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Full Discussion: Grepping text block by block by using for loop
Top Forums Shell Programming and Scripting Grepping text block by block by using for loop Post 302704965 by anushree.a on Monday 24th of September 2012 04:54:57 AM
Old 09-24-2012
Grepping text block by block by using for loop
Hei buddies,
Need ur help once again.

I have a file which has bunch of lines which starts from a fixed pattern and ends with another fixed pattern.
I want to make use of these fixed starting and ending patterns to select the bunch, one at a time.

The input file is as follows.
Code:
Hi welcome
blah blah blah
blah blah blah
Bye**
Hi welcome
blah  blah
blah  blah
blah  blah
blah  blah
blah  blah
Bye**
Hi welcome
blah 
blah 
Bye**
Hi welcome
blah blah blah
blah blah blah
blah blah blah
blah blah blah
blah blah blah
Bye**
Hi welcome
blah blah blah
Bye**

I tried using awk '/Hi welcome/,/Bye**/' inputfile.txt to select text from Hi welcome to Bye** However, it selects complete document may be because even whole document starts with "Hi welcome" and ends with "Bye**". Here I am trying to get it block by block (From Hi welcome to Bye** is one block) in a temp file by using for loop.

Please help. Little urgent.

Thank you.
Anu.
Last edited by Scrutinizer; 09-24-2012 at 07:58 AM.. Reason: code tags
 

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LEARN ABOUT DEBIAN

fastautils

fastautils(1)					     FASTA format file manipulation utilities					     fastautils(1)

NAME

       fastautils - FASTA format file manipulation utilities

SYNOPSIS

       fastachecksum [ options ] <input file>

       fastaclean

       fastaclip

       fastacomposition

       fastadiff

       fastaexplode

       fastafetch

       fastahardmask

       fastaindex

       fastalength

       fastanrdb

       fastaoverlap

       fastareformat

       fastaremove

       fastarevcomp

       fastasoftmask

       fastasort

       fastasplit

       fastasubseq

       fastatranslate

       fastavalidcds

DESCRIPTION

       These  are  utilities  for  the manipulation of FASTA format sequence databases which are distributed with the exonerate sequence alignment
       program.

ENVIRONMENT

       Not documented yet.

EXAMPLES

       fastalength sequence.fasta
	      blah blah

VERSION

       This documentation accompanies version 2.2.0 of the exonerate package.

AUTHOR

       Guy St.C. Slater.  <guy@ebi.ac.uk>.  See the AUTHORS file accompanying the source code for a list of contributors.

AVAILABILITY

       This source code for the exonerate package is available under the terms of the GNU general public licence.

       Please see the file COPYING which was distrubuted with this package, or http://www.gnu.org/licenses/gpl.txt for details.

       This package has been developed as part of the ensembl project.	Please see http://www.ensembl.org/ for more information.

SEE ALSO

       exonerate(1),e-PCR

fastautils							    March 2003							     fastautils(1)
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