Patch release - v2.4.4

Fixes to autoscaling ebs volumes and mountpoints for Step-Functions and Nextflow

Patch release - v2.4.3

Adds an EXIT signal trap to the nextflow container entrypoint script so that workflow status codes are correctly reflected in AWS Batch.

Patch release - v2.4.2

Typo fix

Patch release - v2.4.1

Typo fix

Minor Release - v2.4.0

• Update README

• update nextflow assets

  • update container entrypoint script
    • handle s3 uris as projects
    • sync session cache for resume
    • use logdir and workdir as defined in environment variables
  • update job definition to match container entrypoint script
    • create logdir and workdir environment variables
  • update s3 paths to create / use logdir and workdir
  • update generated config
  • use the new (19.07) config syntax for specifying path to awscli

• update step-functions assets

  • optimize codebuild speed
    • increase size of build instance
  • update container builds
    • add apt-get update
    • increase thread counts
    • handle bam index file staging
    • handle non-standard paired read file names
  • update example workflow
    • use a smaller dataset so that the demo runs faster
  • implement ebs-autoscale on docker datavolume for sfn

• implement two stage deployment

• update aio templates

  • remove deprecated parameters
  • make default values for parameters consistent
  • automatically pick 2 AZs in VPCs
  • make stack exports consistent

• update details to core-environment

Patch release - v2.3.1

Bug fixes and minor updates

• fix ecs-additions for step-functions
• update infrastructure diagrams
• update deployment config
• remove SSM managed roles
• improve nextflow container entrypoint script
• add s3:ListBuckets action for cromwell server instance role
• use "latest" as default cromwell version
• change "TL:DR" to "Quick Start" where applicable

Minor Release - v2.3.0

• mount docker data volume to ebs autoscaling mountpoint for Nextflow
• allow user specified artifact url
• improve resource tagging
  • allow resources to be identified as belonging to a specific stack
  • allow batch launched EC2 instances to be identified as spot or ondemand
• update nextflow container entrypoint script to use full directories and parameters
• documentation updates and typo fixes

Patch release - v2.2.1

• update nextflow documentation

Minor Release - v2.2.0

• add a AWS Step Functions example workflow and "All-in-One" template
• enhance Nextflow template to build nextflow container
• enhance Launch Template to use a large EBS volume for Docker volume pool
• documentation updates and bug fixes

Patch release - v2.1.3

• Fix minor syntax issue in S3 template
• Changes deployment method from copy to sync