Minor Release - v2.7.0

• Remove installation of Python 2.7.x from Launch Template installation. Python 2.x is EOL
• Update AWS CLI install to v2
• Bugfix for Nextflow JobRole permissions

Patch release - v2.6.6

Update NextflowJobRole - add job definition ARN for batch:SubmitJob

Patch release - v2.6.5

IAM SIDs use CamelCase

Patch release - v2.6.4

Fix SIDs for IAMNextflowJobRole policy statements

Patch release - v2.6.3

Fixes a typo in ebs-autoscale shim

Patch release - v2.6.2

Update TravisCI deploy to trigger on tags

Patch release - v2.6.1

Bugfix (PR #93):

• add backwards compatibility for artifacts
• retrieve artifacts from S3 by default
• keep prior release artifacts

Minor Release - v2.6.0

Bug Fixes:

• fix step-functions example link on quick-start page (#90)
• fix s3 access permissions for cromwell server
  • defaults provided for broad-references and gatk-test-data
  • users can specify additional bucket arns as needed.

Improvements

• container builds use generalized template
  • handle ECR repos using a custom resource - allows retaining them on stack delete
  • use user specified buildspec files for container builds
  • allow codecommit and bitbucket options for source
• scope down nextflow job role permissions

Deprecations

• removed custom ami template
• removed ebs-autoscale code - moved to own repo at awslabs/amazon-ebs-autoscale

Minor Release - v2.5.0

Bug Fixes

• explicitly stop ecs before starting ebs autoscale on /var/lib/docker
• move nextflow additions to before start ecs
• add steps missing that are documented in https://docs.docker.com/storage/storagedriver/btrfs-driver/

Improvements

• Adding SSM agent and permissions to Batch hosts to allow SSM capabilities like Session Manager to facilitate troubleshooting via SSH without needing an EC2 keypair.
• refactor containers and job defs
• use host bind mounted awscli
• use job def environment variables for execution options
• use common entrypoint script for all containers
• update sfn example to use dynamic parallelism
• remove unneeded parameters from job definitions
• update example workflow input
• update build dependencies
• explicitly add pip
• unpin cfn-lint. we need this to stay up to date.
• use common build script for tooling containers
• add container build template
• refactor step functions stack into separate templates
• create a generic workflow template that uses nested templates to build individual containers and the state machine for the workflow
• simplify the workflow definition templates - the container builds and IAM role creation happens in parent templates
• add UpdateReplacePolicy for S3 Buckets

Documentation Updates

• update nextflow documentation
  • fix a couple inconsistencies
  • improve flow and clarity
  • typo fixes
• update step functions docs
  • update images
  • add more details on job definition and sfn task
  • add more details on the example workflow
  • fix job output prefix in example input
  • update workflow completion time
  • add more detailed explanations of important job def parts and how they translate into sfn task code.

Patch release - v2.4.5

Allow SSM access to batch worker instances to facilitate debugging.