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0d53a34eed
* initiate agrvate module * remove todos [ci skip] * initiate fastani draft [ci skip] * clean stubs [ci skip] * interim commit [ci skip] * accomodate the batch/per-sample processing [ci skip] * use the meta map [ci skip] * run first test [ci skip] * remove extra spaces [ci skip] * change output file name [ci skip] * update the expected output [ci skip] * update the files used for test [ci skip] * fix typo [ci skip] * test passing [ci skip] * update the description * remove extra files * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * accomodate CR suggestions [ci skip] Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * use meta map for batch analysis * fix the tests * rely upon tuples * Apply suggestions from code review * Update main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
13 lines
410 B
Text
13 lines
410 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { FASTANI } from '../../../modules/fastani/main.nf' addParams( options: [:] )
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workflow test_fastani {
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query = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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reference = file(params.test_data['sarscov2']['illumina']['contigs_fasta'], checkIfExists: true)
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FASTANI ( [[ id:'test' ], query], reference )
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}
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