nf-core_modules/tests/modules/last/split/main.nf

#!/usr/bin/env nextflow

nextflow.enable.dsl = 2

include { LAST_SPLIT } from '../../../../modules/last/split/main.nf' addParams( options: ['suffix':'.split'] )

workflow test_last_split {
    
    input = [ [ id:'contigs.genome' ], // meta map
              file(params.test_data['sarscov2']['genome']['contigs_genome_maf_gz'], checkIfExists: true) ]

    LAST_SPLIT ( input )
}
New last/split module to find split alignments. (#511) * New last/split module to find split alignments. The `last-split` tool distributed with [LAST](https://gitlab.com/mcfrith/last) finds split or spliced alignments in a MAF file that is produced with, for example, LAST `lastal` command. This new module is part of the work discribed in Issue #464. During this development, we fix the versiob of LAST to 1219 to ensure consistency. We will upgrade it later. * Update software/last/split/main.nf * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-05-24 19:15:57 +00:00			`#!/usr/bin/env nextflow`

			`nextflow.enable.dsl = 2`

Rename software/ directory to modules/ to re-organise module structure (#567) * Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml 2021-07-07 09:10:18 +00:00			`include { LAST_SPLIT } from '../../../../modules/last/split/main.nf' addParams( options: ['suffix':'.split'] )`
New last/split module to find split alignments. (#511) * New last/split module to find split alignments. The `last-split` tool distributed with [LAST](https://gitlab.com/mcfrith/last) finds split or spliced alignments in a MAF file that is produced with, for example, LAST `lastal` command. This new module is part of the work discribed in Issue #464. During this development, we fix the versiob of LAST to 1219 to ensure consistency. We will upgrade it later. * Update software/last/split/main.nf * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> 2021-05-24 19:15:57 +00:00
			`workflow test_last_split {`

			`input = [ [ id:'contigs.genome' ], // meta map`
			`file(params.test_data['sarscov2']['genome']['contigs_genome_maf_gz'], checkIfExists: true) ]`

			`LAST_SPLIT ( input )`
			`}`