02-14-2008
Shell Programming in unix
Hi,
i want to read a full file.
If i want to split the file and by reading parralel each, i can save the time.
Can any body give me the suggesion??
ia m using this function to read a file and using that i have to grep in another file. since the file 1 is huge it is taking lot of time.
iam planning to split that and run parraley.
suggesions pls
read_file1()
{
cat file1.txt | while read line
do
grep $line file2.txt >> outputfile.dat
done
}
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LEARN ABOUT DEBIAN
bp_dbsplit
BP_DBSPLIT(1p) User Contributed Perl Documentation BP_DBSPLIT(1p)
NAME
dbsplit - script to split an input set of database(s) into smaller pieces
SYNOPSIS
dbsplit.PLS --size 50 [-i inputfile] [-if inputformat] [-of outputformat]
[--prefix outputprefix] [ < file1 file 2 OR file1 file2]
DESCRIPTION
This script will take as input a list of filenames or a single file or from STDIN a sequence database and split the database into separate
files of X numbers of sequences. You specify X with the "--size/-s" parameter. The input and output sequence format is any that is
supported by bioperl (fasta,embl,genbank,gcg, swissprot, etc).
You can specify the input data either as a single file with -i filename, or as a single file as an argument like
% dbsplit file1 file2
or as a list of sequence data with
% cat file1 file2 file3 | dbsplit
You'll want to use the "--prefix" to specify what the output prefix will be.
FEEDBACK
Mailing Lists
User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the
Bioperl mailing list. Your participation is much appreciated.
bioperl-l@bioperl.org - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
Reporting Bugs
Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via the
web:
https://redmine.open-bio.org/projects/bioperl/
AUTHOR
Jason Stajich, jason-at-bioperl-dot-org
perl v5.14.2 2012-03-02 BP_DBSPLIT(1p)