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- rule fastp:
- input:
- left = config["Raw_Data_Dir"] + "/{sample}_1.fq.gz",
- right = config["Raw_Data_Dir"] + "/{sample}_2.fq.gz"
- output:
- left = config["Data_Dir"] + "/{sample}_1.fq.gz",
- right = config["Data_Dir"] + "/{sample}_2.fq.gz",
- html = config["Data_Dir"] + "/{sample}.fastp.html",
- json = config["Data_Dir"] + "/{sample}.fastp.json"
- log: config["Data_Dir"] + "/{sample}.log"
- shell:
- "fastp -i {input.left} -I {input.right} -o {output.left} -O {output.right} -h {output.html} -j {output.json} 2>{log}"
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