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1 #!/bin/bash
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2
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3 inputfile=$1
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4 outputfile=$2
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5 removeheader=$3
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6 columns="$@"
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7
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8 cols="${columns// /,}" #make comma-separated
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9
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10 #skip first three arguments
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11 firstcomma=`expr index "$cols" ,`
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12 cols="${cols:$firstcomma}"
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13 secondcomma=`expr index "$cols" ,`
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14 cols="${cols:$secondcomma}"
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15 thirdcomma=`expr index "$cols" ,`
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16 cols="${cols:$thirdcomma}"
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17 cols="${cols//:/}" #remove colons
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18 echo "colums to print: $cols"
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19
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20 arr=$(echo $cols | tr "," "\n")
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21
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22 for x in $arr
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23 do
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24 echo $x
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25 done
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26
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27 myArray=($columns)
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28 i=3
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29 len=${#myArray[@]}
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30 mycols=""
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31 echo "len: $len"
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32 while [ $i -le $len ]
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33 do
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34 echo "myarray: ${myArray[$i]}"
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35 mycols+=${myArray[$i]}
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36 i=$[$i+2]
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37 done
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38 mycols="${mycols//:/,}" #make comma-separated
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39 mycols="${mycols%?}"
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40 echo "mycols: $mycols"
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41
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42 awk 'BEGIN{
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43 FS="\t";
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44 OFS="\t";
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45 columns="'"$mycols"'";
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46 len=split(columns,arr,",")
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47 }{
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48 if (index($1,"#")==1 || $1==""){ #print header as--s
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49 if("'"$removeheader"'"=="N"){
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50 print $0
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51 }
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52 }
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53 else{
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54 for (i=1;i<len;i++){
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55 j=arr[i]
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56 printf $j"\t"
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57 }
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58 j=arr[len]
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59 printf $j"\n"
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60 }
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61 }END{
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62
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63 }' $inputfile > $outputfile
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64
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65
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