Workflow

Source: src/AWS/Omics/Workflow.ts

An Amazon HealthOmics private workflow — a bioinformatics workflow (WDL, Nextflow, or CWL) that is executed as one or more runs.

A workflow name is auto-generated from the app, stage, and logical ID unless you provide one. The workflow definition (engine, definitionZip, definitionUri, main, parameterTemplate, accelerators) is immutable — changing any of it replaces the workflow. name, description, storageCapacity, and storageType are updated in place.

Creating a Workflow

Workflow from an inline definition zip

import * as Omics from "alchemy/AWS/Omics";

const workflow = yield* Omics.Workflow("Hello", {
  engine: "WDL",
  main: "main.wdl",
  definitionZip: myZipBytes,
});

Workflow from an S3-hosted definition

const workflow = yield* Omics.Workflow("Hello", {
  engine: "NEXTFLOW",
  definitionUri: "s3://my-bucket/workflows/hello.zip",
});