updated production chart

molgenis-preview/Chart.yaml

@@ -1,7 +1,7 @@
 apiVersion: v1
 appVersion: "1.0"
-description: A Helm chart for Kubernetes
-name: molgenis
+description: MOLGENIS - helm stack for testing purposes
+name: molgenis-preview
 version: 0.2.0
 sources:
 - https://git.webhosting.rug.nl/molgenis/molgenis-ops-docker-helm.git

molgenis/Chart.yaml

@@ -1,8 +1,8 @@
 apiVersion: v1
 appVersion: "1.0"
-description: A Helm chart for Kubernetes
+description: MOLGENIS - helm stack
 name: molgenis
-version: 0.2.0
+version: 0.0.1
 sources:
 - https://git.webhosting.rug.nl/molgenis/molgenis-ops-docker-helm.git
-icon: https://git.webhosting.rug.nl/molgenis/molgenis-ops-docker-helm/raw/master/molgenis-preview/catalogIcon-molgenis.svg
+icon: https://git.webhosting.rug.nl/molgenis/molgenis-ops-docker-helm/raw/master/molgenis/catalogIcon-molgenis.svg

molgenis/README.md

@@ -4,9 +4,10 @@ This chart is used for acceptance and production use cases.
 ## Containers
 This chart spins up a MOLGENIS instance with HTTPD. The created containers are:
 
-- HTTPD
 - MOLGENIS
 
 ## MOLGENIS
 
-## HTTPD
+
+## Firewall
+Is defined

molgenis/questions.yml

@@ -17,20 +17,64 @@ questions:
   - "registry.hub.docker.com"
   - "registry.molgenis.org"
   required: true
-  group: "MOLGENIS - Version"
+  group: "MOLGENIS"
   label: Registry
 - variable: molgenis.image.tag
   default: "stable"
-  description: "Select a MOLGENIS version"
-  type: enum
-  options:
-  - "latest"
-  - "stable"
-  - "7.1-stable"
-  - "7.0-stable"
+  description: "Select a MOLGENIS version (check the registry.molgenis.org or hub.docker.com for other tags)"
+  type: string
   required: true
-  group: "MOLGENIS - Version"
+  group: "MOLGENIS"
   label: Version
+- variable: molgenis.services.opencpu.uriHost
+  default: ""
+  description: "Specify the OpenCPU cluster"
+  type: string
+  required: true
+  group: "MOLGENIS"
+  label: OpenCPU cluster
+- variable: molgenis.services.elasticsearch.clusterName
+  default: "molgenis"
+  description: "Set the index name of MOLGENIS"
+  type: string
+  required: true
+  group: "MOLGENIS"
+  label: Elasticsearch clustername
+- variable: molgenis.services.elasticsearch.transportAddress
+  default: "localhost:9300"
+  description: "Set the transport address for the elasticsearch node communication port and low-level api (which we use)"
+  type: string
+  required: true
+  group: "MOLGENIS"
+  label: Elasticsearch transport address
+- variable: molgenis.services.postgres.host
+  default: "localhost"
+  description: "Set the location of the postgres cluster"
+  type: string
+  required: true
+  group: "MOLGENIS"
+  label: Postgres cluster location
+- variable: molgenis.services.postgres.scheme
+  default: "molgenis"
+  description: "Set the database scheme"
+  type: string
+  required: true
+  group: "MOLGENIS"
+  label: Database scheme
+- variable: molgenis.services.postgres.user
+  default: "molgenis"
+  description: "Set user of the database scheme"
+  type: string
+  required: true
+  group: "MOLGENIS"
+  label: Database username
+- variable: molgenis.services.postgres.password
+  default: "molgenis"
+  description: "Set the password of the database scheme"
+  type: string
+  required: true
+  group: "MOLGENIS"
+  label: Database password
 - variable: molgenis.resources.limits.cpu
   default: 1
   description: "CPU limit for this MOLGENIS instance"

molgenis/templates/deployment.yaml

@@ -26,27 +26,27 @@ spec:
       containers:
         - name: molgenis
         {{- with .Values.molgenis }}
-          image: "{{ .image.repository }}/{{ .image.name }}:{{ .image.tag }}"
+          image: {{ .image.repository }}/{{ .image.name }}:{{ .image.tag }}
           imagePullPolicy: {{ .image.pullPolicy }}
           env:
             - name: molgenis.home
               value: /home/molgenis
             - name: opencpu.uri.host
-              value: localhost
+              value: {{ .services.opencpu.uriHost }}
             - name: elasticsearch.transport.addresses
-              value: localhost:9300
+              value: {{ .services.elasticsearch.transportAddresses }}
             - name: elasticsearch.cluster.name
-              value: {{ $.Values.elasticsearch.clusterName }}
+              value: {{ .services.elasticsearch.clusterName }}
             - name: db_uri
-              value: "jdbc:postgresql://localhost/{{ $.Values.postgres.db }}"
+              value: jdbc:postgresql://{{ .services.postgres.host }}/{{ .services.postgres.scheme }}
             - name: db_user
-              value: {{ $.Values.postgres.user }}
+              value: {{ .services.postgres.user }}
             - name: db_password
-              value: {{ $.Values.postgres.password }}
+              value: {{ .services.postgres.password }}
             - name: admin.password
               value: {{ .adminPassword }}
             - name: CATALINA_OPTS
-              value: "{{ .javaOpts }}"
+              value: {{ .javaOpts }}
           ports:
             - containerPort: 8080
 #          livenessProbe:

molgenis/values.yaml

@@ -19,7 +19,7 @@ molgenis:
   image:
     repository: registry.molgenis.org
     name: molgenis/molgenis-app
-    tag: 7.0.0-SNAPSHOT
+    tag: stable
     pullPolicy: Always
   adminPassword: admin
   javaOpts: "-Xmx1g -XX:+UseConcMarkSweepGC -XX:+CMSClassUnloadingEnabled"
@@ -30,6 +30,17 @@ molgenis:
    requests:
     cpu: 200m
     memory: 1Gi
+  services:
+    opencpu:
+      uriHost: localhost
+    elasticsearch:
+      transportAddresses: localhost:9300
+      clusterName: molgenis
+    postgres:
+      host: localhost
+      scheme: molgenis
+      user: molgenis
+      password: molgenis
 
 nodeSelector: {}