-#!/usr/bin/env perl -w
+#!/usr/bin/env perl
+
+# Copyright (C) 2007-2009 Martin A. Hansen.
+
+# This program is free software; you can redistribute it and/or
+# modify it under the terms of the GNU General Public License
+# as published by the Free Software Foundation; either version 2
+# of the License, or (at your option) any later version.
+
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+
+# You should have received a copy of the GNU General Public License
+# along with this program; if not, write to the Free Software
+# Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+
+# http://www.gnu.org/copyleft/gpl.html
-use strict;
-use Data::Dumper;
-use Time::HiRes qw( gettimeofday );
-use Getopt::Long qw( :config bundling );
-use Maasha::Biopieces;
+# >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> DESCRIPTION <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
+
+# Split the values of a key into new key/value pairs.
# >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
-my ( $script, $t0, $t1, %options, $in, $out, $record, @vals, $i );
+use warnings;
+use strict;
+use Maasha::Biopieces;
+
-$t0 = Time::HiRes::gettimeofday();
+# >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
-$script = ( split "/", $0 )[ -1 ];
-Maasha::Biopieces::log_biopiece();
+my ( $options, $in, $out, $record, @vals, $i );
-GetOptions(
- \%options,
- 'key|k=s',
- 'keys|K=s',
- 'delimit|d=s',
- 'stream_in|I=s',
- 'stream_out|O=s',
- 'verbose|v',
- 'help|?'
+$options = Maasha::Biopieces::parse_options(
+ [
+ { long => 'key', short => 'k', type => 'string', mandatory => 'yes', default => undef, allowed => undef, disallowed => undef },
+ { long => 'keys', short => 'K', type => 'list', mandatory => 'no', default => undef, allowed => undef, disallowed => undef },
+ { long => 'delimit', short => 'd', type => 'string', mandatory => 'no', default => '_', allowed => undef, disallowed => undef },
+ ]
);
-$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( $options{ "stream_out" } );
+$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' } } )
+ if ( exists $options->{ 'key' } and exists $record->{ $options->{ 'key' } } )
{
- @vals = split /$options{ 'delimit' }/, $record->{ $options{ 'key' } };
-
- for ( $i = 0; $i < @vals; $i++ )
+ @vals = split /$options->{ 'delimit' }/, $record->{ $options->{ 'key' } };
+
+ if ( scalar @vals > 1 )
{
- if ( defined $options{ "keys" } and defined $options{ "keys" }->[ $i ] ) {
- $record->{ $options{ "keys" }->[ $i ] } = $vals[ $i ];
- } else {
- $record->{ $options{ 'key' } . "_$i" } = $vals[ $i ];
+ 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();
+Maasha::Biopieces::close_stream( $in );
+Maasha::Biopieces::close_stream( $out );
+
+
+# >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
+
+
+BEGIN
+{
+ Maasha::Biopieces::status_set();
+}
+
-print STDERR "Program: $script" . ( " " x ( 25 - length( $script ) ) ) . sprintf( "Run time: %.4f\n", ( $t1 - $t0 ) ) if $options{ 'verbose' };
+END
+{
+ Maasha::Biopieces::status_log();
+}
# >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
__END__
-