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Merged
phyllip3 merged 6 commits into from
Jan 13, 2026
Merged

Github action for ezQTL #88

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94c0fc0
add github actions files and folders
nhoktenz Jan 8, 2026
8c27286
update AWS SSM not use third party action
nhoktenz Jan 8, 2026
7ac8156
Update deploy.yml
nhoktenz Jan 8, 2026
42dbb8a
remove ezqtl-ecs file because we dont need it
nhoktenz Jan 8, 2026
70ed9ab
remove deploy on push
nhoktenz Jan 8, 2026
9dfa883
remove unused variable and comment out unsed steps
nhoktenz Jan 12, 2026
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151 changes: 151 additions & 0 deletions .github/aws/web.yml
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family: "$ECS_WEB_TASK"
networkMode: awsvpc
cpu: "$ECS_WEB_TASK_CPU_UNITS"
memory: "$ECS_WEB_TASK_MEMORY_UNITS"
executionRoleArn: "$ROLE_ARN"
taskRoleArn: "$ROLE_ARN"
requiresCompatibilities:
- FARGATE
volumes:
- name: data
efsVolumeConfiguration:
fileSystemId: "$EFS_FILESYSTEM_ID"
authorizationConfig:
accessPointId: "$EFS_ACCESS_POINT_ID"
iam: ENABLED
transitEncryption: ENABLED
containerDefinitions:
- name: logs
image: public.ecr.aws/aws-observability/aws-for-fluent-bit:stable
firelensConfiguration:
type: fluentbit
memoryReservation: 50
logConfiguration:
logDriver: awslogs
options:
awslogs-group: "/analysistools/$TIER/$APP/web"
awslogs-region: "$AWS_REGION"
awslogs-stream-prefix: logs

- name: frontend
image: "$FRONTEND_IMAGE_LATEST"
portMappings:
- protocol: tcp
containerPort: $FRONTEND_CONTAINER_PORT
environment:
- name: API_BASE_URL
value: http://localhost:$BACKEND_CONTAINER_PORT
secrets:
- name: APP_PATH
valueFrom: "/analysistools/$TIER/$APP/application_path"
- name: SERVER_TIMEOUT
valueFrom: "/analysistools/$TIER/$APP/server_timeout"
logConfiguration:
logDriver: awsfirelens
options:
Name: datadog
tls: "on"
tls.verify: "off"
dd_service: "$TIER-$APP-frontend"
dd_source: "httpd"
dd_tags: "project:$APP tier:$TIER"
provider: ecs
secretOptions:
- name: Host
valueFrom: /analysistools/$TIER/datadog/log_endpoint_host
- name: apikey
valueFrom: /analysistools/$TIER/datadog/api_key
memoryReservation: 100

- name: backend
image: "$BACKEND_IMAGE_LATEST"
environment:
- name: AWS_DEFAULT_REGION
value: "$AWS_REGION"
- name: APP_NAME
value: "$APP"
- name: APP_PORT
value: "$BACKEND_CONTAINER_PORT"
- name: APP_TIER
value: "$TIER"
- name: WORKER_TYPE
value: "fargate"
- name: "TZ"
value: "$TZ"
secrets:
- name: APP_BASE_URL
valueFrom: "/analysistools/$TIER/$APP/base_url"
- name: API_BASE_URL
valueFrom: "/analysistools/$TIER/$APP/base_url"
- name: LOG_LEVEL
valueFrom: "/analysistools/$TIER/datadog/log_level"
- name: SERVER_TIMEOUT
valueFrom: "/analysistools/$TIER/$APP/server_timeout"
- name: APP_DATA_FOLDER
valueFrom: "/analysistools/$TIER/$APP/app_data_folder"
- name: APP_SCRIPTS
valueFrom: "/analysistools/$TIER/$APP/app_scripts"
- name: DATA_FOLDER
valueFrom: "/analysistools/$TIER/$APP/data_folder"
- name: DATA_BUCKET
valueFrom: "/analysistools/$TIER/$APP/data_bucket"
- name: DATA_BUCKET_PREFIX
valueFrom: "/analysistools/$TIER/$APP/data_bucket_prefix"
- name: INPUT_FOLDER
valueFrom: "/analysistools/$TIER/$APP/input_folder"
- name: INPUT_KEY_PREFIX
valueFrom: "/analysistools/$TIER/$APP/input_key_prefix"
- name: IO_BUCKET
valueFrom: "/analysistools/$TIER/$APP/io_bucket"
- name: OUTPUT_FOLDER
valueFrom: "/analysistools/$TIER/$APP/output_folder"
- name: OUTPUT_KEY_PREFIX
valueFrom: "/analysistools/$TIER/$APP/output_key_prefix"
- name: VPC_ID
valueFrom: "/analysistools/$TIER/$APP/vpc_id"
- name: SUBNET_IDS
valueFrom: "/analysistools/$TIER/$APP/subnet_ids"
- name: SECURITY_GROUP_IDS
valueFrom: "/analysistools/$TIER/$APP/security_group_ids"
- name: ECS_CLUSTER
valueFrom: "/analysistools/$TIER/$APP/ecs_cluster"
- name: WORKER_TASK_NAME
valueFrom: "/analysistools/$TIER/$APP/ecs_worker_task"
- name: EMAIL_ADMIN
valueFrom: "/analysistools/$TIER/$APP/email_admin"
- name: EMAIL_SMTP_HOST
valueFrom: "/analysistools/$TIER/$APP/email_smtp_host"
- name: EMAIL_SMTP_PORT
valueFrom: "/analysistools/$TIER/$APP/email_smtp_port"
- name: EMAIL_TECH_SUPPORT
valueFrom: "/analysistools/$TIER/$APP/email_tech_support"
mountPoints:
- sourceVolume: data
containerPath: "/data"
readOnly: false
logConfiguration:
logDriver: awsfirelens
options:
Name: datadog
tls: "on"
tls.verify: "off"
dd_service: "$TIER-$APP-backend"
dd_source: "nodejs"
dd_tags: "project:$APP tier:$TIER"
provider: ecs
secretOptions:
- name: Host
valueFrom: /analysistools/$TIER/datadog/log_endpoint_host
- name: apikey
valueFrom: /analysistools/$TIER/datadog/api_key
tags:
- key: Project
value: "$APP"
- key: ResourceName
value: "$TIER-$APP-web-ecs-task"
- key: EnvironmentTier
value: "$ENVIRONMENT_TIER"
- key: ResourceFunction
value: compute
- key: Creator
value: TF
121 changes: 121 additions & 0 deletions .github/aws/worker.yml
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family: "$ECS_WORKER_TASK"
networkMode: awsvpc
cpu: "$ECS_WORKER_TASK_CPU_UNITS"
memory: "$ECS_WORKER_TASK_MEMORY_UNITS"
executionRoleArn: "$ROLE_ARN"
taskRoleArn: "$ROLE_ARN"
requiresCompatibilities:
- FARGATE
volumes:
- name: data
efsVolumeConfiguration:
fileSystemId: "$EFS_FILESYSTEM_ID"
authorizationConfig:
accessPointId: "$EFS_ACCESS_POINT_ID"
iam: ENABLED
transitEncryption: ENABLED
containerDefinitions:
- name: logs
image: public.ecr.aws/aws-observability/aws-for-fluent-bit:stable
firelensConfiguration:
type: fluentbit
memoryReservation: 50
logConfiguration:
logDriver: awslogs
options:
awslogs-group: "/analysistools/$TIER/$APP/worker"
awslogs-region: "$AWS_REGION"
awslogs-stream-prefix: logs

- name: "worker"
image: "$BACKEND_IMAGE_LATEST"
environment:
- name: AWS_DEFAULT_REGION
value: "$AWS_REGION"
- name: APP_NAME
value: "$APP"
- name: APP_PORT
value: "$BACKEND_CONTAINER_PORT"
- name: APP_TIER
value: "$TIER"
- name: WORKER_TYPE
value: "fargate"
- name: "TZ"
value: "$TZ"
secrets:
- name: APP_BASE_URL
valueFrom: "/analysistools/$TIER/$APP/base_url"
- name: API_BASE_URL
valueFrom: "/analysistools/$TIER/$APP/base_url"
- name: LOG_LEVEL
valueFrom: "/analysistools/$TIER/datadog/log_level"
- name: SERVER_TIMEOUT
valueFrom: "/analysistools/$TIER/$APP/server_timeout"
- name: APP_DATA_FOLDER
valueFrom: "/analysistools/$TIER/$APP/app_data_folder"
- name: APP_SCRIPTS
valueFrom: "/analysistools/$TIER/$APP/app_scripts"
- name: DATA_FOLDER
valueFrom: "/analysistools/$TIER/$APP/data_folder"
- name: DATA_BUCKET
valueFrom: "/analysistools/$TIER/$APP/data_bucket"
- name: DATA_BUCKET_PREFIX
valueFrom: "/analysistools/$TIER/$APP/data_bucket_prefix"
- name: INPUT_FOLDER
valueFrom: "/analysistools/$TIER/$APP/input_folder"
- name: INPUT_KEY_PREFIX
valueFrom: "/analysistools/$TIER/$APP/input_key_prefix"
- name: IO_BUCKET
valueFrom: "/analysistools/$TIER/$APP/io_bucket"
- name: OUTPUT_FOLDER
valueFrom: "/analysistools/$TIER/$APP/output_folder"
- name: OUTPUT_KEY_PREFIX
valueFrom: "/analysistools/$TIER/$APP/output_key_prefix"
- name: VPC_ID
valueFrom: "/analysistools/$TIER/$APP/vpc_id"
- name: SUBNET_IDS
valueFrom: "/analysistools/$TIER/$APP/subnet_ids"
- name: SECURITY_GROUP_IDS
valueFrom: "/analysistools/$TIER/$APP/security_group_ids"
- name: ECS_CLUSTER
valueFrom: "/analysistools/$TIER/$APP/ecs_cluster"
- name: WORKER_TASK_NAME
valueFrom: "/analysistools/$TIER/$APP/ecs_worker_task"
- name: EMAIL_ADMIN
valueFrom: "/analysistools/$TIER/$APP/email_admin"
- name: EMAIL_SMTP_HOST
valueFrom: "/analysistools/$TIER/$APP/email_smtp_host"
- name: EMAIL_SMTP_PORT
valueFrom: "/analysistools/$TIER/$APP/email_smtp_port"
- name: EMAIL_TECH_SUPPORT
valueFrom: "/analysistools/$TIER/$APP/email_tech_support"
mountPoints:
- sourceVolume: data
containerPath: "/data"
readOnly: false
logConfiguration:
logDriver: awsfirelens
options:
Name: datadog
tls: "on"
tls.verify: "off"
dd_service: "$TIER-$APP-worker"
dd_source: "nodejs"
dd_tags: "project:$APP tier:$TIER"
provider: ecs
secretOptions:
- name: Host
valueFrom: /analysistools/$TIER/datadog/log_endpoint_host
- name: apikey
valueFrom: /analysistools/$TIER/datadog/api_key
tags:
- key: Project
value: "$APP"
- key: ResourceName
value: "$TIER-$APP-worker-ecs-task"
- key: EnvironmentTier
value: "$ENVIRONMENT_TIER"
- key: ResourceFunction
value: compute
- key: Creator
value: TF
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