3 # Copyright (C) 2007-2009 Martin A. Hansen.
5 # This program is free software; you can redistribute it and/or
6 # modify it under the terms of the GNU General Public License
7 # as published by the Free Software Foundation; either version 2
8 # of the License, or (at your option) any later version.
10 # This program is distributed in the hope that it will be useful,
11 # but WITHOUT ANY WARRANTY; without even the implied warranty of
12 # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
13 # GNU General Public License for more details.
15 # You should have received a copy of the GNU General Public License
16 # along with this program; if not, write to the Free Software
17 # Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
19 # http://www.gnu.org/copyleft/gpl.html
22 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> DESCRIPTION <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
24 # Performs computations on records in stream.
26 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
31 use Maasha::Biopieces;
34 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
37 my ( $run_time_beg, $run_time_end, $options, $in, $out, $record, $eval_key, @keys, $eval_val );
39 $options = Maasha::Biopieces::parse_options(
41 { long => 'eval', short => 'e', type => 'string', mandatory => 'yes', default => undef, allowed => undef, disallowed => undef },
45 $in = Maasha::Biopieces::read_stream( $options->{ "stream_in" } );
46 $out = Maasha::Biopieces::write_stream( $options->{ "stream_out" } );
48 while ( $record = Maasha::Biopieces::get_record( $in ) )
50 if ( $options->{ "eval" } =~ /^(\S+)\s*=\s*(.+)$/ )
57 @keys = split /\s+|\+|-|\*|\/|\*\*/, $eval_val;
59 @keys = grep { exists $record->{ $_ } } @keys;
62 map { $eval_val =~ s/\Q$_\E/$record->{ $_ }/g } @keys;
64 $record->{ $eval_key } = eval "$eval_val";
65 Maasha::Common::error( qq(eval "$eval_key = $eval_val" failed -> $@) ) if $@;
69 Maasha::Common::error( qq(Bad compute expression: "$options->{ 'eval' }"\n) );
72 Maasha::Biopieces::put_record( $record, $out );
76 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
81 $run_time_beg = Maasha::Biopieces::run_time();
83 Maasha::Biopieces::log_biopiece();
88 Maasha::Biopieces::close_stream( $in );
89 Maasha::Biopieces::close_stream( $out );
91 $run_time_end = Maasha::Biopieces::run_time();
93 Maasha::Biopieces::run_time_print( $run_time_beg, $run_time_end, $options );
97 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<