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Full Discussion: awk to split one field and print the last two fields within the split part.
Top Forums Shell Programming and Scripting awk to split one field and print the last two fields within the split part. Post 302624811 by agama on Monday 16th of April 2012 10:54:08 PM
Old 04-16-2012
Based on your sample I think this works. My assumption was that any row with pipe separated elements in the thrid field would have UniProt as the next to last in the series. If not, use a[n-1] if you want to capture that data, or add an if to test if a[n-1] is UniProt.

Code:
awk -F "\t" '
    {
        n = split( $3, a, "|" );
        if( n < 2 )
            data = sprintf( "%s\t", a[1] );
        else
            data = sprintf( "%s\t%s", "UniProt", a[n] );  #assumption that all pipe separated data contains UniProt at a[n-1]

        printf( "%s\t%s\t%s\t%s\n", $1, $2, data, $4 );
    }
' input-file >output-file

Last edited by agama; 04-17-2012 at 10:02 PM.. Reason: typo
 

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LEARN ABOUT SUSE

split

SPLIT(1)							   User Commands							  SPLIT(1)

NAME

       split - split a file into pieces

SYNOPSIS

       split [OPTION]... [INPUT [PREFIX]]

DESCRIPTION

       Output  fixed-size  pieces  of  INPUT to PREFIXaa, PREFIXab, ...; default size is 1000 lines, and default PREFIX is `x'.  With no INPUT, or
       when INPUT is -, read standard input.

       Mandatory arguments to long options are mandatory for short options too.

       -a, --suffix-length=N
	      use suffixes of length N (default 2)

       -b, --bytes=SIZE
	      put SIZE bytes per output file

       -C, --line-bytes=SIZE
	      put at most SIZE bytes of lines per output file

       -d, --numeric-suffixes
	      use numeric suffixes instead of alphabetic

       -l, --lines=NUMBER
	      put NUMBER lines per output file

       --verbose
	      print a diagnostic just before each output file is opened

       --help display this help and exit

       --version
	      output version information and exit

       SIZE may have a multiplier suffix: b 512, kB 1000, K 1024, MB 1000*1000, M 1024*1024, GB 1000*1000*1000, G 1024*1024*1024, and so on for T,
       P, E, Z, Y.

AUTHOR

       Written by Torbjorn Granlund and Richard M. Stallman.

REPORTING BUGS

       Report split bugs to bug-coreutils@gnu.org
       GNU coreutils home page: <http://www.gnu.org/software/coreutils/>
       General help using GNU software: <http://www.gnu.org/gethelp/>

COPYRIGHT

       Copyright (C) 2009 Free Software Foundation, Inc.  License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>.
       This is free software: you are free to change and redistribute it.  There is NO WARRANTY, to the extent permitted by law.

SEE ALSO

       The  full  documentation  for split is maintained as a Texinfo manual.  If the info and split programs are properly installed at your site,
       the command

	      info coreutils 'split invocation'

       should give you access to the complete manual.

GNU coreutils 7.1						     July 2010								  SPLIT(1)
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