main.nf.test

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// nf-core modules test fasta/recombine
nextflow_process {

    name "Test Process FASTA_RECOMBINE"
    script "../main.nf"
    process "FASTA_RECOMBINE"

    tag "modules"
    tag "modules_ensembl"
    tag "fasta"
    tag "fasta/recombine"

    test("stub outputs: header mode") {

        when {
            options "-stub"

            process {
                """
                def manifest = file("manifest.txt")
                manifest.text = "x\\n"

                def no_file = file("NO_FILE")
                no_file.text = ""

                input[0] = [
                    [ id: 'test' ],
                    manifest,
                    no_file
                ]
                """
            }
        }

        then {
            assert process.trace.tasks().size() == 1
            assert process.out.recombined_fasta.size() == 1
            assert process.success
            assert snapshot(process.out).match()
        }
    }

    test("stub outputs: AGP mode") {

        when {
            options "-stub"

            process {
                """
                def manifest = file("manifest.txt")
                manifest.text = "x\\n"

                def agp = file("test.agp")
                agp.text = ""
                input[0] = [
                    [ id: 'test' ],
                    manifest,
                    agp
                ]
                """
            }
        }

        then {
            assert process.trace.tasks().size() == 1
            assert process.out.recombined_fasta.size() == 1
            assert process.success
            assert snapshot(process.out).match()
        }
    }
}