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We plan to run nextflow on AWS batch and configured the cliPath. But it doesn't work. Nextflow still use s5cmd to download files from S3 bucket.
nextflow.config
'''
aws.batch.platformType = 'fargate'
aws.batch.cliPath = '/usr/bin/aws'
'''
Bug report
Cannot use aws cli when the fargateMode is true。
Expected behavior and actual behavior
We plan to run nextflow on AWS batch and configured the cliPath. But it doesn't work. Nextflow still use s5cmd to download files from S3 bucket.
nextflow.config
'''
aws.batch.platformType = 'fargate'
aws.batch.cliPath = '/usr/bin/aws'
'''
" s5cmdPath = fargateMode ? parses5cmdPath(opts.cliPath as String) : null"
https://github.com/nextflow-io/nextflow/blob/master/plugins/nf-amazon/src/main/nextflow/cloud/aws/config/AwsBatchConfig.groovy#L105
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