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c9256616b9
* update tests for new config * fix quast, update more * more updates! * more tests updated * fix tests, added tabix gff3.gz * Delete main.nf Removing SPAdes from PR to avoid merge conflicts with https://github.com/nf-core/modules/pull/396 Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
23 lines
815 B
Text
23 lines
815 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { TIDDIT_SV } from '../../../../software/tiddit/sv/main.nf' addParams( options: [:] )
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workflow test_tiddit_sv {
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input = [ [ id:'test' ], // meta map
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[ file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true) ]
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]
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fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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fai = file(params.test_data['sarscov2']['genome']['genome_fasta_fai'], checkIfExists: true)
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TIDDIT_SV ( input, fasta, fai )
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}
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workflow test_tiddit_sv_no_ref {
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input = [ [ id:'test' ], // meta map
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[ file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true) ]
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]
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TIDDIT_SV ( input, [], [] )
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}
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