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https://github.com/MillironX/nf-core_modules.git
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796dbb573e
* Remove old nextclade module * Add nextclade/datasetget and nextclade/run modules * Fix ECLint * Add reference and tag as inputs to datasetget module * Fix tests * Adjust spacing
22 lines
623 B
Text
22 lines
623 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { NEXTCLADE_DATASETGET } from '../../../../modules/nextclade/datasetget/main.nf'
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include { NEXTCLADE_RUN } from '../../../../modules/nextclade/run/main.nf'
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workflow test_nextclade_run {
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dataset = 'sars-cov-2'
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reference = 'MN908947'
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tag = '2022-01-05T19:54:31Z'
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NEXTCLADE_DATASETGET ( dataset, reference, tag )
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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']['genome']['genome_fasta'], checkIfExists: true)
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]
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NEXTCLADE_RUN ( input, NEXTCLADE_DATASETGET.out.dataset )
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}
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