conf.py 519 Bytes
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# Module directory
job_modules = "jobs/modules/"

# Job params directory
job_params = "jobs/params/"

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# Job wrappers directory
job_wrappers = "jobs/wrappers/"

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# File extensions
file_extensions = {
    "fna": ["fna"],
    "fastq": ["fastq", "fastq.gz"],
    "sam": ["sam"],
    "bam": ["bam"],
    "bed": ["bed", "narrowPeak", "broadPeak"]
}
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# param keys
param_keys = {
    "required": ["arguments"],
    "optional": ["walltime", "memory"]
}

# workflow order
workflow = ["align", "remove_duplicates", "peak_calling"]