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41 lines
No EOL
1.4 KiB
Text
41 lines
No EOL
1.4 KiB
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { UNTAR } from '../../../modules/untar/main.nf'
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include { VCFANNO } from '../../../modules/vcfanno/main.nf'
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workflow test_vcfanno {
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input = [
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[ id:'test_compressed', single_end:false ], // meta map
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file(params.test_data['sarscov2']['illumina']['test_vcf_gz'], checkIfExists: true),
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file(params.test_data['sarscov2']['illumina']['test_vcf_gz_tbi'], checkIfExists: true)
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]
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input_2 = [ [ id:'test_compressed', single_end:false ], // meta map
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[] ]
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toml = file(params.test_data['homo_sapiens']['genome']['vcfanno_toml'], checkIfExists: true)
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resource_dir = file(params.test_data['homo_sapiens']['genome']['vcfanno_tar_gz'], checkIfExists: true)
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UNTAR ( resource_dir )
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VCFANNO ( input, input_2, toml, UNTAR.out.untar )
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}
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workflow test_vcfanno_uncompressed {
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input = [ [ id:'test_uncompressed', single_end:false ], // meta map
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[] ,[] ]
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input_2 = [
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[ id:'test_uncompressed', single_end:false ], // meta map
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file(params.test_data['sarscov2']['illumina']['test_vcf'], checkIfExists: true)
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]
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toml = file(params.test_data['homo_sapiens']['genome']['vcfanno_toml'], checkIfExists: true)
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resource_dir = file(params.test_data['homo_sapiens']['genome']['vcfanno_tar_gz'], checkIfExists: true)
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UNTAR ( resource_dir )
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VCFANNO ( input, input_2, toml, UNTAR.out.untar )
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} |