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d8ba32c6b5
* Working version of somalier relate * few changes * new changes * corrected test.yml * updated container paths and file paths * changed container and inputFile paths * changed left padding * requested changes * Update modules/somalier/relate/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/somalier/relate/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/somalier/relate/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/somalier/relate/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/somalier/relate/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/somalier/relate/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/somalier/relate/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * requested changes * requested changes Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
30 lines
1.2 KiB
Text
30 lines
1.2 KiB
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { SOMALIER_RELATE } from '../../../../modules/somalier/relate/main.nf'
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workflow test_somalier_relate {
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input = [ [ id:'cohort', single_end:false ], // meta map
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[ file("https://github.com/nf-core/test-datasets/raw/modules/data/delete_me/somalier/normal.somalier", checkIfExists: true),
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file("https://github.com/nf-core/test-datasets/raw/modules/data/delete_me/somalier/tumour.somalier", checkIfExists: true) ]
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]
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SOMALIER_RELATE (input,[],[])
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}
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workflow test_somalier_relate_ped_groups {
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input = [ [ id:'cohort', single_end:false ], // meta map
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[ file("https://github.com/nf-core/test-datasets/raw/modules/data/delete_me/somalier/normal.somalier", checkIfExists: true),
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file("https://github.com/nf-core/test-datasets/raw/modules/data/delete_me/somalier/tumour.somalier", checkIfExists: true) ]
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]
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groups = file("https://github.com/nf-core/test-datasets/raw/modules/data/delete_me/somalier/groups.txt", checkIfExists: true)
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ped = file("https://github.com/nf-core/test-datasets/raw/modules/data/delete_me/somalier/family.ped", checkIfExists: true)
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SOMALIER_RELATE (input,groups,ped)
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}
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