Kubernetes CRD for yadage workflows

Follow the instructions in the Container Quickstart Guide to create a kubernetes cluster at CERN. Specifically:

1. If you don't yet have one, follow these instructions to request a personal CERN openstack project. Once it's created, you should be able to access your openstack project at https://openstack.cern.ch/project/. Follow these instructions to add your lxplus public key as an openstack keypair, which will allow you to ssh onto openstack nodes in your project from lxplus.

2. Follow these instructions to download the openstack RC file for your openstack project. Then, copy the file onto lxplus: scp my-openstack-rc.sh [email protected]: (note: you should replace my-openstack-rc.sh with the actual name of your openstack rc file).

3. Log onto lxplus-cloud, and source your openstack RC file to get access to your personal openstack project via the openstack API:

ssh [email protected]
source my-openstack-rc.sh

4. Create a kubernetes cluster on your openstack project following the quickstart instructions:

openstack coe cluster create recast-cluster --keypair lxplus --cluster-template kubernetes-1.18.6-3 --node-count 2

# ...Wait for cluster creaton to complete...

# Get the kube config file to access the k8s cluster
$(openstack coe cluster config mykubcluster)

Log onto the master node of your cluster using the IP address shown on openstack at https://openstack.cern.ch/project/instances/ (you can also get the master node IP directly with openstack coe cluster show recast-cluster | grep master_addresses). Clone this git repo

ssh [email protected]
git clone --recursive https://github.com/yadage/yadage-crd.git
cd yadage-crd

Build the crdctrl image and push it to your personal docker hub:

sudo docker login
sudo docker build -t danikam/crdctrl:latest -f images/crdctrl/Dockerfile images/crdctrl
sudo docker push danikam/crdctrl:latest

# Install `kubectl` and helm
curl -LO https://storage.googleapis.com/kubernetes-release/release/v1.19.0/bin/linux/amd64/kubectl
chmod +x ./kubectl
sudo mv ./kubectl /usr/local/bin/kubectl
curl https://raw.githubusercontent.com/helm/helm/master/scripts/get | sudo bash

# Set up clusterrolebinding
kubectl create clusterrolebinding permissive-binding --clusterrole=cluster-admin --user=admin --user=kubelet --group=system:serviceaccounts

Modify the private_token in helm/yadage/values.yaml to a private gitlab token (instructions for creating gitlab tokens) for the account you want to use to access images from the gitlab container registry and input files from private gitlab projects. You can also modify the filebrowser_user and filebrowser_password fields if you want to set passwords for accessing workflow outputs via http using wget.

Example (mods made to helm/yadage/values.yaml private_token: '' --> private_token: 'somePhonyGitlabToken1234' filebrowser_user: '' --> filebrowser_user: 'recast' filebrowser_password: '' --> filebrowser_password: 'recast'

Now you can finish setting up yadage

# Install helm releases for yadage and metacontroller
helm init --service-account default --wait --upgrade
kubectl create namespace yadage
cd helm
helm install metacontroller
helm install yadage --set crdctrl_image=danikam/crdctrl:latest  # replace danikam/crdctrl:latest with the image you pushed to docker hub
cd ..

# Check that the controller pod is running
kubectl get pods -n yadage

# Create a PVC for CERN storage
kubectl create -f crd/pvc_cern.yml 

Secrets need to be added to provide the recast client authentication credentials to pull images from private gitlab registries and download files from eos storage.

Edit the data: [...] field in crd/hepauth_secret.yml with a base64-encoded kinit initialization of the form echo 'BibuSabi4'|kinit [email protected]. To do so, replace BibuSabi4 and recast with the password and username, respectively, of the CERN account you want to use for access, and base-64 encode the whole thing as follows:

printf "echo 'phonypassword'|kinit [email protected]"|base64

which will output

ZWNobyAncGhvbnlwYXNzd29yZCd8a2luaXQgcmVjYXN0QGNlcm4uY2g=

so the data: [...] line would become data: {"getkrb.sh": "ZWNobyAncGhvbnlwYXNzd29yZCd8a2luaXQgcmVjYXN0QGNlcm4uY2g="}.

Now, create the hepauth and hepimgcred secrets for access to eos storage and gitlab registry images, respectively:

kubectl create -f crd/hepauth_secret.yml
kubectl create secret docker-registry hepimgcred --docker-server=gitlab-registry.cern.ch  --docker-username=recast --docker-password=phonypassword --docker-email='none'

where recast in the second line is replaced by the name of the CERN account you want to use for access to images from the gitlab registry and phonypassword is the personal access token used earlier for the private_token field in helm/yadage/values.yaml.

Test out some of the sample workflows located in the examples directory, eg.

kubectl create -f examples/wflow_mg.yml