Merge branch 'removed-opal' of p281392/thirdparty-ops-docker-helm into master
This commit is contained in:
commit
2866fe7632
|
@ -1,6 +1,6 @@
|
||||||
# Third party - Helm templates
|
# Third party - Helm templates
|
||||||
|
|
||||||
These are the Helm templates that we will use for MOLGENIS operations.
|
These are the Helm templates that we will use for third-party operations.
|
||||||
|
|
||||||
## Kubernetes
|
## Kubernetes
|
||||||
When you want to use kubernetes there are some commands you need to know. Also running on a remote cluster will be a must have to control your whole DTAP.
|
When you want to use kubernetes there are some commands you need to know. Also running on a remote cluster will be a must have to control your whole DTAP.
|
||||||
|
|
|
@ -1,12 +0,0 @@
|
||||||
apiVersion: v1
|
|
||||||
appVersion: "1.0"
|
|
||||||
description: Opal - helm stack (in BETA)
|
|
||||||
name: opal
|
|
||||||
version: 0.0.1
|
|
||||||
sources:
|
|
||||||
- https://git.webhosting.rug.nl/molgenis/thirdparty-ops-docker-helm.git
|
|
||||||
icon: https://git.webhosting.rug.nl/molgenis/thirdparty-ops-docker-helm/
|
|
||||||
home: https://obiba.org
|
|
||||||
maintainers:
|
|
||||||
- name: sidohaakma
|
|
||||||
- name: fdlk
|
|
|
@ -1,13 +0,0 @@
|
||||||
# Opal
|
|
||||||
This chart is used for acceptance and production use cases.
|
|
||||||
|
|
||||||
## Containers
|
|
||||||
The created containers are:
|
|
||||||
|
|
||||||
- Opal
|
|
||||||
- MongoDB
|
|
||||||
- SQL
|
|
||||||
|
|
||||||
## Provisioning
|
|
||||||
You can choose from which registry you want to pull. There is 1 one registry:
|
|
||||||
- https://hub.docker.com
|
|
Binary file not shown.
|
@ -1,35 +0,0 @@
|
||||||
|
|
||||||
categories:
|
|
||||||
- OPAL
|
|
||||||
questions:
|
|
||||||
- variable: opal.environment
|
|
||||||
label: Environment
|
|
||||||
default: "test"
|
|
||||||
description: "Environment of Opal instance"
|
|
||||||
type: enum
|
|
||||||
options:
|
|
||||||
- development
|
|
||||||
- test
|
|
||||||
- acceptance
|
|
||||||
- production
|
|
||||||
required: true
|
|
||||||
group: "Provisioning"
|
|
||||||
- variable: molgenis.type.kind
|
|
||||||
label: Type
|
|
||||||
default: "medium"
|
|
||||||
description: "Type of MOLGENIS resources"
|
|
||||||
type: enum
|
|
||||||
options:
|
|
||||||
- small
|
|
||||||
- medium
|
|
||||||
- large
|
|
||||||
required: true
|
|
||||||
group: "Provisioning"
|
|
||||||
- variable: molgenis.image.tag
|
|
||||||
label: Version
|
|
||||||
default: "stable"
|
|
||||||
description: "Select a MOLGENIS version (check the registry.molgenis.org or hub.docker.com for released tags)"
|
|
||||||
type: string
|
|
||||||
required: true
|
|
||||||
group: "Provisioning"
|
|
||||||
|
|
|
@ -1,6 +0,0 @@
|
||||||
dependencies:
|
|
||||||
- name: mysql
|
|
||||||
repository: https://kubernetes-charts.storage.googleapis.com/
|
|
||||||
version: 0.10.2
|
|
||||||
digest: sha256:77710fe100fb005d51e006d2e19643f9af2b1aadd1c2249c67ffc5be6a095f30
|
|
||||||
generated: 2018-11-06T15:57:20.530933765Z
|
|
|
@ -1,4 +0,0 @@
|
||||||
dependencies:
|
|
||||||
- name: mysql
|
|
||||||
version: ^0.10.2
|
|
||||||
repository: https://kubernetes-charts.storage.googleapis.com/
|
|
|
@ -1,19 +0,0 @@
|
||||||
1. Get the application URL by running these commands:
|
|
||||||
{{- if .Values.ingress.enabled }}
|
|
||||||
{{- range .Values.ingress.hosts }}
|
|
||||||
http{{ if $.Values.ingress.tls }}s{{ end }}://{{ . }}{{ $.Values.ingress.path }}
|
|
||||||
{{- end }}
|
|
||||||
{{- else if contains "NodePort" .Values.service.type }}
|
|
||||||
export NODE_PORT=$(kubectl get --namespace {{ .Release.Namespace }} -o jsonpath="{.spec.ports[0].nodePort}" services {{ template "molgenis.fullname" . }})
|
|
||||||
export NODE_IP=$(kubectl get nodes --namespace {{ .Release.Namespace }} -o jsonpath="{.items[0].status.addresses[0].address}")
|
|
||||||
echo http://$NODE_IP:$NODE_PORT
|
|
||||||
{{- else if contains "LoadBalancer" .Values.service.type }}
|
|
||||||
NOTE: It may take a few minutes for the LoadBalancer IP to be available.
|
|
||||||
You can watch the status of by running 'kubectl get svc -w {{ template "molgenis.fullname" . }}'
|
|
||||||
export SERVICE_IP=$(kubectl get svc --namespace {{ .Release.Namespace }} {{ template "molgenis.fullname" . }} -o jsonpath='{.status.loadBalancer.ingress[0].ip}')
|
|
||||||
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={{ template "molgenis.name" . }},release={{ .Release.Name }}" -o jsonpath="{.items[0].metadata.name}")
|
|
||||||
echo "Visit http://127.0.0.1:8080 to use your application"
|
|
||||||
kubectl port-forward $POD_NAME 8080:80
|
|
||||||
{{- end }}
|
|
|
@ -1,32 +0,0 @@
|
||||||
{{/* vim: set filetype=mustache: */}}
|
|
||||||
{{/*
|
|
||||||
Expand the name of the chart.
|
|
||||||
*/}}
|
|
||||||
{{- define "opal.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 "opal.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 "opal.chart" -}}
|
|
||||||
{{- printf "%s-%s" .Chart.Name .Chart.Version | replace "+" "_" | trunc 63 | trimSuffix "-" -}}
|
|
||||||
{{- end -}}
|
|
|
@ -1,83 +0,0 @@
|
||||||
apiVersion: apps/v1beta2
|
|
||||||
kind: Deployment
|
|
||||||
metadata:
|
|
||||||
{{- with .Values.ingress.annotations }}
|
|
||||||
annotations:
|
|
||||||
{{ toYaml . | indent 4 }}
|
|
||||||
{{- end }}
|
|
||||||
name: {{ template "opal.fullname" . }}
|
|
||||||
labels:
|
|
||||||
app: {{ template "opal.name" . }}
|
|
||||||
chart: {{ template "opal.chart" . }}
|
|
||||||
release: {{ .Release.Name }}
|
|
||||||
heritage: {{ .Release.Service }}
|
|
||||||
spec:
|
|
||||||
replicas: {{ .Values.replicaCount }}
|
|
||||||
selector:
|
|
||||||
matchLabels:
|
|
||||||
app: {{ template "opal.name" . }}
|
|
||||||
release: {{ .Release.Name }}
|
|
||||||
strategy:
|
|
||||||
type: Recreate
|
|
||||||
template:
|
|
||||||
metadata:
|
|
||||||
labels:
|
|
||||||
app: {{ template "opal.name" . }}
|
|
||||||
release: {{ .Release.Name }}
|
|
||||||
spec:
|
|
||||||
containers:
|
|
||||||
- name: opal
|
|
||||||
{{- with .Values.opal }}
|
|
||||||
image: {{ .image.repository }}/{{ .image.name }}:{{ .image.tag }}
|
|
||||||
imagePullPolicy: {{ .image.pullPolicy }}
|
|
||||||
env:
|
|
||||||
- name: OPAL_ADMINISTRATOR_PASSWORD
|
|
||||||
value: "{{ .adminPassword }}"
|
|
||||||
ports:
|
|
||||||
- containerPort: {{ $.Values.service.port }}
|
|
||||||
{{- if $.Values.persistence.enabled }}
|
|
||||||
volumeMounts:
|
|
||||||
- name: opal-nfs
|
|
||||||
mountPath: /home/opal
|
|
||||||
{{- end }}
|
|
||||||
livenessProbe:
|
|
||||||
httpGet:
|
|
||||||
path: /
|
|
||||||
port: {{ $.Values.service.port }}
|
|
||||||
initialDelaySeconds: 60
|
|
||||||
periodSeconds: 5
|
|
||||||
failureThreshold: 25
|
|
||||||
successThreshold: 1
|
|
||||||
resources:
|
|
||||||
{{ toYaml .resources | indent 12 }}
|
|
||||||
{{- end }}
|
|
||||||
- name: rserver
|
|
||||||
{{- with .Values.rserver }}
|
|
||||||
image: {{ .image.repository }}/{{ .image.name }}:{{ .image.tag }}
|
|
||||||
imagePullPolicy: {{ .image.pullPolicy }}
|
|
||||||
ports:
|
|
||||||
- containerPort: 6612
|
|
||||||
- containerPort: 6311
|
|
||||||
resources:
|
|
||||||
{{ toYaml .resources | indent 12 }}
|
|
||||||
{{- end }}
|
|
||||||
|
|
||||||
{{- if .Values.persistence.enabled }}
|
|
||||||
volumes:
|
|
||||||
- name: opal-nfs
|
|
||||||
persistentVolumeClaim:
|
|
||||||
claimName: {{ .Release.Name }}-{{ .Values.opal.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 }}
|
|
|
@ -1,40 +0,0 @@
|
||||||
{{- if .Values.ingress.enabled -}}
|
|
||||||
{{- $fullName := include "opal.fullname" . -}}
|
|
||||||
{{- $ingressPath := .Values.ingress.path -}}
|
|
||||||
apiVersion: extensions/v1beta1
|
|
||||||
kind: Ingress
|
|
||||||
metadata:
|
|
||||||
name: "{{ $.Release.Name }}-ingress"
|
|
||||||
labels:
|
|
||||||
app: {{ $.Values.service.name }}
|
|
||||||
chart: "{{ $.Chart.Name }}-{{ $.Chart.Version }}"
|
|
||||||
release: "{{ .Release.Name }}"
|
|
||||||
heritage: "{{ .Release.Service }}"
|
|
||||||
{{- with .Values.ingress.annotations }}
|
|
||||||
annotations:
|
|
||||||
{{ toYaml . | indent 4 }}
|
|
||||||
{{- end }}
|
|
||||||
spec:
|
|
||||||
{{- if .Values.ingress.tls }}
|
|
||||||
tls:
|
|
||||||
{{- range .Values.ingress.tls }}
|
|
||||||
- hosts:
|
|
||||||
{{- range .hosts }}
|
|
||||||
- {{ . }}
|
|
||||||
{{- end }}
|
|
||||||
secretName: {{ .secretName }}
|
|
||||||
{{- end }}
|
|
||||||
{{- end }}
|
|
||||||
rules:
|
|
||||||
{{- if .Values.ingress.hosts }}
|
|
||||||
{{- range $host := .Values.ingress.hosts }}
|
|
||||||
- host: {{ $host }}
|
|
||||||
http:
|
|
||||||
paths:
|
|
||||||
- path: {{ $ingressPath }}
|
|
||||||
backend:
|
|
||||||
serviceName: "{{ $.Release.Name }}-{{ $.Values.service.name }}"
|
|
||||||
servicePort: {{ $.Values.service.port }}
|
|
||||||
{{- end }}
|
|
||||||
{{- end }}
|
|
||||||
{{- end }}
|
|
|
@ -1,19 +0,0 @@
|
||||||
{{- if .Values.persistence.enabled -}}
|
|
||||||
apiVersion: extensions/v1beta1
|
|
||||||
kind: PersistentVolumeClaim
|
|
||||||
apiVersion: v1
|
|
||||||
metadata:
|
|
||||||
name: {{ .Release.Name }}-{{ .Values.opal.persistence.claim }}
|
|
||||||
annotations:
|
|
||||||
{{- if .Values.persistence.retain }}
|
|
||||||
volume.beta.kubernetes.io/storage-class: "nfs-provisioner-retain"
|
|
||||||
{{- else }}
|
|
||||||
volume.beta.kubernetes.io/storage-class: "nfs-provisioner"
|
|
||||||
{{- end }}
|
|
||||||
spec:
|
|
||||||
accessModes:
|
|
||||||
- ReadWriteMany
|
|
||||||
resources:
|
|
||||||
requests:
|
|
||||||
storage: {{ .Values.opal.persistence.size }}
|
|
||||||
{{- end }}
|
|
|
@ -1,17 +0,0 @@
|
||||||
apiVersion: v1
|
|
||||||
kind: Service
|
|
||||||
metadata:
|
|
||||||
name: "{{ .Release.Name }}-{{ .Values.service.name }}"
|
|
||||||
labels:
|
|
||||||
app: "{{ .Release.Name }}-{{ .Values.service.name }}"
|
|
||||||
chart: {{ template "opal.chart" . }}
|
|
||||||
release: {{ .Release.Name }}
|
|
||||||
heritage: {{ .Release.Service }}
|
|
||||||
spec:
|
|
||||||
type: {{ .Values.service.type }}
|
|
||||||
ports:
|
|
||||||
- name: "{{ .Release.Name }}-{{ .Values.service.name }}"
|
|
||||||
port: {{ .Values.service.port }}
|
|
||||||
selector:
|
|
||||||
app: {{ template "opal.name" . }}
|
|
||||||
release: {{ .Release.Name }}
|
|
|
@ -1,84 +0,0 @@
|
||||||
# Default values for molgenis.
|
|
||||||
|
|
||||||
replicaCount: 1
|
|
||||||
|
|
||||||
service:
|
|
||||||
name: opal
|
|
||||||
type: ClusterIP
|
|
||||||
port: 8080
|
|
||||||
|
|
||||||
ingress:
|
|
||||||
enabled: true
|
|
||||||
annotations:
|
|
||||||
nginx.ingress.kubernetes.io/proxy-body-size: "0"
|
|
||||||
hosts:
|
|
||||||
- opal.dev.molgenis.org
|
|
||||||
path: /
|
|
||||||
tls: []
|
|
||||||
|
|
||||||
opal:
|
|
||||||
advanced: false
|
|
||||||
javaOpts:
|
|
||||||
maxHeapSpace: "4g"
|
|
||||||
resources:
|
|
||||||
limits:
|
|
||||||
cpu: 1
|
|
||||||
memory: 2Gi
|
|
||||||
requests:
|
|
||||||
cpu: 200m
|
|
||||||
memory: 4Gi
|
|
||||||
persistence:
|
|
||||||
size: 10Gi
|
|
||||||
image:
|
|
||||||
repository: registry.hub.docker.com
|
|
||||||
name: obiba/opal
|
|
||||||
tag: latest
|
|
||||||
pullPolicy: Always
|
|
||||||
adminPassword: ?01LifeCycle!
|
|
||||||
persistence:
|
|
||||||
claim: pvc-opal
|
|
||||||
size: 10Gi
|
|
||||||
containerPorts:
|
|
||||||
- 8080
|
|
||||||
|
|
||||||
rserver:
|
|
||||||
image:
|
|
||||||
repository: registry.hub.docker.com
|
|
||||||
name: obiba/opal-rserver
|
|
||||||
tag: latest
|
|
||||||
pullPolicy: IfNotPresent
|
|
||||||
resources:
|
|
||||||
limits:
|
|
||||||
cpu: 1
|
|
||||||
memory: 2Gi
|
|
||||||
containerPorts:
|
|
||||||
- 6612
|
|
||||||
- 6311
|
|
||||||
|
|
||||||
mysql:
|
|
||||||
persistence:
|
|
||||||
enabled: false
|
|
||||||
mysqlRootPassword: ParaD0xa
|
|
||||||
mysqlUser: opal
|
|
||||||
mysqlPassword: ?opal01!
|
|
||||||
initializationFiles:
|
|
||||||
opal-ids.sql: |-
|
|
||||||
CREATE DATABASE IF NOT EXISTS opal_ids DEFAULT CHARACTER SET utf8 DEFAULT COLLATE utf8_general_ci;
|
|
||||||
GRANT ALL PRIVILEGES ON opal_ids.* TO "opal"@"%" IDENTIFIED BY "?opal01!";
|
|
||||||
FLUSH PRIVILEGES;
|
|
||||||
opal-data.sql: |-
|
|
||||||
CREATE DATABASE IF NOT EXISTS opal_data DEFAULT CHARACTER SET utf8 DEFAULT COLLATE utf8_general_ci;
|
|
||||||
GRANT ALL PRIVILEGES ON opal_data.* TO "opal"@"%" IDENTIFIED BY "?opal01!";
|
|
||||||
FLUSH PRIVILEGES;
|
|
||||||
|
|
||||||
persistence:
|
|
||||||
enabled: false
|
|
||||||
retain: false
|
|
||||||
|
|
||||||
nodeSelector: {
|
|
||||||
deployPod: "true"
|
|
||||||
}
|
|
||||||
|
|
||||||
tolerations: []
|
|
||||||
|
|
||||||
affinity: {}
|
|
|
@ -1,21 +0,0 @@
|
||||||
# Patterns to ignore when building packages.
|
|
||||||
# This supports shell glob matching, relative path matching, and
|
|
||||||
# negation (prefixed with !). Only one pattern per line.
|
|
||||||
.DS_Store
|
|
||||||
# Common VCS dirs
|
|
||||||
.git/
|
|
||||||
.gitignore
|
|
||||||
.bzr/
|
|
||||||
.bzrignore
|
|
||||||
.hg/
|
|
||||||
.hgignore
|
|
||||||
.svn/
|
|
||||||
# Common backup files
|
|
||||||
*.swp
|
|
||||||
*.bak
|
|
||||||
*.tmp
|
|
||||||
*~
|
|
||||||
# Various IDEs
|
|
||||||
.project
|
|
||||||
.idea/
|
|
||||||
*.tmproj
|
|
|
@ -1,12 +0,0 @@
|
||||||
apiVersion: v1
|
|
||||||
appVersion: "1.0"
|
|
||||||
description: RStudio stack
|
|
||||||
name: rstudio
|
|
||||||
version: 0.0.1
|
|
||||||
sources:
|
|
||||||
- https://git.webhosting.rug.nl/molgenis/thirdparty-ops-docker-helm.git
|
|
||||||
icon: https://raw.git.webhosting.rug.nl/molgenis/thirdparty-ops-docker-helm/master/charts/rstudio/catalog-molgenis-rstudio.svg
|
|
||||||
home: https://www.rocker.org
|
|
||||||
maintainers:
|
|
||||||
- name: sidohaakma
|
|
||||||
- name: fdlk
|
|
|
@ -1,37 +0,0 @@
|
||||||
# MOLGENIS - RStudio Helm Chart
|
|
||||||
|
|
||||||
An RStudio instance to support DataSHIELD users in setting up a central analysis server instance.
|
|
||||||
|
|
||||||
## Containers
|
|
||||||
|
|
||||||
This chart will deploy the following container:
|
|
||||||
|
|
||||||
- molgenis-rstudio (with DataSHIELD packages)
|
|
||||||
|
|
||||||
## Provisioning
|
|
||||||
You can choose for the RStudio image from which repository you want to pull. Experimental builds are pushed to registry.molgenis.org and the stable builds to hub.docker.com.
|
|
||||||
You need to fill out 2 properties to determine which repository you are going to use.
|
|
||||||
|
|
||||||
- ```rstudio.image.repository```
|
|
||||||
- ```rstudio.image.tag```
|
|
||||||
|
|
||||||
You can do this in the questions in Rancher or in the ```values.yaml```.
|
|
||||||
|
|
||||||
## Development
|
|
||||||
You can test in install the chart by executing:
|
|
||||||
|
|
||||||
```helm lint .```
|
|
||||||
|
|
||||||
To test if your helm chart-syntax is right and:
|
|
||||||
|
|
||||||
```helm install . --dry-run --debug```
|
|
||||||
|
|
||||||
To test if your hem chart works and:
|
|
||||||
|
|
||||||
```helm install .```
|
|
||||||
|
|
||||||
To deploy it on the cluster.
|
|
||||||
|
|
||||||
```curl -L -u xxxx:xxxx http://registry.molgenis.org/repository/helm/ --upload-file molgenis-x.x.x.tgz```
|
|
||||||
|
|
||||||
To push it to the registry
|
|
|
@ -1,31 +0,0 @@
|
||||||
|
|
||||||
categories:
|
|
||||||
- MOLGENIS
|
|
||||||
questions:
|
|
||||||
- variable: rstudio.environment
|
|
||||||
label: Environment
|
|
||||||
default: development
|
|
||||||
type: enum
|
|
||||||
options:
|
|
||||||
- development
|
|
||||||
- test
|
|
||||||
- acceptence
|
|
||||||
- production
|
|
||||||
group: "Provisioning"
|
|
||||||
- variable: rstudio.image.repository
|
|
||||||
label: Registry
|
|
||||||
default: "registry.hub.docker.com"
|
|
||||||
description: "Select a registry to pull from"
|
|
||||||
type: enum
|
|
||||||
options:
|
|
||||||
- "registry.hub.docker.com"
|
|
||||||
- "registry.molgenis.org"
|
|
||||||
required: true
|
|
||||||
group: "Provisioning"
|
|
||||||
- variable: rstudio.image.tag
|
|
||||||
label: Version
|
|
||||||
default: ""
|
|
||||||
description: "Select a RStudio version (check the registry.molgenis.org or hub.docker.com for released tags)"
|
|
||||||
type: string
|
|
||||||
required: true
|
|
||||||
group: "Provisioning"
|
|
|
@ -1,32 +0,0 @@
|
||||||
{{/* vim: set filetype=mustache: */}}
|
|
||||||
{{/*
|
|
||||||
Expand the name of the chart.
|
|
||||||
*/}}
|
|
||||||
{{- define "rstudio.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 "rstudio.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 "rstudio.chart" -}}
|
|
||||||
{{- printf "%s-%s" .Chart.Name .Chart.Version | replace "+" "_" | trunc 63 | trimSuffix "-" -}}
|
|
||||||
{{- end -}}
|
|
|
@ -1,46 +0,0 @@
|
||||||
apiVersion: extensions/v1beta1
|
|
||||||
kind: Deployment
|
|
||||||
metadata:
|
|
||||||
{{- with .Values.ingress.annotations }}
|
|
||||||
annotations:
|
|
||||||
{{ toYaml . | indent 4 }}
|
|
||||||
{{- end }}
|
|
||||||
name: {{ template "rstudio.fullname" . }}
|
|
||||||
labels:
|
|
||||||
app: {{ template "rstudio.name" . }}
|
|
||||||
chart: {{ template "rstudio.chart" . }}
|
|
||||||
release: {{ .Release.Name }}
|
|
||||||
heritage: {{ .Release.Service }}
|
|
||||||
spec:
|
|
||||||
replicas: {{ .Values.replicaCount }}
|
|
||||||
selector:
|
|
||||||
matchLabels:
|
|
||||||
app: {{ template "rstudio.name" . }}
|
|
||||||
release: {{ .Release.Name }}
|
|
||||||
template:
|
|
||||||
metadata:
|
|
||||||
labels:
|
|
||||||
app: {{ template "rstudio.name" . }}
|
|
||||||
release: {{ .Release.Name }}
|
|
||||||
spec:
|
|
||||||
containers:
|
|
||||||
{{- with .Values.rstudio }}
|
|
||||||
- name: {{ .name }}
|
|
||||||
image: "{{ .image.repository }}/{{ .image.name }}:{{ .image.tag }}"
|
|
||||||
imagePullPolicy: {{ .image.pullPolicy }}
|
|
||||||
env:
|
|
||||||
- name: PASSWORD
|
|
||||||
value: "{{ .adminPassword }}"
|
|
||||||
ports:
|
|
||||||
- containerPort: {{ .service.port }}
|
|
||||||
livenessProbe:
|
|
||||||
httpGet:
|
|
||||||
path: /
|
|
||||||
port: {{ .service.port }}
|
|
||||||
initialDelaySeconds: 60
|
|
||||||
periodSeconds: 5
|
|
||||||
failureThreshold: 25
|
|
||||||
successThreshold: 1
|
|
||||||
{{- end }}
|
|
||||||
|
|
||||||
|
|
|
@ -1,36 +0,0 @@
|
||||||
{{- if .Values.ingress.enabled }}
|
|
||||||
{{- range .Values.ingress.hosts }}
|
|
||||||
apiVersion: extensions/v1beta1
|
|
||||||
kind: Ingress
|
|
||||||
metadata:
|
|
||||||
name: "{{ $.Release.Name }}-ingress"
|
|
||||||
labels:
|
|
||||||
app: "{{ .Release.Name}}-{{ .Values.rstudio.service.name }}"
|
|
||||||
chart: "{{ $.Chart.Name }}-{{ $.Chart.Version }}"
|
|
||||||
release: "{{ $.Release.Name }}"
|
|
||||||
heritage: "{{ $.Release.Service }}"
|
|
||||||
annotations:
|
|
||||||
{{- if .tls }}
|
|
||||||
ingress.kubernetes.io/secure-backends: "true"
|
|
||||||
{{- end }}
|
|
||||||
{{- range $key, $value := .annotations }}
|
|
||||||
{{ $key }}: {{ $value | quote }}
|
|
||||||
{{- end }}
|
|
||||||
spec:
|
|
||||||
rules:
|
|
||||||
- host: {{ .name }}
|
|
||||||
http:
|
|
||||||
paths:
|
|
||||||
- path: {{ default "/" .path }}
|
|
||||||
backend:
|
|
||||||
serviceName: "{{ .Release.Name}}-{{ .Values.rstudio.service.name }}"
|
|
||||||
servicePort: {{ $.Values.rstudio.service.port }}
|
|
||||||
{{- if .tls }}
|
|
||||||
tls:
|
|
||||||
- hosts:
|
|
||||||
- {{ .name }}
|
|
||||||
secretName: {{ .tlsSecret }}
|
|
||||||
{{- end }}
|
|
||||||
---
|
|
||||||
{{- end }}
|
|
||||||
{{- end }}
|
|
|
@ -1,16 +0,0 @@
|
||||||
apiVersion: v1
|
|
||||||
kind: Service
|
|
||||||
metadata:
|
|
||||||
name: "{{ .Release.Name}}-{{ .Values.rstudio.service.name }}"
|
|
||||||
labels:
|
|
||||||
app: "{{ .Release.Name}}-{{ .Values.rstudio.service.name }}"
|
|
||||||
release: {{ .Release.Name }}
|
|
||||||
heritage: {{ .Release.Service }}
|
|
||||||
spec:
|
|
||||||
type: {{ .Values.rstudio.service.type }}
|
|
||||||
ports:
|
|
||||||
- name: "{{ .Release.Name}}-{{ .Values.rstudio.service.name }}"
|
|
||||||
port: {{ .Values.rstudio.service.port }}
|
|
||||||
selector:
|
|
||||||
app: {{ template "rstudio.name" . }}
|
|
||||||
release: {{ .Release.Name }}
|
|
|
@ -1,40 +0,0 @@
|
||||||
# Default values for nexus.
|
|
||||||
# This is a YAML-formatted file.
|
|
||||||
# Declare variables to be passed into your templates.
|
|
||||||
|
|
||||||
replicaCount: 1
|
|
||||||
|
|
||||||
environment: production
|
|
||||||
|
|
||||||
rstudio:
|
|
||||||
name: rstudio
|
|
||||||
strategy:
|
|
||||||
type: Recreate
|
|
||||||
restartPolicy: Always
|
|
||||||
adminPassword: ?01LifeCycle!
|
|
||||||
image:
|
|
||||||
repository: registry.hub.docker.com
|
|
||||||
name: molgenis/rstudio
|
|
||||||
tag: beta
|
|
||||||
pullPolicy: Always
|
|
||||||
service:
|
|
||||||
name: rstudio
|
|
||||||
type: ClusterIP
|
|
||||||
port: 8787
|
|
||||||
|
|
||||||
ingress:
|
|
||||||
enabled: true
|
|
||||||
annotations: {
|
|
||||||
kubernetes.io/ingress.class: "nginx",
|
|
||||||
nginx.ingress.kubernetes.io/proxy-body-size: "0"
|
|
||||||
}
|
|
||||||
path: /
|
|
||||||
hosts:
|
|
||||||
- name: analysis.dev.molgenis.org
|
|
||||||
tls: []
|
|
||||||
|
|
||||||
nodeSelector: {}
|
|
||||||
|
|
||||||
tolerations: []
|
|
||||||
|
|
||||||
affinity: {}
|
|
Loading…
Reference in New Issue