Rstudio Operator

Overview

RStudio IDE is an integrated development environment for R widely used by data scientists. The RStudio Operator aims to make running an RStudio on Kubernetes easier by using Kubernetes custom resources.

Installation

Clone the repository and install with Kustomize.

cd rstudio-operator
kustomize build manifests/base | kubectl apply -f -

Rstudio Custom Resource

Field	Description
apiVersion string (Required.)	emmaliaocode.dev/v1
kind string (Required.)	Rstudio
metadata object (Required.)	Standard object's metadata.
spec object (Required.)	Specification of the Rstudio instance. Subfield Description image string (Required.) Image digest from Docker Hub (rocker/rstudio). Must start with the prefix rocker/rstudio and separate the R version with :. For example, rocker/rstudio:4.4.0 creates an Rstudio of R version 4.4.0. imagePullPolicy string Image pull policy. One of Always, Never, IfNotPresent. Defaults to Always if the 'latest' tag is specified in image, or IfNotPresent otherwise. loginSecret string Set the password for logining to Rstudio with a Secret, the secret must contain a password key. Default password will be printed in the container log if this is not set. isRoot boolean Whether the Linux system user should be added to the sudoers group during the Rstudio server init process. Default is false. resources string Compute Resources required by this Rstudio instance. Subfield Description requests string Requests describes the minimum amount of compute resources required. limits string Limits describes the maximum amount of compute resources allowed. storages array Storages are a list of claims that an Rstudio instance is allowed to reference. Subfield Description name string (Required.) Name of the claim. storageSize string (Required.) StorageSize represents the minimum resources the volume should have. accessModes array (Required.) AccessModes contains the desired access modes the volume should have. Could be ReadWriteOnce, ReadOnlyMany, ReadWriteMany. storageClassName string Name of the StorageClass required by the claim. volumes array Volumes that can be mounted to the Rstudio instance. Subfield Description name string (Required.) Name of the volume must be unique. configMap object Mount a ConfigMap that already existed in the same namespace. persistentVolumeClaim object Mount a PersistentVolumeClaim that already existed in the same namespace. secret object Mount a Secret that already existed in the same namespace. emptyDir object Mount a temporary directory that can be used by multiple containers in the same pod. volumeMounts array Volumes to mount into the container's filesystem. Subfield Description name string (Required.) This must match the Name of a Volume. mountPath string (Required.) Path within the container at which the volume should be mounted.
status object	Most recently observed status of the Rstudio.

Usage

Create a password secret for logging in to Rstudio IDE.

kubectl create secret generic rstudio-secret --from-literal=password=[password]

Create a Rstudio custom resource.

kubectl apply -f - <<EOF
apiVersion: emmaliaocode.dev/v1
kind: Rstudio
metadata:
  name: example
  namespace: default
spec:
  image: rocker/rstudio:4.4.0
  imagePullPolicy: IfNotPresent
  loginSecret: rstudio-secret
  isRoot: true
  resources:
    requests:
      cpu: "250m"
      memory: "64Mi"
    limits:
      cpu: "500m"
      memory: "128Mi"
  storages:
  - name: my-storage
    storageClassName: standard
    storageSize: "1Gi"
    accessModes:
    - ReadWriteMany
  volumes:
  - name: my-config
    configMap:
      name: my-config
  - name: my-pvc
    persistentVolumeClaim:
      claimName: my-pvc
  - name: my-secret
    secret:
      secretName: my-secret
  - name: my-empty-dir
    emptyDir:
      sizeLimit: "1Gi"
  volumeMounts:
  - name: my-storage
    mountPath: /storage
  - name: my-config
    mountPath: /config
  - name: my-pvc
    mountPath: /pvc
  - name: my-secret
    mountPath: /secret
  - name: my-empty-dir
    mountPath: /empty-dir
EOF

rstudio.emmaliaocode.dev/example created

Get objects with rstudio=example label.

kubectl get all -l rstudio=example

NAME                    READY   STATUS    RESTARTS   AGE
pod/example-rstudio-0   1/1     Running   0          4m13s

NAME                      TYPE       CLUSTER-IP     EXTERNAL-IP   PORT(S)          AGE
service/example-rstudio   NodePort   10.109.56.60   <none>        8787:32378/TCP   4m13s

NAME                               READY   AGE
statefulset.apps/example-rstudio   1/1     4m13s