-#!/usr/bin/env perl -w
+#!/usr/bin/env perl
# Copyright (C) 2007-2009 Martin A. Hansen.
# >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
+use warnings;
use strict;
use Maasha::Biopieces;
{
if ( defined $beg and defined $end )
{
- if ( $end - $beg + 1 > length $record->{ "SEQ" } ) {
- $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg;
- } else {
- $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg, $end - $beg + 1;
+ if ( $end - $beg + 1 > length $record->{ "SEQ" } )
+ {
+ $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg;
+ $record->{ "SCORES" } = substr $record->{ "SEQ" }, $beg if $record->{ "SCORES" };
+ }
+ else
+ {
+ $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg, $end - $beg + 1;
+ $record->{ "SCORES" } = substr $record->{ "SCORES" }, $beg, $end - $beg + 1 if $record->{ "SCORES" };
}
}
elsif ( defined $beg and defined $len )
{
- if ( $len > length $record->{ "SEQ" } ) {
- $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg;
- } else {
- $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg, $len;
+ if ( $len > length $record->{ "SEQ" } )
+ {
+ $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg;
+ $record->{ "SCORES" } = substr $record->{ "SCORES" }, $beg if $record->{ "SCORES" };
+ }
+ else
+ {
+ $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg, $len;
+ $record->{ "SCORES" } = substr $record->{ "SCORES" }, $beg, $len if $record->{ "SCORES" };
}
}
elsif ( defined $beg )
{
- $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg;
+ $record->{ "SEQ" } = substr $record->{ "SEQ" }, $beg;
+ $record->{ "SCORES" } = substr $record->{ "SCORES" }, $beg if $record->{ "SCORES" };
}
$record->{ "SEQ_LEN" } = length $record->{ "SEQ" };