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50 lines
1.3 KiB
Text
50 lines
1.3 KiB
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { EMBOSS_SEQRET } from '../../../../modules/emboss/seqret/main.nf'
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include { GUNZIP } from '../../../modules/gunzip/main.nf'
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workflow test_emboss_seqret_gb2embl {
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input = [
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[ id:'test', single_end:false ], // meta map
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file(params.test_data['bacteroides_fragilis']['genome']['genome_gbff_gz'], checkIfExists: true)
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]
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GUNZIP ( input )
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EMBOSS_SEQRET ( GUNZIP.out.gunzip, 'embl' )
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}
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workflow test_emboss_seqret_gb2gff {
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input = [
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[ id:'test', single_end:false ], // meta map
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file(params.test_data['bacteroides_fragilis']['genome']['genome_gbff_gz'], checkIfExists: true)
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]
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GUNZIP ( input )
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EMBOSS_SEQRET ( GUNZIP.out.gunzip, 'gff' )
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}
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workflow test_emboss_seqret_gb2pir {
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input = [
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[ id:'test', single_end:false ], // meta map
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file(params.test_data['bacteroides_fragilis']['genome']['genome_gbff_gz'], checkIfExists: true)
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]
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GUNZIP ( input )
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EMBOSS_SEQRET ( GUNZIP.out.gunzip, 'pir' )
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}
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workflow test_emboss_seqret_gb2fasta {
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input = [
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[ id:'test', single_end:false ], // meta map
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file(params.test_data['bacteroides_fragilis']['genome']['genome_gbff_gz'], checkIfExists: true)
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]
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GUNZIP ( input )
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EMBOSS_SEQRET ( GUNZIP.out.gunzip, 'fasta' )
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}
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