mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 15:52:05 +00:00
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
|
|
|
|
nextflow.enable.dsl = 2
|
|
|
|
include { TIDDIT_SV } from '../../../../software/tiddit/sv/main.nf' addParams( options: [:] )
|
|
|
|
workflow test_tiddit_sv {
|
|
input = [ [ id:'test' ], // meta map
|
|
[ file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true) ]
|
|
]
|
|
fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
|
|
fai = file(params.test_data['sarscov2']['genome']['genome_fasta_fai'], checkIfExists: true)
|
|
|
|
TIDDIT_SV ( input, fasta, fai )
|
|
}
|
|
|
|
workflow test_tiddit_sv_no_ref {
|
|
input = [ [ id:'test' ], // meta map
|
|
[ file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true) ]
|
|
]
|
|
|
|
TIDDIT_SV ( input, [], [] )
|
|
}
|