nextflow.config and AWS Batch job definition

[st...@marshalldatasolutions.com]

Hi

I want to use a specific job definition that I've already created but I get this error message so I'm wondering if my syntax is incorrect

[warm up] executor > awsbatch

ERROR ~ Error executing process > 'fastqc (FASTQC on ggal_liver)'

Caused by:

  Invalid AWS Batch job definition -- provide a Docker image name or a Batch job definition name

My nextflow.config... if I use my ECR image that works but then it creates a new job def with some default settings. I can change those but it seems like according to the documentation I should be able to use the job def.

profiles {

    awsbatch {

        aws.region = 'us-east-1'

        aws.client.storageEncryption = 'AES256'

        aws.accessKey = 'XXXXXXXXX'

        aws.secretKey = 'XXXXXXXXX'

        process.containter = 'job-definition/Batch-Genomics-CompBio-Dev:3'

process.queue = 'BatchJobQueue'

        executor.name = 'awsbatch'

workDir = 's3://XXXXXX/nextflow/test/data'

        executor.awscli = '/opt/conda/bin/aws'

    }

}

I'm using this version

N E X T F L O W

      version 19.01.0 build 5050

      last modified 22-01-2019 11:19 UTC 

      cite doi:10.1038/nbt.3820

      http://nextflow.io