batch_env_template_cfn.yml

AWSTemplateFormatVersion: 2010-09-09

Description: Setup Batch Compute Environment

Parameters:
  RoleStackName:
    Description: "Stack that deploys roles for genomic workflow"
    Type: String
  VPCStackName:
    Description: "Stack that deploys vps for genomic workflow"
    Type: String
  ImageId:
    Description: "Image ID for BatchGenomics AMI."
    Type: String

Mappings:
  RegionMap:
    us-east-1:
      AMI: ami-0be02032628f3507b
    us-west-2:
      AMI: ami-0151d1a9f263d8b04

Resources:
  GenomicSpotEnv:
    Type: AWS::Batch::ComputeEnvironment
    Properties:
      ServiceRole:
        Fn::ImportValue: !Sub "${RoleStackName}:BatchServiceRole"
      Type: MANAGED
      State: ENABLED
      ComputeResources:
        SecurityGroupIds:
          - Fn::ImportValue: !Sub "${VPCStackName}:SecurityGroup"
        BidPercentage: 50
        InstanceRole:
          Fn::ImportValue: !Sub "${RoleStackName}:ECSInstanceProfile"
        InstanceTypes:
          - c5.18xlarge
        ImageId: !Sub "${ImageId}"
        MinvCpus: 0
        DesiredvCpus: 0
        MaxvCpus: 256
        SpotIamFleetRole:
          Fn::ImportValue: !Sub "${RoleStackName}:SpotFleetRole"
        Subnets:
          - Fn::ImportValue: !Sub "${VPCStackName}:SubnetA"
          - Fn::ImportValue: !Sub "${VPCStackName}:SubnetB"
          - Fn::ImportValue: !Sub "${VPCStackName}:SubnetC"
        # Generate an instance name tag that is unique to this environment
        # using the VPC ID for this stack in case we have this stack deployed
        # multiple times in an account.
        Tags:
          Name: !Sub "GenomicSpot"
        Type: SPOT

  GenomicOnDemandEnv:
    Type: AWS::Batch::ComputeEnvironment
    Properties:
      ServiceRole:
        Fn::ImportValue: !Sub "${RoleStackName}:BatchServiceRole"
      Type: MANAGED
      State: ENABLED
      ComputeResources:
        SecurityGroupIds:
          - Fn::ImportValue: !Sub "${VPCStackName}:SecurityGroup"
        InstanceRole:
          Fn::ImportValue: !Sub "${RoleStackName}:ECSInstanceProfile"
        InstanceTypes:
          - c5.18xlarge
        ImageId: !Sub "${ImageId}"
        MinvCpus: 0
        DesiredvCpus: 0
        MaxvCpus: 256
        Subnets:
          - Fn::ImportValue: !Sub "${VPCStackName}:SubnetA"
          - Fn::ImportValue: !Sub "${VPCStackName}:SubnetB"
          - Fn::ImportValue: !Sub "${VPCStackName}:SubnetC"
        # Generate an instance name tag that is unique to this environment
        # using the VPC ID for this stack in case we have this stack deployed
        # multiple times in an account.
        Tags:
          Name: !Sub "GenomicOnDemand"
        Type: EC2
        
  HighPriorityQueue:
    Type: AWS::Batch::JobQueue
    Properties:
      JobQueueName: "HighPriority"
      Priority: 1000
      State: ENABLED
      ComputeEnvironmentOrder:
        - Order: 1
          ComputeEnvironment: !Ref GenomicOnDemandEnv

  LowPriorityQueue:
    Type: AWS::Batch::JobQueue
    Properties:
      JobQueueName: "LowPriority"
      Priority: 1
      State: ENABLED
      ComputeEnvironmentOrder:
        - Order: 1
          ComputeEnvironment: !Ref GenomicSpotEnv