awsbatch Configuration
To be used with awsbatch.
Custom queue and region can be supplied with params.awsqueue, params.awsregion, params.awscli, respectively.
Allow overwrite of trace, timeline, report and dag to allow resuming pipelines.
Config file
awsbatch.config
//Nextflow config file for running on AWS batch
params {
config_profile_description = 'AWSBATCH Cloud Profile'
config_profile_contact = 'Alexander Peltzer (@apeltzer)'
config_profile_url = 'https://aws.amazon.com/batch/'
awsqueue = false
awsregion = 'eu-west-1'
awscli = '/home/ec2-user/miniconda/bin/aws'
}
timeline {
overwrite = true
}
report {
overwrite = true
}
trace {
overwrite = true
}
dag {
overwrite = true
}
process.executor = 'awsbatch'
process.queue = params.awsqueue
aws.region = params.awsregion
aws.batch.cliPath = params.awscli
awsbatch.config
//Nextflow config file for running on AWS batch
params {
config_profile_description = 'AWSBATCH Cloud Profile'
config_profile_contact = 'Alexander Peltzer (@apeltzer)'
config_profile_url = 'https://aws.amazon.com/batch/'
awsqueue = false
awsregion = 'eu-west-1'
awscli = '/home/ec2-user/miniconda/bin/aws'
}
timeline {
overwrite = true
}
report {
overwrite = true
}
trace {
overwrite = true
}
dag {
overwrite = true
}
process.executor = 'awsbatch'
process.queue = params.awsqueue
aws.region = params.awsregion
aws.batch.cliPath = params.awscli
executor
awsbatch
contact
