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