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Top Forums Shell Programming and Scripting Based on column in file1, find match in file2 and print matching lines Post 302786127 by hanson44 on Wednesday 27th of March 2013 01:21:29 AM
Old 03-27-2013
Code:
$ cat temp.sh
while read pattern; do
  grep -q $pattern file2
  if [ $? -ne 0 ]; then continue; fi
  line_number=`grep -m 1 -n $pattern file2 | cut -f 1 -d :`
  echo ">$pattern"
  sed -n "$line_number { n; p; q }" file2
done < file1

Code:
$ ./temp.sh
>comp1000362_c0_seq1
QSLPFPPNYISLSHAGTLSVNPCTAYRLLKDFVSLSTGDFIIQNGANSGVGRVVIQLCKA

I'm hoping you also feel altruistic. Smilie
 

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COMM(1) 						    BSD General Commands Manual 						   COMM(1)

NAME
comm -- select or reject lines common to two files SYNOPSIS
comm [-123i] file1 file2 DESCRIPTION
The comm utility reads file1 and file2, which should be sorted lexically, and produces three text columns as output: lines only in file1; lines only in file2; and lines in both files. The filename ``-'' means the standard input. The following options are available: -1 Suppress printing of column 1, lines only in file1. -2 Suppress printing of column 2, lines only in file2. -3 Suppress printing of column 3, lines common to both. -i Case insensitive comparison of lines. Each column will have a number of tab characters prepended to it equal to the number of lower numbered columns that are being printed. For example, if column number two is being suppressed, lines printed in column number one will not have any tabs preceding them, and lines printed in column number three will have one. The comm utility assumes that the files are lexically sorted; all characters participate in line comparisons. ENVIRONMENT
The LANG, LC_ALL, LC_COLLATE, and LC_CTYPE environment variables affect the execution of comm as described in environ(7). EXIT STATUS
The comm utility exits 0 on success, and >0 if an error occurs. SEE ALSO
cmp(1), diff(1), sort(1), uniq(1) STANDARDS
The comm utility conforms to IEEE Std 1003.2-1992 (``POSIX.2''). The -i option is an extension to the POSIX standard. HISTORY
A comm command appeared in Version 4 AT&T UNIX. BSD
December 12, 2009 BSD
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