nf-core_modules/tests/modules/seqkit/stats/main.nf

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#!/usr/bin/env nextflow
nextflow.enable.dsl = 2
include { SEQKIT_STATS } from '../../../../modules/seqkit/stats/main.nf'
workflow test_seqkit_stats_single_end {
input = [
[ id:'test', single_end:true ], // meta map
file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz'], checkIfExists: true)
]
SEQKIT_STATS ( input )
}
workflow test_seqkit_stats_paired_end {
input = [
[ id:'test', single_end:false ], // meta map
[
file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz'], checkIfExists: true),
file(params.test_data['sarscov2']['illumina']['test_2_fastq_gz'], checkIfExists: true)
]
]
SEQKIT_STATS ( input )
}
workflow test_seqkit_stats_nanopore {
input = [
[ id:'test', single_end:false ], // meta map
file(params.test_data['sarscov2']['nanopore']['test_fastq_gz'], checkIfExists: true),
]
SEQKIT_STATS ( input )
}
workflow test_seqkit_stats_genome_fasta {
input = [
[ id:'test', single_end:false ], // meta map
file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true),
]
SEQKIT_STATS ( input )
}
workflow test_seqkit_stats_transcriptome_fasta {
input = [
[ id:'test', single_end:false ], // meta map
file(params.test_data['sarscov2']['genome']['transcriptome_fasta'], checkIfExists: true),
]
SEQKIT_STATS ( input )
}