nf-core_modules/tests/modules/tabix/tabix/main.nf
Praveen Raj S b3e9b88e80
csi output in TABIX (#1579)
* Added: csi output to TABIX

* Added: tests for csi

* Fix tiddit/sv (#1580)

* Fix fasta ref option for TIDDIT_SV

* Add md5sum's to tiddit/sv tests

Co-authored-by: Daniel Cooke <dcooke@well.ox.ac.uk>

* Fix: prettier issues

Co-authored-by: Daniel Cooke <daniel.cooke@invitae.com>
Co-authored-by: Daniel Cooke <dcooke@well.ox.ac.uk>
2022-04-28 14:41:01 +02:00

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#!/usr/bin/env nextflow
nextflow.enable.dsl = 2
include { TABIX_TABIX as TABIX_BED } from '../../../../modules/tabix/tabix/main.nf'
include { TABIX_TABIX as TABIX_GFF } from '../../../../modules/tabix/tabix/main.nf'
include { TABIX_TABIX as TABIX_VCF_TBI } from '../../../../modules/tabix/tabix/main.nf'
include { TABIX_TABIX as TABIX_VCF_CSI } from '../../../../modules/tabix/tabix/main.nf'
workflow test_tabix_tabix_bed {
input = [ [ id:'B.bed' ], // meta map
[ file(params.test_data['sarscov2']['genome']['test_bed_gz'], checkIfExists: true) ]
]
TABIX_BED ( input )
}
workflow test_tabix_tabix_gff {
input = [ [ id:'test' ], // meta map
[ file(params.test_data['sarscov2']['genome']['genome_gff3_gz'], checkIfExists: true) ]
]
TABIX_GFF ( input )
}
workflow test_tabix_tabix_vcf_tbi {
input = [ [ id:'test.vcf' ], // meta map
[ file(params.test_data['sarscov2']['illumina']['test_vcf_gz'], checkIfExists: true) ]
]
TABIX_VCF_TBI ( input )
}
workflow test_tabix_tabix_vcf_csi {
input = [ [ id:'test.vcf' ], // meta map
[ file(params.test_data['sarscov2']['illumina']['test_vcf_gz'], checkIfExists: true) ]
]
TABIX_VCF_CSI ( input )
}