added opencpu stack
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# Patterns to ignore when building packages.
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# This supports shell glob matching, relative path matching, and
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# negation (prefixed with !). Only one pattern per line.
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.DS_Store
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# Common VCS dirs
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.git/
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.gitignore
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.bzr/
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.bzrignore
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.hg/
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.hgignore
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.svn/
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# Common backup files
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*.swp
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*.bak
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*.tmp
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*~
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# Various IDEs
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.project
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.idea/
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*.tmproj
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apiVersion: v1
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appVersion: "1.0"
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description: Opencpu stack for MOLGENIS
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name: molgenis-opencpu
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version: 0.1.1
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sources:
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- https://git.webhosting.rug.nl/molgenis/molgenis-ops-docker-helm.git
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icon: https://git.webhosting.rug.nl/molgenis/molgenis-ops-docker-helm/raw/master/molgenis-opencpu/catalogIcon-molgenis-opencpu.svg
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# MOLGENIS - OpenCPU Helm Chart
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NEXUS repository for kubernetes to deploy on a kubernetes cluster with NFS-share
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## Containers
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This chart will deploy the following containers:
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- OpenCPU
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- MOLGENIS-httpd (to proxy the registry and docker to one domain)
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## Provisioning
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You can choose for the OpenCPU image from which repository you want to pull. Experimental builds are pushed to registry.molgenis.org and the stable builds to hub.docker.com.
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You need to fill out 2 properties to determine which repository you are going to use.
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- ```opencpu.image.repository```
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- ```opencpu.image.tag```
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You can do this in the questions in Rancher or in the ```values.yaml```.
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## Development
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You can test in install the chart by executing:
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```helm lint .```
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To test if your helm chart-syntax is right and:
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```helm install . --dry-run --debug```
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To test if your hem chart works and:
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```helm install .```
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To deploy it on the cluster.
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categories:
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- MOLGENIS
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questions:
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- variable: opencpu.image.repository
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label: Registry
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default: "registry.hub.docker.com"
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description: "Select a registry to pull from"
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type: enum
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options:
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- "registry.hub.docker.com"
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- "registry.molgenis.org"
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required: true
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group: "Provisioning"
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- variable: opencpu.image.tag
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label: Version
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default: ""
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description: "Select a OpenCPU version (check the registry.molgenis.org or hub.docker.com for released tags)"
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type: string
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required: true
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group: "Provisioning"
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{{/* vim: set filetype=mustache: */}}
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{{/*
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Expand the name of the chart.
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*/}}
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{{- define "opencpu.name" -}}
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{{- default .Chart.Name .Values.nameOverride | trunc 63 | trimSuffix "-" -}}
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{{- end -}}
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{{/*
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Create a default fully qualified app name.
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We truncate at 63 chars because some Kubernetes name fields are limited to this (by the DNS naming spec).
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If release name contains chart name it will be used as a full name.
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*/}}
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{{- define "opencpu.fullname" -}}
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{{- if .Values.fullnameOverride -}}
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{{- .Values.fullnameOverride | trunc 63 | trimSuffix "-" -}}
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{{- else -}}
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{{- $name := default .Chart.Name .Values.nameOverride -}}
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{{- if contains $name .Release.Name -}}
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{{- .Release.Name | trunc 63 | trimSuffix "-" -}}
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{{- else -}}
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{{- printf "%s-%s" .Release.Name $name | trunc 63 | trimSuffix "-" -}}
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{{- end -}}
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{{- end -}}
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{{- end -}}
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{{/*
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Create chart name and version as used by the chart label.
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*/}}
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{{- define "opencpu.chart" -}}
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{{- printf "%s-%s" .Chart.Name .Chart.Version | replace "+" "_" | trunc 63 | trimSuffix "-" -}}
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{{- end -}}
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apiVersion: extensions/v1beta1
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kind: Deployment
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metadata:
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{{- with .Values.ingress.annotations }}
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annotations:
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{{ toYaml . | indent 4 }}
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{{- end }}
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name: {{ template "opencpu.fullname" . }}
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labels:
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app: {{ template "opencpu.name" . }}
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chart: {{ template "opencpu.chart" . }}
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release: {{ .Release.Name }}
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heritage: {{ .Release.Service }}
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spec:
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replicas: {{ .Values.replicaCount }}
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selector:
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matchLabels:
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app: {{ template "opencpu.name" . }}
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release: {{ .Release.Name }}
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template:
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metadata:
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labels:
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app: {{ template "opencpu.name" . }}
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release: {{ .Release.Name }}
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spec:
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containers:
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{{- with .Values.opencpu }}
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- name: {{ .name }}
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image: "{{ .image.repository }}/{{ .image.name }}:{{ .image.tag }}"
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imagePullPolicy: {{ .image.pullPolicy }}
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ports:
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- containerPort: {{ .service.port }}
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{{- end }}
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{{- if .Values.ingress.enabled }}
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{{- range .Values.ingress.hosts }}
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apiVersion: extensions/v1beta1
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kind: Ingress
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metadata:
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name: "{{ $.Release.Name }}-ingress"
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labels:
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app: {{ $.Values.opencpu.name }}
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chart: "{{ $.Chart.Name }}-{{ $.Chart.Version }}"
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release: "{{ $.Release.Name }}"
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heritage: "{{ $.Release.Service }}"
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annotations:
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{{- if .tls }}
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ingress.kubernetes.io/secure-backends: "true"
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{{- end }}
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{{- range $key, $value := .annotations }}
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{{ $key }}: {{ $value | quote }}
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{{- end }}
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spec:
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rules:
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- host: {{ .name }}
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http:
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paths:
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- path: {{ default "/" .path }}
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backend:
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serviceName: {{ $.Values.opencpu.service.name }}
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servicePort: {{ $.Values.opencpu.service.port }}
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{{- if .tls }}
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tls:
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- hosts:
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- {{ .name }}
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secretName: {{ .tlsSecret }}
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{{- end }}
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---
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{{- end }}
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{{- end }}
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apiVersion: v1
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kind: Service
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metadata:
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name: {{ .Values.opencpu.service.name }}
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labels:
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app: {{ .Values.opencpu.service.name }}
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release: {{ .Release.Name }}
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heritage: {{ .Release.Service }}
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spec:
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type: {{ .Values.opencpu.service.type }}
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loadBalancerSourceRanges:
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{{- range $index, $rule := .Values.opencpu.service.firewall }}
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- {{ $rule }}
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{{- end }}
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ports:
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- name: {{ .Values.opencpu.service.name }}
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port: {{ .Values.opencpu.service.port }}
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selector:
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app: {{ template "opencpu.name" . }}
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release: {{ .Release.Name }}
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# Default values for nexus.
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# This is a YAML-formatted file.
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# Declare variables to be passed into your templates.
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replicaCount: 1
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environment: production
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opencpu:
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name: opencpu
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strategy:
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type: Recreate
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restartPolicy: Always
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image:
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repository: registry.hub.docker.com
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name: molgenis/opencpu
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tag: stable
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pullPolicy: Always
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service:
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name: opencpu
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type: LoadBalancer
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port: 8004
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firewall:
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- 145.100.224.1/24
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ingress:
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enabled: true
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annotations: {
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kubernetes.io/ingress.class: "nginx",
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nginx.ingress.kubernetes.io/proxy-body-size: "0"
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}
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path: /
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hosts:
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- name: opencpu.molgenis.org
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tls: []
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nodeSelector: {}
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tolerations: []
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affinity: {}
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