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 # Enable Perl scripting on the data stream.
26 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
31 use Maasha::Biopieces qw( get_record put_record );
36 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
39 my ( $options, $in, $out, $r );
41 $options = Maasha::Biopieces::parse_options(
43 { long => 'eval', short => 'e', type => 'string', mandatory => 'yes', default => undef, allowed => undef, disallowed => undef },
47 $in = Maasha::Biopieces::read_stream( $options->{ "stream_in" } );
48 $out = Maasha::Biopieces::write_stream( $options->{ "stream_out" } );
50 print STDERR "eval: $options->{ 'eval' }\n" if $options->{ 'verbose' };
52 eval "no strict; $options->{ 'eval' }";
54 Maasha::Common::error( qq(Eval of "$options->{ 'eval' }" failed) ) if $@;
57 Maasha::Biopieces::close_stream( $in );
58 Maasha::Biopieces::close_stream( $out );
61 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
66 Maasha::Biopieces::status_set();
72 Maasha::Biopieces::status_log();
76 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<