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Merge pull request #185 from ggabernet/master

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awsbatch config update
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Gisela Gabernet 2021-03-28 20:59:40 +02:00 committed by GitHub
commit 71a97ba316
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2 changed files with 17 additions and 3 deletions
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16
conf/awsbatch.config
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@ -7,10 +7,22 @@ params {
awsqueue = false awsqueue = false
awsregion = 'eu-west-1' awsregion = 'eu-west-1'
awscli = '/home/ec2-user/miniconda/bin/aws' awscli = '/home/ec2-user/miniconda/bin/aws'
tracedir = './' }
timeline {
overwrite = true
}
report {
overwrite = true
}
trace {
overwrite = true
}
dag {
overwrite = true
} }
process.executor = 'awsbatch' process.executor = 'awsbatch'
process.queue = params.awsqueue process.queue = params.awsqueue
aws.region = params.awsregion aws.region = params.awsregion
executor.awscli = params.awscli aws.batch.cliPath = params.awscli

4
docs/awsbatch.md
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@ -1,4 +1,6 @@
# nf-core/configs: awsbatch Configuration # nf-core/configs: awsbatch Configuration
To be used with `awsbatch`. To be used with `awsbatch`.
Custom queue, region and CLI path can be supplied with `params.awsqueue`, `params.awsregion`, `params.awscli`, respectively. 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.