@@ -20,12 +20,15 @@ This pipeline is primarily used with a SLURM cluster on the BioHPC Cluster. Howe
Additionally, the pipeline is designed to work with Astrocyte Workflow System using a simple web interface.
Cloud Compatibility
-------------------
This pipeline is also capable of being run on AWS. To do so:
* Build a AWS batch queue and environment either manually or with [aws-cloudformantion](https://console.aws.amazon.com/cloudformation/home?#/stacks/new?stackName=Nextflow&templateURL=https://s3.amazonaws.com/aws-genomics-workflows/templates/nextflow/nextflow-aio.template.yaml)
* Edit one of the aws configs in workflow/config/
* Replace workDir with the S3 bucket generated
* Change region if different
* Change queue to the aws batch queue generated
* The user must be have awscli configured with an appropriate authentication (with ```aws configure``` and access keys) in the environment which nextflow will be run
* Add ```-profile ``` with the name aws config which was custamized
* eg. ```nextflow run workflow/main.nf -profile aws_ondemand```
