Merge pull request #277 from replikation/fix_freyja-input #302

	name: DryRun

	on: [push]

	jobs:
	build:
	runs-on: ubuntu-latest
	steps:
	- uses: actions/checkout@v1
	- name: Help_test
	run: curl -s https://get.nextflow.io \| bash && ./nextflow run poreCov.nf --help
	- name: fasta dry run
	run: \|
	touch genome.fasta
	./nextflow run poreCov.nf --fasta genome.fasta -stub -profile stub --cores 2 --max_cores 2
	- name: fastq dry run
	run: \|
	touch reads.fastq
	./nextflow run poreCov.nf --fastq reads.fastq -stub -profile stub --cores 2 --max_cores 2
	- name: fastq_pass dry run
	run: \|
	mkdir fastq_pass
	./nextflow run poreCov.nf --fastq_pass fastq_pass/ -stub -profile stub --cores 2 --max_cores 2
	- name: fast5 dry run
	run: \|
	mkdir fast5
	./nextflow run poreCov.nf --fast5 fast5/ -stub -profile stub --cores 2 --max_cores 2
	- name: fast5 dry run nanopolish
	run: \|
	mkdir fast5_2
	./nextflow run poreCov.nf --fast5 fast5_2/ --nanopolish -stub -profile stub --cores 2 --max_cores 2
	- name: fastq samples dry run
	run: \|
	touch barcode01.fastq.gz
	printf "_id,Status\nsample,BC01\n" > sample.csv
	./nextflow run poreCov.nf --fastq barcode01.fastq.gz --samples sample.csv -stub -profile stub --cores 2 --max_cores 2

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