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Top Forums Shell Programming and Scripting awk to format file and combine two fields using comma Post 302994974 by andy391791 on Thursday 30th of March 2017 07:22:07 AM
Old 03-30-2017
Im sure there are better ways to do it but the following will work assuming that the amount of comma separated values in $10 and $11 are the same:

Code:
awk -F '\t' '{sf="";len1=split($10,s1,",");split($11,s2,","); for (i=1;i<len1;i++){sf=sf s1[i]"-"s2[i]" "}print $9,$13,$2,sf}' file.txt

Output:

Code:
2 ACKR1 NM_002036.3 159173802-159174770 159175250-159176290
4 MSMB NM_002443.3 51549552-51549587 51555730-51555836 51556750-51556856 51562270-51562518
6 MFAP4 NM_002404.2 19286754-19288022 19288411-19288594 19288670-19288767 19289622-19289777 19290072-19290151 19290462-19290532
1 CXCR4 NM_003467.2 136871918-136873482

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JOIN(1) 						      General Commands Manual							   JOIN(1)

NAME
join - relational database operator SYNOPSIS
join [-an] [-e s] [-o list] [-tc] file1 file2 DESCRIPTION
Join forms, on the standard output, a join of the two relations specified by the lines of file1 and file2. If file1 is `-', the standard input is used. File1 and file2 must be sorted in increasing ASCII collating sequence on the fields on which they are to be joined, normally the first in each line. There is one line in the output for each pair of lines in file1 and file2 that have identical join fields. The output line normally con- sists of the common field, then the rest of the line from file1, then the rest of the line from file2. Fields are normally separated by blank, tab or newline. In this case, multiple separators count as one, and leading separators are dis- carded. These options are recognized: -an In addition to the normal output, produce a line for each unpairable line in file n, where n is 1 or 2. -e s Replace empty output fields by string s. -o list Each output line comprises the fields specified in list, each element of which has the form n.m, where n is a file number and m is a field number. -tc Use character c as a separator (tab character). Every appearance of c in a line is significant. SEE ALSO
sort(1), comm(1), awk(1). BUGS
With default field separation, the collating sequence is that of sort -b; with -t, the sequence is that of a plain sort. The conventions of join, sort, comm, uniq, look and awk(1) are wildly incongruous. 7th Edition April 29, 1985 JOIN(1)
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