;
+    proxy_pass http://grip-service.$namespace.svc.cluster.local:8201;
 }