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Top Forums Shell Programming and Scripting Search for a pattern,extract value(s) from next line, extract lines having those extracted value(s) Post 302674321 by Corona688 on Thursday 19th of July 2012 11:12:22 AM
Old 07-19-2012
I can't tell. CYTOCHROME C isn't anywhere in that file, so I have no idea what it's supposed to match. It must be picking up regex-like characters from the string it's trying to catch, which foul up the RGX variable when it's created.

You can put the script in a file easily enough like this:

Code:
$ cat script.awk

(!RGX) && ($0 ~ RMATCH) && (NF==2) {
         getline
         gsub(/[;, ]*/, "");
         RGX="[" $2 "]"
         FS=" ";
} RGX && ($5 ~ RGX) && /ATOM/

$ awk -v RMATCH="CYTOCHROME C" -f script.awk file

...

$

I'm probably out for the rest of the day unfortunately. I'll check this evening if I can, for further details on your difficulty.
 

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PTARGREP(1)						 Perl Programmers Reference Guide					       PTARGREP(1)

NAME
ptargrep - Apply pattern matching to the contents of files in a tar archive SYNOPSIS
ptargrep [options] <pattern> <tar file> ... Options: --basename|-b ignore directory paths from archive --ignore-case|-i do case-insensitive pattern matching --list-only|-l list matching filenames rather than extracting matches --verbose|-v write debugging message to STDERR --help|-? detailed help message DESCRIPTION
This utility allows you to apply pattern matching to the contents of files contained in a tar archive. You might use this to identify all files in an archive which contain lines matching the specified pattern and either print out the pathnames or extract the files. The pattern will be used as a Perl regular expression (as opposed to a simple grep regex). Multiple tar archive filenames can be specified - they will each be processed in turn. OPTIONS
--basename (alias -b) When matching files are extracted, ignore the directory path from the archive and write to the current directory using the basename of the file from the archive. Beware: if two matching files in the archive have the same basename, the second file extracted will overwrite the first. --ignore-case (alias -i) Make pattern matching case-insensitive. --list-only (alias -l) Print the pathname of each matching file from the archive to STDOUT. Without this option, the default behaviour is to extract each matching file. --verbose (alias -v) Log debugging info to STDERR. --help (alias -?) Display this documentation. COPYRIGHT
Copyright 2010 Grant McLean <grantm@cpan.org> This program is free software; you can redistribute it and/or modify it under the same terms as Perl itself. perl v5.16.2 2013-08-25 PTARGREP(1)
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