bash-如何匹配要在循环中使用的文件名 [英] bash - How to match files names to use in loop

问题描述

我想在每对文件上运行循环命令

I want to run a loop command on each pair of files

a_xxx.wig
b_xxx.wig
c_xxx.wig

a_xxx.bed
b_xxx.bed
c_xxx.bed 

我想根据样本名称(a，b或c)来匹配文件，并让循环在每对中运行一条命令，而不必一次执行

I'd like to match the files based on sample name (a,b or c) and have the loop run a command through each of the pairs without having to do one at a time

for file in * do
bedtools intersect -a $sample.wig -b $sample > $sample.bed
done

任何想法或指示都将不胜感激

Any ideas or pointers would be greatly appreciated

推荐答案

wig文件是输入，因此只需对其进行迭代即可.您可以提取文件名的一部分，以用作其他名称的基础".

The wig file is the input, so just iterate over those. You can extract the portion of the file name to use as the "base" for the other names.

for file in *.wig; do
    sample=${file%.wig}
    bedtools intersect -a "$sample.wig" -b "$sample" > "$sample.bed"
done

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