rule make_directories:
	output:
		directory("00_logs/"),
		directory("01_raw_data/"),
		directory("02_fastqc_analysis/"),
		directory("03_sam_files/"),
		directory("04_bam_files/"),
		directory("05_bigwig_files/"),
		directory("06_PEAKCALLER_peaks/")
	resources:
		mem_mb = 1024 * 5, # Last number is memory in GB
		time = 60 * 24 * 1, # Last number is days
		#account = "publicgrp", # Placeholder for SLURM submission
		#partition = "high", # Placeholder for SLURM submission
	shell:
		"mkdir 00_logs 01_raw_data 02_fastqc_analysis 03_sam_files 04_bam_files "
		"05_bigwig_files 06_PEAKCALLER_peaks"
