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molgenis-ops-docker-helm/charts/molgenis/templates/deployment.yaml

154 lines
4.9 KiB
YAML

apiVersion: apps/v1beta2
kind: Deployment
metadata:
{{- with .Values.ingress.annotations }}
annotations:
{{ toYaml . | indent 4 }}
{{- end }}
name: {{ template "molgenis.fullname" . }}
labels:
app: {{ template "molgenis.name" . }}
chart: {{ template "molgenis.chart" . }}
release: {{ .Release.Name }}
heritage: {{ .Release.Service }}
spec:
replicas: {{ .Values.replicaCount }}
selector:
matchLabels:
app: {{ template "molgenis.name" . }}
release: {{ .Release.Name }}
strategy:
type: Recreate
template:
metadata:
labels:
app: {{ template "molgenis.name" . }}
release: {{ .Release.Name }}
spec:
containers:
- name: molgenis
{{- with .Values.molgenis }}
image: {{ .image.repository }}/{{ .image.name }}:{{ .image.tag }}
imagePullPolicy: {{ .image.pullPolicy }}
env:
- name: molgenis.home
value: /home/molgenis
- name: opencpu.uri.host
value: {{ .services.opencpu.host }}
- name: elasticsearch.transport.addresses
value: {{ .services.elasticsearch.transportAddresses }}
- name: elasticsearch.cluster.name
value: {{ .services.elasticsearch.clusterName }}
- name: db_uri
value: jdbc:postgresql://{{ .services.postgres.host }}/{{ .services.postgres.scheme }}
- name: db_user
value: {{ .services.postgres.user }}
- name: db_password
value: {{ .services.postgres.password }}
- name: admin.password
value: {{ .adminPassword }}
- name: CATALINA_OPTS
value: "-Xmx{{ .javaOpts.maxHeapSpace }} -XX:+UseConcMarkSweepGC -XX:+CMSClassUnloadingEnabled"
ports:
- containerPort: 8080
{{- if $.Values.persistence.enabled }}
volumeMounts:
- name: molgenis-nfs
mountPath: /home/molgenis
{{- end }}
livenessProbe:
httpGet:
path: /
port: 8080
initialDelaySeconds: 60
periodSeconds: 5
failureThreshold: 25
successThreshold: 1
readinessProbe:
httpGet:
path: /api/v2/version
port: 8080
initialDelaySeconds: 120
periodSeconds: 30
failureThreshold: 3
successThreshold: 1
resources:
{{ toYaml .resources | indent 12 }}
{{- end }}
- name: elasticsearch
{{- with .Values.elasticsearch }}
image: "{{ .image.repository }}:{{ .image.tag }}"
imagePullPolicy: {{ .image.pullPolicy }}
env:
- name: cluster.name
value: {{ .clusterName }}
- name: bootstrap.memory_lock
value: "true"
- name: ES_JAVA_OPTS
value: "{{ .javaOpts }}"
- name: xpack.security.enabled
value: "false"
- name: discovery.type
value: single-node
ports:
- containerPort: 9200
- containerPort: 9300
{{- if $.Values.persistence.enabled }}
volumeMounts:
- name: elasticsearch-nfs
mountPath: /usr/share/elasticsearch/data
{{- end }}
resources:
{{ toYaml .resources | indent 12 }}
{{- end }}
- name: postgres
{{- with .Values.postgres }}
image: "{{ .image.repository }}:{{ .image.tag }}"
imagePullPolicy: {{ .image.pullPolicy }}
env:
- name: POSTGRES_USER
value: {{ $.Values.molgenis.services.postgres.user }}
- name: POSTGRES_PASSWORD
value: {{ $.Values.molgenis.services.postgres.password }}
- name: POSTGRES_DB
value: {{ $.Values.molgenis.services.postgres.scheme }}
ports:
- containerPort: 5432
resources:
{{ toYaml .resources | indent 12 }}
{{- if $.Values.persistence.enabled }}
volumeMounts:
- name: postgres-nfs
mountPath: /var/lib/postgresql/data
{{- end }}
{{- end }}
{{- if .Values.persistence.enabled }}
volumes:
- name: molgenis-nfs
persistentVolumeClaim:
claimName: {{ .Values.molgenis.persistence.claim }}
- name: elasticsearch-nfs
persistentVolumeClaim:
claimName: {{ .Values.elasticsearch.persistence.claim }}
- name: postgres-nfs
persistentVolumeClaim:
claimName: {{ .Values.postgres.persistence.claim }}
{{- end }}
{{- with .Values.nodeSelector }}
nodeSelector:
{{ toYaml . | indent 8 }}
{{- end }}
{{- with .Values.affinity }}
affinity:
{{ toYaml . | indent 8 }}
{{- end }}
{{- with .Values.tolerations }}
tolerations:
{{ toYaml . | indent 8 }}
{{- end }}