Ck 61 ci cd

.gitlab-ci.yml

@@ -5,7 +5,6 @@ variables:
   DOCKER_TAG: $CI_COMMIT_REF_SLUG-$CI_COMMIT_SHORT_SHA
   DOCKER_IMAGE_NAME: $CI_REGISTRY_IMAGE:$DOCKER_TAG
   DOCKER_PULL_SECRET: docker-registry-secret
-  MONGO_URL: $MONGO_URL
 
 cache:
   paths:
@@ -22,9 +21,9 @@ build:
   image: maven:3.8.3-openjdk-17
   stage: build
   variables:
-    MONGO_URL: $MONGO_URL
+    MONGO_URL: $DEV_MONGO_URL
   script:
-    - mvn $MAVEN_CLI_OPTS clean package -Pdocker
+    - mvn $MAVEN_CLI_OPTS clean package
   artifacts:
     paths:
       - target/json-schema-store-0.0.2.jar
@@ -34,8 +33,6 @@ build_docker_image:
   services:
     - docker:dind
   stage: publish
-  variables:
-    MONGO_URL: $MONGO_URL
   script:
     - echo "$CI_DEPLOY_PASSWORD" | docker login $CI_REGISTRY -u $CI_DEPLOY_USER --password-stdin
     - echo $DOCKER_IMAGE_NAME
@@ -49,16 +46,51 @@ build_docker_image:
 #  script:
 #    - mvn $MAVEN_CLI_OPTS test
 #
-deploy:
+deploy_dev:
+  variables:
+    NAMESPACE: biosamples-dev
+    HOST: wwwint.ebi.ac.uk
+    MONGO_URL: $DEV_MONGO_URL
+    VALIDATOR_URL: https://wwwdev.ebi.ac.uk/ait/biovalidator/validate
+  environment:
+    name: dev
+    url: https://wwwint.ebi.ac.uk/biosamples/schema-store
+  extends: .kube_deploy_script
+
+deploy_test:
+  variables:
+    NAMESPACE: biosamples-test
+    HOST: wwwdev.ebi.ac.uk
+    MONGO_URL: $TEST_MONGO_URL
+    VALIDATOR_URL: https://wwwdev.ebi.ac.uk/ait/biovalidator/validate
+  environment:
+    name: test
+    url: https://wwwdev.ebi.ac.uk/biosamples/schema-store
+  when: manual
+  extends: .kube_deploy_script
+
+deploy_prod:
+  variables:
+    NAMESPACE: biosamples-prod
+    HOST: www.ebi.ac.uk
+    MONGO_URL: $PROD_MONGO_URL
+    VALIDATOR_URL: https://wwwdev.ebi.ac.uk/ait/biovalidator/validate
+  environment:
+    name: prod
+    url: https://www.ebi.ac.uk/biosamples/schema-store
+  when: manual
+  extends: .kube_deploy_script
+
+.kube_deploy_script:
   stage: deploy
-  image: dtzar/helm-kubectl:3.11.0
+  image: dtzar/helm-kubectl
   script:
-    - kubectl create namespace $KUBECTL_NAMESPACE || true
-    - kubectl config set-context --current --namespace=${KUBECTL_NAMESPACE}
+    - kubectl create namespace $NAMESPACE || true
+    - kubectl config set-context --current --namespace=${NAMESPACE}
     - kubectl delete secret $DOCKER_PULL_SECRET || true
     - kubectl create secret docker-registry $DOCKER_PULL_SECRET --docker-server=$CI_REGISTRY --docker-username=$CI_DEPLOY_USER --docker-password=$CI_DEPLOY_PASSWORD
-    - envsubst < deployment.yaml > kubernetes.yaml
+    - envsubst < k8s/deployment.yaml > kubernetes.yaml
     - kubectl apply -f kubernetes.yaml
+    - kubectl apply -f k8s/service.yaml
     - kubectl rollout restart deployments json-schema-store
-  when: manual
 

Dockerfile

@@ -2,4 +2,4 @@ FROM openjdk:17-jdk-slim
 EXPOSE 27017
 ARG JAR_FILE=target/json-schema-store-0.0.2.jar
 COPY ${JAR_FILE} json-schema-store.jar
-ENTRYPOINT ["java","-jar","/json-schema-store.jar", "--spring.profiles.active=docker"]
+ENTRYPOINT ["java","-jar","/json-schema-store.jar"]

k8s/deployment.yaml

@@ -2,37 +2,28 @@ apiVersion: apps/v1
 kind: Deployment
 metadata:
   labels:
-    app: schema-store
-  name: schema-store
+    app: json-schema-store
+  name: json-schema-store
 spec:
-  replicas: 2
+  replicas: 1
   selector:
     matchLabels:
-      app: schema-store
+      app: json-schema-store
   template:
     metadata:
       labels:
-        app: schema-store
+        app: json-schema-store
     spec:
       imagePullSecrets:
         - name: $DOCKER_PULL_SECRET
       containers:
-        - name: schema-store
+        - name: json-schema-store
           image: $DOCKER_IMAGE_NAME
           imagePullPolicy: Always
           ports:
-            - containerPort: 8080
-
----
-apiVersion: v1
-kind: Service
-metadata:
-  name: biovalidator-service
-spec:
-  type: NodePort
-  selector:
-    app: schema-store
-  ports:
-    - protocol: TCP
-      port: 8080
-      targetPort: 8080
+            - containerPort: 8085
+          env:
+            - name: MONGO_URL
+              value: ${MONGO_URL}
+            - name: BIO_VALIDATOR_URL
+              value: ${VALIDATOR_URL}

k8s/service.yaml

@@ -1,12 +1,12 @@
 apiVersion: v1
 kind: Service
 metadata:
-  name: schema-store
+  name: json-schema-store
 spec:
   type: NodePort
   selector:
-    app: schema-store
+    app: json-schema-store
   ports:
     - protocol: TCP
-      port: 8080
-      targetPort: 8080
+      port: 8085
+      targetPort: 8085

src/main/resources/application.yml

@@ -1,18 +1,30 @@
+# MongoDB conf
 spring:
-  profiles:
-    active: dev
   mvc:
     pathmatch:
       matching-strategy: ant_path_matcher
   data:
+    mongodb:
+      uri: ${MONGO_URL}
     rest:
       basePath: /api/v2
+server:
+  port: 8085
+  servlet:
+    context-path: /biosamples/schema-store
 # spring actuator
 management:
   endpoints:
     web:
       exposure:
         include: "*"
+
+# Elixir Validator
+schemastore:
+  validator:
+    url: ${BIO_VALIDATOR_URL}
+
+
 logging:
   level:
     org:
@@ -28,9 +40,3 @@ logging:
         ebi:
           biosamples:
             jsonschemastore: INFO
-
-
-# Elixir Validator
-schemastore:
-  validator:
-    url: http://localhost:3020/validate