多个数字的脚本 linux 循环

Question

我有一个 Linux 命令的列表，我需要重复最多 670 次。我怎样才能使命令自动化，这样我就不必重复 670 次。从C1,C2,C3....到C670我都不知道怎么操作？

#START C1


mkdir C1

cd C1

awk '/Prymnesium_parvum_GenomeV1.0_Contig_1\t/' ../Methy_670.txt | cut -f 2 > IllU_C1.txt

awk '/Prymnesium_parvum_GenomeV1.0_Contig_1\t/' ../TE/TEannotation_Prymnesium_parvum_GenomeV1.0.gff3 | cut -f 4,5 > TE_C1.txt

paste TE_C1.txt IllU_C1.txt> C1.txt


awk -f ../com.awk C1.txt C1.txt > res_C1

wc -l res_C1

wc -l TE_C1.txt

cd ..

###Stop C1

#Start C2

mkdir C2

cd C2

awk '/Prymnesium_parvum_GenomeV1.0_Contig_2\t/' ../Methy_670.txt | cut -f 2 > IllU_C1.txt

awk '/Prymnesium_parvum_GenomeV1.0_Contig_2\t/' ../TE/TEannotation_Prymnesium_parvum_GenomeV1.0.gff3 | cut -f 4,5 > TE_C1.txt

....

Answer 1

未测试：

#!/bin/bash

for C in {1..670};do
echo START ${C}

mkdir -p ${C} && cd ${C}

awk '/Prymnesium_parvum_GenomeV1.0_Contig_'${C}'\t/' ../Methy_670.txt | cut -f 2 > IllU_${C}.txt

awk '/Prymnesium_parvum_GenomeV1.0_Contig_'${C}'\t/' ../TE/TEannotation_Prymnesium_parvum_GenomeV1.0.gff3 | cut -f 4,5 > TE_${C}.txt

paste TE_${C}.txt IllU_${C}.txt> ${C}.txt

awk -f ../com.awk ${C}.txt ${C}.txt > res_${C}

wc -l res_${C}

wc -l TE_${C}.txt

cd ..

echo Stop ${C}

done

我不确定 awk '/Prymnesium_parvum_GenomeV1.0_Contig_1\t/' ../Methy_670.txt 的作用，但您必须弄清楚如何在其中添加 ${C}，因为单引号不会解析 ${C}

Answer 2

另一个观点：awk 可以做 cut 做的事

#!/usr/bin/env bash

prep_dir() {
  local n=
  local c=C$n  ill=IllU_$c.txt  te=TE_$c.txt
  local pattern="Prymnesium_parvum_GenomeV1.0_Contig_${n}\t"

  if mkdir "$c" && cd "$c"; then
    awk -v p="$pattern" '[=10=] ~ p {print }' ../Methy_670.txt > "$ill"
    awk -v p="$pattern" '[=10=] ~ p {print , }' ../TE/TEannotation_Prymnesium_parvum_GenomeV1.0.gff3 > "$te"

    paste "$te" "$ill" > "$c.txt"
    awk -f ../com.awk "$c.txt" "$c.txt" > "res_$c"
    wc -l "res_$c"
    wc -l "$te"
    cd ..
  fi
}

for i in {1..670}; do
  prep_dir $i
done

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