#!/usr/bin/env nextflow

nextflow.enable.dsl = 2

include { HMMER_HMMSEARCH } from '../../../../modules/hmmer/hmmsearch/main.nf'

workflow test_hmmer_hmmsearch {

    input = [
        [ id:'test', single_end:false ], // meta map
        file('https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/delete_me/hmmer/bac.16S_rRNA.hmm.gz', checkIfExists: true),
        file('https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/delete_me/hmmer/e_coli_k12_16s.fna.gz', checkIfExists: true),
        false,
        false,
        false
    ]

    HMMER_HMMSEARCH ( input )
}

workflow test_hmmer_hmmsearch_optional {

    input = [
        [ id:'test', single_end:false ], // meta map
        file('https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/delete_me/hmmer/bac.16S_rRNA.hmm.gz', checkIfExists: true),
        file('https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/delete_me/hmmer/e_coli_k12_16s.fna.gz', checkIfExists: true),
        true,
        true,
        true
    ]

    HMMER_HMMSEARCH ( input )
}