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25 lines
980 B
Text
25 lines
980 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { VSEARCH_USEARCHGLOBAL } from '../../../../modules/vsearch/usearchglobal/main.nf'
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workflow test_vsearch_usearchglobal {
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query = file(params.test_data['sarscov2']['genome']['transcriptome_fasta'], checkIfExists: true)
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db = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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idcutoff = 0.985
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outoption = "xcfert" // Nonsense text to check default case.
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columns = ""
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VSEARCH_USEARCHGLOBAL ( [[id:'test'], query], db, idcutoff, outoption, columns )
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}
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workflow test_vsearch_usearchglobal_userout {
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query = file(params.test_data['sarscov2']['genome']['transcriptome_fasta'], checkIfExists: true)
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db = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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idcutoff = 0.985
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outoption = "userout"
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columns = "query+target+id"
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VSEARCH_USEARCHGLOBAL ( [[id:'test'], query], db, idcutoff, outoption, columns )
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}
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