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Revision 1.1 - (download) (as text) (annotate)
Mon Mar 2 13:33:10 2009 UTC (10 years, 8 months ago) by overbeek
Branch: MAIN
CVS Tags: mgrast_dev_08112011, rast_rel_2009_05_18, mgrast_dev_08022011, rast_rel_2014_0912, myrast_rel40, mgrast_dev_05262011, mgrast_dev_04082011, rast_rel_2010_0928, mgrast_version_3_2, mgrast_dev_12152011, mgrast_dev_06072011, rast_rel_2009_0925, rast_rel_2010_0526, rast_rel_2014_0729, mgrast_dev_02212011, rast_rel_2010_1206, mgrast_release_3_0, mgrast_dev_03252011, rast_rel_2010_0118, rast_rel_2011_0119, mgrast_release_3_0_4, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_1, mgrast_dev_03312011, mgrast_release_3_1_2, mgrast_release_3_1_1, mgrast_release_3_1_0, mgrast_dev_04132011, mgrast_dev_04012011, rast_rel_2009_07_09, rast_rel_2010_0827, myrast_33, rast_rel_2011_0928, mgrast_dev_04052011, mgrast_dev_02222011, rast_rel_2009_03_26, mgrast_dev_10262011, HEAD
add fasta_size

#! /usr/bin/perl -w
#
# fasta_size [file ...]
#

use strict;

my ( $id, $len, $tlen );
$tlen = 0;

while (<>) {
	chomp;
	if ( /^>/ ) {
		logit( $id, $len );
		$id = /^>(\S+)/ ? $1 : "";
		$len = 0;
	}
	else {
		s/\s+//g;
		$len += length( $_ );
	}
}

logit( $id, $len );
logit( "total", $tlen );

exit 0;

sub logit {
	my ( $id, $len ) = @_;
	$id && $len || return;
	printf "%10d  %s\n", $len, $id;
	$tlen += $len;
}

1;

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