reference deployment

Dotmatics Suite on AWS

Biotech informatics and research infrastructure

This Quick Start deploys the Dotmatics suite of informatics products on the Amazon Web Services (AWS) Cloud.

The Dotmatics suite provides a fully integrated set of informatics tools to handle data management, analysis, reporting, and visualization for drug discovery, fine chemicals and agrochemicals, formulations, consumer packaged goods, foods, beverages, or fragrances.

The Quick Start deploys Dotmatics into the infrastructure set up by the Biotech Blueprint core Quick Start. You can also use the Quick Start to deploy Dotmatics into a new, empty virtual private cloud (VPC) or into your existing VPC.

This Quick Start was developed by AWS.

  •  What you'll build
  • This Quick Start sets up the following resources in a preclinical VPC:

    • An Application Load Balancer with a Secure Sockets Layer/Transport Layer Security (SSL/TLS) certificate generated by AWS Certificate Manager (ACM).
    • An internal or external Domain Name System (DNS) CNAME record pointing to the Application Load Balancer via Amazon Route 53.
    • In the private application subnets, a Dotmatics application server, with Dotmatics software installed and configured, in an Auto Scaling group.
    • An Amazon Elastic File System (Amazon EFS) endpoint for shared file storage between application servers.
    • In the private database subnets, Oracle Database (Dotmatics) on Amazon Elastic Compute Cloud (Amazon EC2) with the Dotmatics Pinpoint cartridge for indexing and searching within Oracle Database. This implementation uses the Oracle Database on AWS Quick Start to provision the database with an optional standby replica. 

    The application server and database servers are automatically enrolled as managed hosts in AWS Systems Manager. This enables you to use Systems Manager features like AWS Session Manager to access the servers over Secure Shell (SSH) without requiring a bastion host or opening up ports.

    For more information about the preclinical VPC and other infrastructure components, see the Biotech Blueprint core Quick Start.

  •  How to deploy
  • To deploy Dotmatics on AWS, follow the instructions in the deployment guide. The deployment process includes these steps:

    1. If you don't already have an AWS account, sign up, and sign in to your account.
    2. Stage (upload) the Oracle binaries.
    3. Request a license for Dotmatics by contacting Let them know that you are using the AWS Quick Start for Dotmatics.
    4. Create a hosted zone for security in transit. Skip this step if you have deployed the Biotech Blueprint core Quick Start, which creates a private hosted zone for you.
    5. Approve the Transport Layer Security (TLS) certificate to confirm that you own the domain associated with the hosted zone.
    6. Launch the Quick Start. The deployment takes about 45 minutes. The Quick Start is available in the following AWS Regions: US East (N. Virginia), US West (Oregon), and EU (Ireland).
    7. Test the deployment, and connect to Dotmatics.

    To customize your deployment, you can configure Dotmatics application server and Dotmatics database settings, as discussed in the Quick Start deployment guide.

  •  Cost and licenses
  • You are responsible for the cost of the AWS services used while running this Quick Start reference deployment. There is no additional cost for using the Quick Start.

    The AWS CloudFormation template for this Quick Start includes configuration parameters that you can customize. Some of these settings, such as instance type, will affect the cost of deployment. For cost estimates, see the pricing pages for each AWS service you will be using. Prices are subject to change.

    Tip: After you deploy the Quick Start, we recommend that you enable the AWS Cost and Usage Report to track costs associated with the Quick Start. This report delivers billing metrics to an S3 bucket in your account. It provides cost estimates based on usage throughout each month and finalizes the data at the end of the month. For more information about the report, see the AWS documentation.

    Dotmatics will provide you with a license key that you upload. Contact Dotmatics via email at and let them know that you are using the AWS Quick Start for Dotmatics.