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Standalone Mongodb on Kubernetes Cluster

Dilip Kumar
7 min readJul 21, 2019

Since the introduction of StatefulSets in Kubernetes, it became super easy to host MongoDB on the Kubernetes cluster. In this post, I am going to share steps to install the Standalone version of MongoDB on the Kubernetes cluster.

Prerequisite

Before you are please make sure of following

  • If you are developing on your local, please have Minikube or other Kubernetes cluster installed
  • I have used node hostname as `mongodb-node`, please change to match your node selector
  • If you are testing on a private network (mostly office network) then please use your own docker registry for Mongodb docker image.

Quick and Dirty Standalone MongoDB

A simple version of standalone MongoDB can be installed with the following constraints

  • Hardcoded admin username and password
  • Headless service to access standalone MongoDB from other containers
  • No persistent volume
  • No app user

Step1: Use the following as statefulstets.yaml

apiVersion: apps/v1
kind: StatefulSet
metadata:
  name: mongodb-standalone
spec:
  serviceName: database
  replicas: 1
  selector:
    matchLabels:
      app: database
  template:
    metadata:
      labels:
        app: database
        selector: mongodb-standalone
    spec:
      containers:
      - name: mongodb-standalone
        image: mongo:4.0.8
        env:
          - name: MONGO_INITDB_ROOT_USERNAME
            value: admin
          - name: MONGO_INITDB_ROOT_PASSWORD
            value: password
      nodeSelector:
        kubernetes.io/hostname: mongodb-node
---

Step2: Use following headless service.yaml

apiVersion: v1
kind: Service
metadata:
  name: database
  labels:
    app: database
spec:
  clusterIP: None
  selector:
    app: database

Step3: Simply apply these two templates

kubectl apply -f statefulsets.yaml
kubectl apply -f service.yaml

Step4: Use the following to connect running MongoDB

kubectl exec -it mongodb-standalone-0 sh
mongo mongodb://mongodb-standalone-0.database:27017

Step5: Use admin user to login

use admin
db.auth('admin','password')

This standalone MongoDB has many problems as listed in the beginning. Now let’s try to use Kubernetes secrets instead of hardcoded admin password in the template.

Standalone MongoDB with username/password stored in Kubernetes secrets

Since we want to store username/password as secrets, therefore, we need to first add these in the Kubernetes cluster.

Step1: Add secrets in the Kubernetes cluster. The following is sample template for reference.

apiVersion: v1
kind: Secret
metadata:
  name: k8-training
type: Opaque
data:
  MONGO_ROOT_USERNAME: YWRtaW4K
  MONGO_ROOT_PASSWORD: cGFzc3dvcmQK

Step2: Use following statefulsets.yaml to use Kubernetes secrets

apiVersion: apps/v1
kind: StatefulSet
metadata:
  name: mongodb-standalone
spec:
  serviceName: database
  replicas: 1
  selector:
    matchLabels:
      app: database
  template:
    metadata:
      labels:
        app: database
        selector: mongodb-standalone
    spec:
      containers:
      - name: mongodb-standalone
        image: mongo:4.0.8
        env:
          - name: MONGO_INITDB_ROOT_USERNAME_FILE
            value: /etc/k8-training/admin/MONGO_ROOT_USERNAME
          - name: MONGO_INITDB_ROOT_PASSWORD_FILE
            value: /etc/k8-training/admin/MONGO_ROOT_PASSWORD
        volumeMounts:
        - name: k8-training
          mountPath: /etc/k8-training
          readOnly: true
      nodeSelector:
        kubernetes.io/hostname: mongodb-node
      volumes:
      - name: k8-training
        secret:
          secretName: k8-training
          items:
          - key: MONGO_ROOT_USERNAME
            path: admin/MONGO_ROOT_USERNAME
            mode: 0444
          - key: MONGO_ROOT_PASSWORD
            path: admin/MONGO_ROOT_PASSWORD
            mode: 0444
---

Step3: Use regular service.yaml

apiVersion: v1
kind: Service
metadata:
  name: database
  labels:
    app: database
spec:
  clusterIP: None
  selector:
    app: database

Step4: Apply these templates as below

kubectl apply -f secrets.yaml
kubectl apply -f statefulsets.yaml
kubectl apply -f service.yaml

Step5: Use the following to connect running MongoDB

kubectl exec -it mongodb-standalone-0 sh
mongo mongodb://mongodb-standalone-0.database:27017

Ste6: Use admin user to login

use admin
db.auth('admin','password')

This is good so far, however to run it on production, you would like to add application user instead of default admin.

Standalone Mongodb with configured app user

To add other than admin users, we need to map `docker-entrypoint-initdb.d` folder with a script to add a new user.

Step1: Add following config.yaml file

apiVersion: v1
kind: ConfigMap
metadata:
  name: mongodb-standalone
data:
  ensure-users.js: |
    const targetDbStr = 'training';
    const rootUser = cat('/etc/k8-training/admin/MONGO_ROOT_USERNAME');
    const rootPass = cat('/etc/k8-training/admin/MONGO_ROOT_PASSWORD');
    const usersStr = cat('/etc/k8-training/MONGO_USERS_LIST');

    // auth against admin
    const adminDb = db.getSiblingDB('admin');
    adminDb.auth(rootUser, rootPass);
    print('Successfully authenticated admin user');

    // we'll create the users here
    const targetDb = db.getSiblingDB(targetDbStr);

    // user-defined roles should be stored in the admin db
    const customRoles = adminDb
      .getRoles({rolesInfo: 1, showBuiltinRoles: false})
      .map(role => role.role)
      .filter(Boolean);

    // parse the list of users, and create each user as needed
    usersStr
      .trim()
      .split(';')
      .map(s => s.split(':'))
      .forEach(user => {
        const username = user[0];
        const rolesStr = user[1];
        const password = user[2];

        if (!rolesStr || !password) {
          return;
        }

        const roles = rolesStr.split(',');
        const userDoc = {
          user: username,
          pwd: password,
        };

        userDoc.roles = roles.map(role => {
          if (!~customRoles.indexOf(role)) {
            // is this a user defined role?
            return role; // no, it is built-in, just use the role name
          }
          return {role: role, db: 'admin'}; // yes, user-defined, specify the long format
        });

        try {
          targetDb.createUser(userDoc);
        } catch (err) {
          if (!~err.message.toLowerCase().indexOf('duplicate')) {
            // if not a duplicate user
            throw err; // rethrow
          }
        }
      });

Step2: Use the following secrets.yaml for app username and password with permission

apiVersion: v1
kind: Secret
metadata:
  name: k8-training
type: Opaque
data:
  MONGO_ROOT_USERNAME: YWRtaW4K
  MONGO_ROOT_PASSWORD: cGFzc3dvcmQK
  MONGO_USERNAME: dHJhaW5pbmcK
  MONGO_PASSWORD: cGFzc3dvcmQK
  MONGO_USERS_LIST: dHJhaW5pbmc6ZGJBZG1pbixyZWFkV3JpdGU6cGFzc3dvcmQK

Note: This not advisable for production. Please use either vault to store secrets or add secrets directly to Kubernetes. Don’t manage it as source code.

Step3: Use following statefulsets.yaml

apiVersion: apps/v1
kind: StatefulSet
metadata:
  name: mongodb-standalone
spec:
  serviceName: database
  replicas: 1
  selector:
    matchLabels:
      app: database
  template:
    metadata:
      labels:
        app: database
        selector: mongodb-standalone
    spec:
      containers:
      - name: mongodb-standalone
        image: mongo:4.0.8
        env:
          - name: MONGO_INITDB_ROOT_USERNAME_FILE
            value: /etc/k8-training/admin/MONGO_ROOT_USERNAME
          - name: MONGO_INITDB_ROOT_PASSWORD_FILE
            value: /etc/k8-training/admin/MONGO_ROOT_PASSWORD
        volumeMounts:
        - name: k8-training
          mountPath: /etc/k8-training
          readOnly: true
        - name: mongodb-scripts
          mountPath: /docker-entrypoint-initdb.d
          readOnly: true
      nodeSelector:
        kubernetes.io/hostname: mongodb-node
      volumes:
      - name: k8-training
        secret:
          secretName: k8-training
          items:
          - key: MONGO_ROOT_USERNAME
            path: admin/MONGO_ROOT_USERNAME
            mode: 0444
          - key: MONGO_ROOT_PASSWORD
            path: admin/MONGO_ROOT_PASSWORD
            mode: 0444
          - key: MONGO_USERNAME
            path: MONGO_USERNAME
            mode: 0444
          - key: MONGO_PASSWORD
            path: MONGO_PASSWORD
            mode: 0444
          - key: MONGO_USERS_LIST
            path: MONGO_USERS_LIST
            mode: 0444
      - name: mongodb-scripts
        configMap:
          name: mongodb-standalone
          items:
          - key: ensure-users.js
            path: ensure-users.js
---

Step4: Use the same service.yaml

apiVersion: v1
kind: Service
metadata:
  name: database
  labels:
    app: database
spec:
  clusterIP: None
  selector:
    app: database

Step5: Apply these templates as below

kubectl apply -f secrets.yaml
kubectl apply -f statefulsets.yaml
kubectl apply -f service.yaml

Ste6: Use the following to connect running MongoDB

kubectl exec -it mongodb-standalone-0 sh
mongo mongodb://mongodb-standalone-0.database:27017

Step7: Use admin user to login

use training
db.auth('training','password')

So far so good :-) But one of the most important aspects of the database stores it on external storage.

Use external volume to store data outside of the container

Storing data externally is a critical piece for any database. Following steps needs to be done to store data externally

  1. Define StorageClass
  2. Define PersistentVolume
  3. Define PersistentVolumeClaim
  4. Define mongo.conf to change dbPath to /data/db
  5. Update StatefulSets to mound external mounted volume as /data/db

Step1: Use storageclass.yaml as below

kind: StorageClass
apiVersion: storage.k8s.io/v1
metadata:
  name: mongodb-standalone
provisioner: kubernetes.io/no-provisioner
volumeBindingMode: WaitForFirstConsumer
allowVolumeExpansion: true
---

Step2: Use persistent-volume.yaml as below

apiVersion: v1
kind: PersistentVolume
metadata:
    name: mongodb-standalone
spec:
  capacity:
    storage: 2Gi
  volumeMode: Filesystem
  accessModes:
    - ReadWriteOnce
  persistentVolumeReclaimPolicy: Retain
  storageClassName: mongodb-standalone
  local:
    path: /k8-training
  nodeAffinity:
    required:
      nodeSelectorTerms:
      - matchExpressions:
        - key: kubernetes.io/hostname
          operator: In
          values:
            - mongodb-node
---

Step3: Use persistent-volume-claim.yaml as below

kind: PersistentVolumeClaim
apiVersion: v1
metadata:
  name: mongodb-standalone
spec:
  storageClassName: mongodb-standalone
  accessModes:
    - ReadWriteOnce
  volumeMode: Filesystem
  resources:
    requests:
      storage: 1Gi
---

Step4: Use configmap.yaml as below

apiVersion: v1
kind: ConfigMap
metadata:
  name: mongodb-standalone
data:
  mongo.conf: |
    storage:
      dbPath: /data/db
  ensure-users.js: |
    const targetDbStr = 'training';
    const rootUser = cat('/etc/k8-training/admin/MONGO_ROOT_USERNAME');
    const rootPass = cat('/etc/k8-training/admin/MONGO_ROOT_PASSWORD');
    const usersStr = cat('/etc/k8-training/MONGO_USERS_LIST'); // user1:role1A,role1B:pass1[;user2:role2A,role2B:pass2...]

    // auth against admin
    const adminDb = db.getSiblingDB('admin');
    adminDb.auth(rootUser, rootPass);
    print('Successfully authenticated admin user');

    // we'll create the users here
    const targetDb = db.getSiblingDB(targetDbStr);

    // user-defined roles should be stored in the admin db
    const customRoles = adminDb
      .getRoles({rolesInfo: 1, showBuiltinRoles: false})
      .map(role => role.role)
      .filter(Boolean);

    // parse the list of users, and create each user as needed
    usersStr
      .trim()
      .split(';')
      .map(s => s.split(':'))
      .forEach(user => {
        const username = user[0];
        const rolesStr = user[1];
        const password = user[2];

        if (!rolesStr || !password) {
          return;
        }

        const roles = rolesStr.split(',');
        const userDoc = {
          user: username,
          pwd: password,
        };

        userDoc.roles = roles.map(role => {
          if (!~customRoles.indexOf(role)) {
            // is this a user defined role?
            return role; // no, it is built-in, just use the role name
          }
          return {role: role, db: 'admin'}; // yes, user-defined, specify the long format
        });

        try {
          targetDb.createUser(userDoc);
        } catch (err) {
          if (!~err.message.toLowerCase().indexOf('duplicate')) {
            // if not a duplicate user
            throw err; // rethrow
          }
        }
      });

Step5: Use statefulsets.yaml as below

apiVersion: apps/v1
kind: StatefulSet
metadata:
  name: mongodb-standalone
spec:
  serviceName: database
  replicas: 1
  selector:
    matchLabels:
      app: database
  template:
    metadata:
      labels:
        app: database
        selector: mongodb-standalone
    spec:
      containers:
      - name: mongodb-standalone
        image: mongo:4.0.8
        env:
          - name: MONGO_INITDB_ROOT_USERNAME_FILE
            value: /etc/k8-training/admin/MONGO_ROOT_USERNAME
          - name: MONGO_INITDB_ROOT_PASSWORD_FILE
            value: /etc/k8-training/admin/MONGO_ROOT_PASSWORD
        volumeMounts:
        - name: k8-training
          mountPath: /etc/k8-training
          readOnly: true
        - name: mongodb-scripts
          mountPath: /docker-entrypoint-initdb.d
          readOnly: true
        - name: mongodb-conf
          mountPath: /config
          readOnly: true
        - name: mongodb-data
          mountPath: /data/db
      nodeSelector:
        kubernetes.io/hostname: mongodb-node
      volumes:
      - name: k8-training
        secret:
          secretName: k8-training
          items:
          - key: MONGO_ROOT_USERNAME
            path: admin/MONGO_ROOT_USERNAME
            mode: 0444
          - key: MONGO_ROOT_PASSWORD
            path: admin/MONGO_ROOT_PASSWORD
            mode: 0444
          - key: MONGO_USERNAME
            path: MONGO_USERNAME
            mode: 0444
          - key: MONGO_PASSWORD
            path: MONGO_PASSWORD
            mode: 0444
          - key: MONGO_USERS_LIST
            path: MONGO_USERS_LIST
            mode: 0444
      - name: mongodb-scripts
        configMap:
          name: mongodb-standalone
          items:
          - key: ensure-users.js
            path: ensure-users.js
      - name: mongodb-conf
        configMap:
          name: mongodb-standalone
          items:
          - key: mongo.conf
            path: mongo.conf
      - name: mongodb-data
        persistentVolumeClaim:
          claimName: mongodb-standalone
---

Step6: Use the following secrets.yaml for app username and password with permission

apiVersion: v1
kind: Secret
metadata:
  name: k8-training
type: Opaque
data:
  MONGO_ROOT_USERNAME: YWRtaW4K
  MONGO_ROOT_PASSWORD: cGFzc3dvcmQK
  MONGO_USERNAME: dHJhaW5pbmcK
  MONGO_PASSWORD: cGFzc3dvcmQK
  MONGO_USERS_LIST: dHJhaW5pbmc6ZGJBZG1pbixyZWFkV3JpdGU6cGFzc3dvcmQK

Step7: Use same service.yaml

apiVersion: v1
kind: Service
metadata:
  name: database
  labels:
    app: database
spec:
  clusterIP: None
  selector:
    app: database

Step8: Apply these templates as below

kubectl apply -f storageclass.yaml
kubectl apply -f persistent-volume.yaml
kubectl apply -f persistent-volume-claim.yaml
kubectl apply -f secrets.yaml
kubectl apply -f configmap.yaml
kubectl apply -f statefulsets.yaml
kubectl apply -f service.yaml

Step9: Use the following to connect running MongoDB

kubectl exec -it mongodb-standalone-0 sh
mongo mongodb://mongodb-standalone-0.database:27017

Step10: Use admin user to login

use training
db.auth('training','password')
db.users.insert({name: 'your name'})

Step 11: Delete statefulsets and redeploy again to check if data persist or not

kubectl delete statefulsets mongodb-standalone
kubectl apply -f statefulsets.yamlkubectl exec -it mongodb-standalone-0 sh
mongo mongodb://mongodb-standalone-0.database:27017use training
db.auth('training','password')
show collections

Congratulations, you have installed standalone MongoDb for your local development. On a side note; don’t use standalone MongoDb for production. Use either a replica set or sharded cluster for production. You would need following to setup Replicaset/Sharded MongoDB

  • Operator to configure a cluster

To get more insight on MongoDB docker image, please go through official image https://hub.docker.com/_/mongo

Enjoy!!!

Kubernetes
Mongodb

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Dilip Kumar

Written by Dilip Kumar

228 Followers

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