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https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 02:58:17 +00:00
Update test file imports
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parent
a6b2485dab
commit
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11 changed files with 10 additions and 15 deletions
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@ -1,6 +1,6 @@
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#!/usr/bin/env nextflow
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nextflow.preview.dsl = 2
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include '../../../nf-core/module_testing/check_process_outputs.nf' params(params)
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include '../../../tests/functions/check_process_outputs.nf' params(params)
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include '../main.nf' params(params)
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// Define input channels
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@ -1,6 +1,6 @@
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#!/usr/bin/env nextflow
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nextflow.preview.dsl = 2
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include '../../../../nf-core/module_testing/check_process_outputs.nf' params(params)
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include '../../../../tests/functions/check_process_outputs.nf' params(params)
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include '../main.nf' params(params)
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reads = '../../../../test-datasets/tools/bwa/mem/reads/*_R{1,2}_001.fastq.gz'
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@ -12,7 +12,7 @@ if (params.verbose){
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println ("[WORKFLOW] FASTQ SCREEN ARGS ARE: " + params.fastq_screen_args)
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}
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// TODO: include '../../../nf-core/module_testing/check_process_outputs.nf'
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// TODO: include '../../../tests/functions/check_process_outputs.nf'
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include '../main.nf'
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// Define input channels
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@ -6,7 +6,7 @@ params.fastqc_args = ''
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params.verbose = false
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// TODO: check the output files in some way
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// include '../../../nf-core/module_testing/check_process_outputs.nf'
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// include '../../../tests/functions/check_process_outputs.nf'
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include '../main.nf'
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// Define input channels
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@ -1,6 +1,6 @@
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#!/usr/bin/env nextflow
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nextflow.preview.dsl = 2
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include '../../../nf-core/module_testing/check_process_outputs.nf' params(params)
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include '../../../tests/functions/check_process_outputs.nf' params(params)
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include '../main.nf' params(params)
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// Define input channels
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@ -1,6 +1,6 @@
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#!/usr/bin/env nextflow
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nextflow.preview.dsl = 2
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include '../../../nf-core/module_testing/check_process_outputs.nf' params(params)
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include '../../../tests/functions/check_process_outputs.nf' params(params)
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include '../main.nf' params(params)
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// Define input channels
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@ -5,7 +5,7 @@ params.outdir = "."
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params.verbose = false
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params.multiqc_args = ''
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// include '../../../nf-core/module_testing/check_process_outputs.nf'
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// include '../../../tests/functions/check_process_outputs.nf'
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include '../main.nf'
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if (params.verbose){
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@ -1,6 +1,6 @@
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#!/usr/bin/env nextflow
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nextflow.preview.dsl = 2
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include '../../../nf-core/module_testing/check_process_outputs.nf' params(params)
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include '../../../tests/functions/check_process_outputs.nf' params(params)
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include '../main.nf' params(params)
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// Define input channels
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@ -2,7 +2,7 @@
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nextflow.preview.dsl = 2
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include check_output from '../../../nf-core/module_testing/check_process_outputs.nf'
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include check_output from '../../../tests/functions/check_process_outputs.nf'
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include tcoffee from '../main.nf'
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// Define input channels
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@ -13,8 +13,3 @@ workflow {
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tcoffee(fasta)
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// .check_output()
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}
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@ -12,7 +12,7 @@ if (params.verbose){
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}
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// TODO: check the output files in some way
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// include '../../../nf-core/module_testing/check_process_outputs.nf'
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// include '../../../tests/functions/check_process_outputs.nf'
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include '../main.nf' // params (clip_r1: 6, clip_r2: 10) // how to pass additional parameters
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ch_read_files = Channel
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