sangerFlow/nextflow.config at main · asadprodhan/sangerFlow · GitHub

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resume = true


process {
    withName:'trimR1|trimR2|concatination|renameContigFastaHeader|topBlastHits'          { container = 'quay.io/nf-core/ubuntu:20.04' }
    withName:'revComp|renameR1|renameR2'                                                 { container = 'quay.io/biocontainers/bioawk:1.0--he4a0461_9' }
    withName:alignment                                                                   { container = 'quay.io/staphb/clustalo:1.2.4' }
    withName:contig                                                                      { container = 'quay.io/biocontainers/emboss:5.0.0--h079770c_4' }
    withName:'blastn|blastIndex'                                                         { container = 'quay.io/biocontainers/blast:2.14.1--pl5321h6f7f691_0' }
}


singularity {
 enabled = true
 autoMounts = true
 //runOptions = '-e TERM=xterm-256color'
 envWhitelist = 'TERM'
}