Patch: check and require dependencies for each sub command. #207

	name: Tests

	on:
	push:
	branches:
	- master
	- main
	pull_request:
	branches_ignore: []

	jobs:
	Dryrun_Lint:
	runs-on: ubuntu-latest
	steps:
	- uses: actions/checkout@v2
	- uses: docker://snakemake/snakemake:v5.24.2
	- name: Dry-run pipeline
	run: \|
	docker run -v $PWD:/opt2 snakemake/snakemake:v5.24.2 \
	python /opt2/rna-seek run --input \
	/opt2/.tests/KO_S3.R1.fastq.gz /opt2/.tests/KO_S3.R2.fastq.gz \
	/opt2/.tests/KO_S4.R1.fastq.gz /opt2/.tests/KO_S4.R2.fastq.gz \
	/opt2/.tests/WT_S1.R1.fastq.gz /opt2/.tests/WT_S1.R2.fastq.gz --output /opt2/output --genome hg38_30 --mode local --dry-run
	- name: Lint workflow
	continue-on-error: true
	run: \|
	docker run -v $PWD:/opt2 snakemake/snakemake:v5.24.2 snakemake --lint -s /opt2/output/workflow/Snakefile -d /opt2/output \|\| \
	echo 'There may have been a few warnings or errors. Please read through the log to determine if its harmless.'

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