Tuning Kubelet Garbage Collection & Eviction Thresholds for Devicemapper

Problem

Kubelet does not perform garbage collection with Docker as the underlying Container Runtime using the Device Mapper storage driver.

Environment

• Platform9 Managed Kubernetes – All Versions
• Kubelet
• Docker
• Devicemapper

Cause

Due to a an alleged discrepancy in the Kubernetes code, and based on observations made when querying the Kubelet resource metrics, it appears that Kubelet does not properly record the image filesystem usage based on the DM thin-pool; rather, the disk capacity is based on the root disk.

Resolution

Option A (Recommended): Switch to Supported Storage Driver (Overlay2)

1. Stop the Hostagent and Nodelet daemon services on each worker node.

Bash

systemctl stop pf9-{hostagent,nodeletd}

Warning

The node will now show as offline in the Platform9 UI, and you may receive a host-down notification.

1. Issue a stop for the Nodelet phases.

Bash

sudo /opt/pf9/nodelet/nodeletd phases stop

Warning

All running pods will be drained and all running containers destroyed. Kubelet will no longer report its status, and the Docker daemon will be brought down also.

1. Follow Steps #2-#4 from Configuring Docker with the overlay2 Storage Driver.
2. Start the Hostagent service.

Bash

systemctl start pf9-hostagent

Option B: Tune Kubelet Parameters for Garbage Collection & Eviction Thresholds

1. Run the docker info command on the worker node and identify the Data loop file .

Bash

docker info | grep /var/lib
  Data loop file: /var/lib/docker/devicemapper/devicemapper/data
  Metadata loop file: /var/lib/docker/devicemapper/devicemapper/metadata
 Docker Root Dir: /var/lib/docker
WARNING: the devicemapper storage-driver is deprecated, and will be removed in a future release.
WARNING: devicemapper: usage of loopback devices is strongly discouraged for production use.
         Use `--storage-opt dm.thinpooldev` to specify a custom block storage device.

1. Check the size of the disk/partition on which the data loop file exists and note it down.

Bash

df -h /
Filesystem                 Size  Used Avail Use% Mounted on
/dev/mapper/centos00-root  1.4T   86G  1.3T   7% /

1. Check the size of the data loop file itself and note it down also.

Bash

ls -lh /var/lib/docker/devicemapper/devicemapper/data
-rw-------. 1 root root 100G Jul 13 11:52 /var/lib/docker/devicemapper/devicemapper/data

1. Backup the current worker ConfigMap – worker-default-kubelet-config .

Bash

kubectl get configmap -n kube-system worker-default-kubelet-config -o yaml > worker-default-kubelet-config.yaml

1. Edit the worker-default-kubelet-config ConfigMap, and set the following parameters for Garbage Collection (GC) and Eviction Thresholds.

Bash

kubectl edit -n kube-system worker-default-kubelet-config

Bash

evictionHard:
  "imagefs.available": "89%" // evictionSoft - 5
evictionSoft:
  imagefs.available: "94%" // 100 - ((imagefs * 0.85) / rootdiskfs * 100)
evictionSoftGracePeriod:
  imagefs.available: "5m30s"
imageGCHighThresholdPercent: 4 // (100 - evictionSoft) - X
imageGCLowThresholdPercent: 1 // < imageGCHighThreshold

1. (If necessary, should Kubelet not consume the updated configuration automatically.) Restart the Kubelet service on the worker(s).

Bash

systemctl restart pf9-kubelet

Troubleshooting

Scenario: Kubelet Crashed

If Kubelet has crashed with an unexplainable stacktrace or error, it is likely that there was an error in the configuration. Take the following steps to restore the worker(s).

1. Backup the Kubelet dynamic configuration directory.

Bash

tar -czvf /var/opt/pf9/kube/kubelet-config/dynamic-config dynamic-config-$(date +%s).tgz

1. Recursively remove the directory.

Bash

rm -rf /var/opt/pf9/kube/kubelet-config/dynamic-config

1. Restart the Kubelet service.

Bash

systemctl restart pf9-kubelet

Additional Information

• Dynamic Kubelet Configuration
• Device Mapper Storage Driver – Docker
• Kubelet does not garbage collect docker images based on devicemapper disk usage