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e19a9a2474
* new tool: staden_io_lib * update docker containers * add test.yml * add fai index input * typo * fix version.yml * update md5sum * omit md5sum for cram * move scramble to submodule * add missing in/output * remove some comments Co-authored-by: Sateesh Peri <33637490+sateeshperi@users.noreply.github.com>
15 lines
552 B
Text
15 lines
552 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { STADENIOLIB_SCRAMBLE } from '../../../../modules/stadeniolib/scramble/main.nf'
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workflow test_stadeniolib {
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input = [
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[ id:'test', single_end:false ], // meta map
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file(params.test_data['sarscov2']['illumina']['test_paired_end_bam'], checkIfExists: true)
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]
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STADENIOLIB_SCRAMBLE ( input, file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true), file(params.test_data['sarscov2']['genome']['genome_fasta_fai'], checkIfExists: true), [])
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}
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