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* FIx plasmidid tests for new contigs.fasta file * Fixing two md5sum hashes * Update test path in config for illumina assembly files * Update modules using assembly files * Correctly setting path of assembly files * Update tests/config/test_data.config Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
16 lines
477 B
Text
16 lines
477 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { PLASMIDID } from '../../../software/plasmidid/main.nf' addParams ( options: ['args' : '-k 0.8'] )
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workflow test_plasmidid {
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contigs = [ [ id:'test' ], // meta map
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file(params.test_data['sarscov2']['illumina']['contigs_fasta'], checkIfExists: true)
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]
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fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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PLASMIDID ( contigs, fasta )
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}
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