Trying to deploy a stateful jupyter notebook in Kubernetes, but not able to save the code written in a notebook, whenever the notebook pod is going down all the code is being deleted. I tried to use persistent volume but unable to achieve the expected result.
UPDATE
Changed mount path to "/home/jovyan" as jyputer saves the ipynb in this location. But now getting PermissionError: [Errno 13] Permission denied: '/home/jovyan/.local' while deploying the pod.
kind: Ingress
metadata:
name: jupyter-ingress
spec:
backend:
serviceName: jupyter-notebook-service
servicePort: 8888
---
kind: Service
apiVersion: v1
metadata:
name: jupyter-notebook-service
spec:
clusterIP: None
selector:
app: jupyter-notebook
ports:
- protocol: TCP
port: 8888
targetPort: 8888
---
apiVersion: apps/v1
kind: StatefulSet
metadata:
name: jupyter-notebook
labels:
app: jupyter-notebook
spec:
replicas: 1
serviceName: "jupyter-notebook-service"
selector:
matchLabels:
app: jupyter-notebook
template:
metadata:
labels:
app: jupyter-notebook
spec:
serviceAccountName: dsx-spark
volumes:
- name: jupyter-pv-storage
persistentVolumeClaim:
claimName: jupyter-pv-claim
containers:
- name: minimal-notebook
image: jupyter/pyspark-notebook:latest
ports:
- containerPort: 8888
command: ["start-notebook.sh"]
args: ["--NotebookApp.token=''"]
volumeMounts:
- mountPath: "/home/jovyan"
name: jupyter-pv-storage
---
kind: PersistentVolumeClaim
apiVersion: v1
metadata:
name: jupyter-pv-claim
spec:
storageClassName: jupyter-pv-storage
accessModes:
- ReadWriteOnce
resources:
requests:
storage: 1Gi
---
---
apiVersion: v1
kind: PersistentVolume
metadata:
name: jupyter-pv-volume
labels:
type: local
spec:
storageClassName: jupyter-pv-storage
capacity:
storage: 1Gi
accessModes:
- ReadWriteOnce
hostPath:
path: "/home/jovyan"
---
apiVersion: storage.k8s.io/v1
kind: StorageClass
metadata:
name: jupyternotebook-pv-storage
annotations:
storageclass.kubernetes.io/is-default-class: "true"
labels:
provisioner: kubernetes.io/vsphere-volume
parameters:
diskformat: zeroedthick
```The Pod with jupyter notebook is non-root user so unable to mount the so we are using initContainers to change user/permission of the Persistent Volume Claim before creating the Pod.
kind: StatefulSet
metadata:
name: jupyter-notebook
labels:
app: jupyter-notebook
spec:
replicas: 1
serviceName: "jupyter-notebook-service"
selector:
matchLabels:
app: jupyter-notebook
template:
metadata:
labels:
app: jupyter-notebook
spec:
serviceAccountName: dsx-spark
volumes:
- name: ci-jupyter-storage-def
persistentVolumeClaim:
claimName: my-jupyter-pv-claim
containers:
- name: minimal-notebook
image: jupyter/pyspark-notebook:latest
ports:
- containerPort: 8888
command: ["start-notebook.sh"]
args: ["--NotebookApp.token=''"]
volumeMounts:
- mountPath: "/home/jovyan/work"
name: ci-jupyter-storage-def
initContainers:
- name: jupyter-data-permission-fix
image: busybox
command: ["/bin/chmod","-R","777", "/data"]
volumeMounts:
- name: ci-jupyter-storage-def
mountPath: /data```As I have already mentioned in the comments you need to make sure that:
The storage for a given Pod must either be provisioned by a PersistentVolume Provisioner based on the requested storage class, or pre-provisioned by an admin. The volumeClaimTemplates will provide stable storage using PersistentVolumes. PersistentVolumes associated with the Pods’ PersistentVolume Claims are not deleted when the Pods, or StatefulSet are deleted.
The container is running as a user that has the permissions to access that volume. It can be done by changing the permissions to 777 or as you already noticed by using a proper initContainers.