linux - 重击 : doubly looping don't work

Question

我有这个循环，但它不起作用:-/

for i in *CCDSxBaseCov.bed
    do SM=`(echo $i | sed 's/.bed//g')`; echo $SM
        for chr in 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 X Y M; do echo "-- chr$chr --"; bases=`(grep chr$chr "${SM}_hg19_EXONSxBaseCov.bed" | wc -l)`; echo "EXONS target length=$bases"; cov=`(grep chr$chr "${SM}_hg19_EXONSxBaseCov.bed" | awk '{sum+=$3} END {print sum}')`; echo "sum EXONS bases coverage=$cov"; avercov=$(($cov/$bases)); echo "EXONS average coverage=$avercov" >> ${SM}_hg19_EXONScovstats.txt
        done
    done

第二个循环单独工作

Answer 1

注释内部 for(如果它可以独立工作)并屏蔽 $i，因为它是一个文件名，可能包含空格。使用 $(...) 代替已弃用的反引号。

for i in *CCDSxBaseCov.bed
    do SM=$((echo "$i" | sed 's/.bed//g')); echo $SM
        # for chr in 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 X Y M; do echo "-- chr$chr --"; bases=`(grep chr$chr "${SM}_hg19_EXONSxBaseCov.bed" | wc -l)`; echo "EXONS target length=$bases"; cov=`(grep chr$chr "${SM}_hg19_EXONSxBaseCov.bed" | awk '{sum+=$3} END {print sum}')`; echo "sum EXONS bases coverage=$cov"; avercov=$(($cov/$bases)); echo "EXONS average coverage=$avercov" >> ${SM}_hg19_EXONScovstats.txt
        # done
    done