Deployments repo

This repo contains all the manifests for resources running under Kubernetes (with Istio) at MHRA. It declares our intent, and then we use GitOps to realise this deployment configuration using ArgoCD. Note that all secrets in this repo are encrypted using Bitnami's Sealed Secrets.

All app-specific configurations (e.g. for the Document Index Updater and Medicines API) live in the Products repository so that they can be updated and applied alongside any changes to the applications.

1. An engineer pushes a change to the Products monorepo
2. A Github Action runs a workflow
3. The workflow builds a Docker image, which also runs analysis and tests
4. The workflow pushes the image to the relevant registry
5. The workflow clones this repository (shallow clone), uses Kustomize to edit the relevant configuration with the new image's tag (which is the image's content digest [SHA]), commits and pushes back to this repository
6. The workflow also builds any application-specific manifest changes in the Products monorepo and outputs the result into the relevant application and environment directory within this repository, compiling them into a single manifests.yaml file
7. Argo CD running in the cluster pulls the changed configuration
8. Argo CD synchronises the configuration of the cluster with the configuration specified in this repository
9. If required, new images are pulled (by Kubernetes) from the relevant registry and new pods started
10. Production deployments can be manually synced (although the aim is to have these automatically synchronised as well)

Creating a cluster from scratch

1. Follow the steps in the products repo to set up a Kubernetes cluster on Azure using terraform.

2. Install Istio, Sealed Secrets and ArgoCD. Once installed, ArgoCD will deploy the rest of the configuration (using GitOps). The overlay argument specifies the environment you are deploying to (the default is non-prod):

   cd cluster-init
   
   make overlay=non-prod

Deleting the cluster

1. If you only want to delete Istio, Sealed Secrets, Argo CD:

   cd cluster-init
   
   make delete overlay=non-prod

2. If you want to delete the cluster infrastructure for your environment you can do this from the products repo.

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Useful tools for working with this repo

1. kubectl - The official client for the Kubernetes API

   https://kubernetes.io/docs/reference/kubectl/overview/

   brew install kubernetes-cli

   It may be useful to alias this to something easier to type (and maybe add to your shell rc, e.g. ~/.zshrc).

   alias k=kubectl

   There's also a zsh plugin for kubectl for your ~/.zshrc, e.g.:

   plugins=(git kubectl zsh-syntax-highlighting)

2. kustomize - create a set of manifests for Kubernetes

   https://kustomize.io/

   brew install kustomize

3. kubectx - tools for switching K8s contexts (clusters) and namespaces

   https://kubectx.dev/

   brew install kubectx

   It may be useful to alias these tools to something easier to type (and maybe add to your shell rc, e.g. ~/.zshrc).

   alias kctx=kubectx
   alias kns=kubens

   You should be able to use Tab autocompletion with kctx on contexts from your ~/.kube/config, and with kns on namespaces from the current context. Really useful for quickly changing clusters/namespaces.

4. kube-ps1 - customize your command prompt to display the current context and namespace

   https://github.com/jonmosco/kube-ps1

   brew install kube-ps1

   And for your ~/.zshrc ...

   source "/usr/local/opt/kube-ps1/share/kube-ps1.sh"
   PS1='$(kube_ps1)'$PS1

5. stern - easily tail container logs

   https://github.com/wercker/stern

   brew install stern

   Aggregates logs from all containers whose names match the pattern, e.g. tailing logs from istio-ingressgateway:

   kns istio-system && stern ingress

6. istioctl - official client for the Istio API

   https://istio.io/docs/reference/commands/istioctl/

   brew install istioctl

7. kubeseal - Bitnami Sealed Secrets CLI

   https://github.com/bitnami-labs/sealed-secrets

   brew install kubeseal

   This is used by some of the scripts/Makefiles in this repo to encrypt secrets so that they can be committed to this repo.

8. kind - Kubernetes In Docker

   https://kind.sigs.k8s.io/

   brew install kind

   Useful for creating a local multi-node cluster for testing configurations.

9. argocd - official cli for working with ArgoCD

   brew install argocd

   Your mileage may vary, and you may need to use port-forwarding (or grpc-web) for this to be useful, because we use Istio ingress gateway. It's probably easier to use the web gui.

10. helm - manage templating and installation of helm charts

    brew install helm

    Currently used to configure the cert-manager.