snakemake的时间延迟

Question

我有这条规则：

rule Bam_coverage:
    input: "ALIGN/result/{case}_filter_dup.bam"
    output: "result/{case}.bw"
    params: genome=config['reference']['genome_fasta'],
            name=lambda wildcards, input: input[0][:-4]
    threads: 6
    log: "log/{case}.bamcoverage.report.txt"
    conda:
         "envs/deeptools.yaml"
    shell:
        """
         bamCoverage -b  {input}  -o {output} -of bigwig -bs 50 -p {threads}  &2> {log}
        """

当我启动snakemake程序运行时，但是snakemake给了我这个错误：

Error in job Bam_coverage while creating output file result/MB.neg.27ac_27ac.bw.

MissingOutputException in line 21 of /home/maurizio/Desktop/TEST_chip/rules/deeptools.rules:
Missing files after 60 seconds:
result/MB.neg.27ac_27ac.bw
This might be due to filesystem latency. If that is the case, consider to increase the wait time with --latency-wait.
Will exit after finishing currently running jobs.

但是，程序在后台并且在一段时间后写入文件。 有什么问题？

Answer 1

您将commant放入背景中，&2>结尾（bash将&解释为分叉运算符）。你的意思是> {log} 2>&1（即，将stderr重定向到stdout）。