#!/usr/bin/env perl -w

use strict;
use Data::Dumper;
use Time::HiRes qw( gettimeofday );
use Getopt::Long qw( :config bundling );
use Maasha::Biopieces;


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my ( $script, $t0, $t1, %options, $in, $out, $record, @vals, $i );

$t0 = Time::HiRes::gettimeofday();

$script = ( split "/", $0 )[ -1 ];

Maasha::Biopieces::log_biopiece();

GetOptions(
    \%options,
    'key|k=s',
    'keys|K=s',
    'delimit|d=s',
    'stream_in|I=s',
    'stream_out|O=s',
    'verbose|v',
    'help|?'
);

$options{ "keys" }    = [ split ",", $options{ "keys" } ] if defined $options{ "keys" };
$options{ "delimit" } = '_' if not defined $options{ "delimit" };

$in  = Maasha::Biopieces::read_stream( $options{ "stream_in" } );
$out = Maasha::Biopieces::write_stream( $options{ "stream_out" } );

while ( $record = Maasha::Biopieces::get_record( $in ) )
{
    if ( exists $options{ 'key' } and exists $record->{ $options{ 'key' } } )
    {
        @vals = split /$options{ 'delimit' }/, $record->{ $options{ 'key' } };
    
        for ( $i = 0; $i < @vals; $i++ )
        {
            if ( defined $options{ "keys" } and defined $options{ "keys" }->[ $i ] ) {
                $record->{ $options{ "keys" }->[ $i ] } = $vals[ $i ];
            } else {
                $record->{ $options{ 'key' } . "_$i" } = $vals[ $i ];
            }
        }
    }

    Maasha::Biopieces::put_record( $record, $out );
}

$t1 = Time::HiRes::gettimeofday();

print STDERR "Program: $script" . ( " " x ( 25 - length( $script ) ) ) . sprintf( "Run time: %.4f\n", ( $t1 - $t0 ) ) if $options{ 'verbose' };


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__END__