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3f4eccbf0f
* testing works but need to fix paths and add exclude list * edited meta file and removed TODOs * left over TODOs * test passed, final push * resolving initial comments * Update software/delly/call/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
17 lines
752 B
Text
17 lines
752 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { DELLY_CALL } from '../../../../software/delly/call/main.nf' addParams( options: [:] )
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workflow test_delly_call {
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input = [ [ id:'test' ], // meta map
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file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
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file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam_bai'], 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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fai = file(params.test_data['homo_sapiens']['genome']['genome_fasta_fai'], checkIfExists: true)
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DELLY_CALL ( input, fasta, fai )
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}
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