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33 lines
1.3 KiB
Text
33 lines
1.3 KiB
Text
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#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { GATK4_SPLITINTERVALS } from '../../../../modules/gatk4/splitintervals/main.nf'
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workflow test_gatk4_splitintervals_bed {
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input = [
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[ id:'test' ], // meta map
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file(params.test_data['homo_sapiens']['genome']['genome_multi_interval_bed'], checkIfExists: true)
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]
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fasta = file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)
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fasta_fai = file(params.test_data['homo_sapiens']['genome']['genome_fasta_fai'], checkIfExists: true)
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fasta_dict = file(params.test_data['homo_sapiens']['genome']['genome_dict'], checkIfExists: true)
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GATK4_SPLITINTERVALS ( input, fasta, fasta_fai, fasta_dict)
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}
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workflow test_gatk4_splitintervals_intervals {
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input = [
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[ id:'test' ], // meta map
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file(params.test_data['homo_sapiens']['genome']['genome_interval_list'], checkIfExists: true)
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]
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fasta = file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)
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fasta_fai = file(params.test_data['homo_sapiens']['genome']['genome_fasta_fai'], checkIfExists: true)
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fasta_dict = file(params.test_data['homo_sapiens']['genome']['genome_dict'], checkIfExists: true)
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GATK4_SPLITINTERVALS ( input, fasta, fasta_fai, fasta_dict)
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}
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