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1
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2 #
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3 # BioPerl module for Bio::Search::Processor
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4 #
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5 # Cared for by Aaron Mackey <amackey@virginia.edu>
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6 #
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7 # Copyright Aaron Mackey
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8 #
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9 # You may distribute this module under the same terms as perl itself
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10
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11 # POD documentation - main docs before the code
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12
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13 =head1 NAME
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14
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15 Bio::Search::Processor - DESCRIPTION of Object
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16
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17 =head1 SYNOPSIS
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18
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19 Give standard usage here
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20
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21 =head1 DESCRIPTION
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22
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23 Describe the object here
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24
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25 =head1 FEEDBACK
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26
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27 =head2 Mailing Lists
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28
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29 User feedback is an integral part of the evolution of this and other
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30 Bioperl modules. Send your comments and suggestions preferably to one
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31 of the Bioperl mailing lists. Your participation is much appreciated.
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32
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33 bioperl-l@bioperl.org - General discussion
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34 http://bio.perl.org/MailList.html - About the mailing lists
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35
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36 =head2 Reporting Bugs
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37
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38 Report bugs to the Bioperl bug tracking system to help us keep track
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39 the bugs and their resolution. Bug reports can be submitted via email
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40 or the web:
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41
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42 bioperl-bugs@bio.perl.org
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43 http://bugzilla.bioperl.org/
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44
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45 =head1 AUTHOR - Aaron Mackey
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46
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47 Email amackey@virginia.edu
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48
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49 Describe contact details here
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50
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51 =head1 APPENDIX
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52
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53 The rest of the documentation details each of the object
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54 methods. Internal methods are usually preceded with a _
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55
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56 =cut
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57
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58 # Let the code begin...
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59
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60 package Bio::Search::Processor;
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61
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62 use strict;
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63 use vars qw(@ISA);
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64
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65 =head2 new
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66
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67 Title : new
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68 Usage : $proc = new Bio::Search::Processor -file => $filename,
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69 -algorithm => 'Algorithm' ;
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70 Function: Used to specify and initialize a data processor of search
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71 algorithm results.
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72 Returns : A processor specific to the algorithm type, if it exists.
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73 Args : -file => filename
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74 -algorithm => algorithm specifier
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75 -fh => filehandle to attach to (file or fh required)
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76
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77 =cut
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78
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79 sub new {
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80
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81 my $type = shift;
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82 my $proc;
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83 my ($module, $load, $algorithm);
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84
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85 my %args = @_;
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86
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87 exists $args{'-algorithm'} or do {
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88 print STDERR "Must supply an algorithm!";
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89 return undef;
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90 };
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91
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92 $algorithm = $args{'-algorithm'} || $args{'-ALGORITHM'};
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93
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94 $module = "_<Bio/Search/Processor/$algorithm.pm";
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95 $load = "Bio/Search/Processor/$algorithm.pm";
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96
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97 unless ( $main::{$module} ) {
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98 eval { require $load; };
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99 if ( $@ ) {
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100 print STDERR <<"EOF";
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101 $load: $algorithm cannot be found
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102 Exception $@
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103 For more information about the Search/Processor system please see the
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104 Processor docs. This includes ways of checking for processors at
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105 compile time, not run time
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106 EOF
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107 return undef;
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108 }
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109 }
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110
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111 $proc = "Bio::Search::Processor::$algorithm"->new(@_);
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112 return $proc;
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113 }
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114
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115 1;
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