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* add module AMPlify * Apply suggestions from code review Thanks for the review! Co-authored-by: Moritz E. Beber <midnighter@posteo.net> * removed trailing whitespaces * Apply suggestions from code review Thanks again! Co-authored-by: Moritz E. Beber <midnighter@posteo.net> * Apply suggestions from code review Thank you for the suggestions! Co-authored-by: Sateesh Peri <33637490+sateeshperi@users.noreply.github.com> Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Apply suggestions from code review Co-authored-by: Sateesh Peri <33637490+sateeshperi@users.noreply.github.com> * including review suggestions * fix versions.yml * add model_dir input * add model_dir to meta.yml * complete faa pattern in meta.yml * add fa.gz to pattern Co-authored-by: Moritz E. Beber <midnighter@posteo.net> Co-authored-by: Sateesh Peri <33637490+sateeshperi@users.noreply.github.com> Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
18 lines
558 B
Text
18 lines
558 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { PRODIGAL } from '../../../modules/prodigal/main.nf' addParams( options: [:] )
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include { AMPLIFY_PREDICT } from '../../../../modules/amplify/predict/main.nf' addParams( options: [:] )
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workflow amplify_predict {
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input = [
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[ id:'test', single_end:false ], // meta map
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file(params.test_data['sarscov2']['illumina']['contigs_fasta'], checkIfExists: true)
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]
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model_dir = []
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PRODIGAL ( input, "gff" )
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AMPLIFY_PREDICT ( PRODIGAL.out.amino_acid_fasta, model_dir)
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}
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