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planemo upload commit 94b0cd1fff0826c6db3e7dc0c91c0c5a8be8bb0c
author cpt
date Mon, 05 Jun 2023 02:47:24 +0000
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1 package CPT::Writer::TSV;
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2 no warnings;
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3 use Moose;
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4 with 'CPT::Writer';
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5
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6 sub process {
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7 my ($self) = @_;
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8 my %data = %{ $self->data };
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9
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10 my @sheets = keys %data;
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11 my %complete_processed_data = map { $_ => "" } @sheets;
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12 foreach (@sheets) {
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13 my $tmp_data = '';
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14 my $data_struc_ref = $data{$_};
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15 $tmp_data .= '"'
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16 . join( "\"\t\"",
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17 map { local $_ = $_; s/"/\\"/g; $_ }
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18 @{ ${$data_struc_ref}{'header'} } )
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19 . '"' . "\n";
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20 foreach ( @{ ${$data_struc_ref}{'data'} } ) {
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21 $tmp_data .= '"' . join(
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22 "\"\t\"",
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23 map {
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24 local $_ = $_;
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25 unless (defined $_) { $_ = "" }
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26 s/"/\\"/g;
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27 $_;
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28 } @{$_}
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29 ) . '"' . "\n";
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30 }
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31 $complete_processed_data{$_} = $tmp_data;
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32 }
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33 $self->processed_data( \%complete_processed_data );
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34 $self->processing_complete(1);
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35 }
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36
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37 sub write {
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38
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39 # Wanted to use child's write method here so I can output multiple files.
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40 my ($self) = @_;
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41 if ( $self->processing_complete ) {
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42 my %complete_processed_data = %{ $self->processed_data() };
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43 my @sheets = keys %complete_processed_data;
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44
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45 # When this is initially called, the OutputFilesClass was given
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46 # a hint as to what files from this analysis should be called.
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47 # We'll borrow that and modify it each time before putting it
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48 # back at the end. Since this is the *ONLY* type that has
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49 # sub-reports, it feels O.K. to do it here.
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50 my $base_name = $self->OutputFilesClass->given_filename();
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51 unless ($base_name) { $base_name = ""; }
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52 foreach (@sheets) {
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53 # We update the base filename to include our
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54 # particular Sheet name. As such the generate function
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55 # should start generating files with that as part of
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56 # the name
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57 $self->OutputFilesClass->given_filename( $base_name . '.' . $_ );
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58 $self->OutputFilesClass->extension('csv');
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59 my $next_output_file =
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60 $self->OutputFilesClass->get_next_file();
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61
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62 # Store the filename we used
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63 push(@{$self->used_filenames()}, $next_output_file);
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64 open( my $outfile, '>', $next_output_file );
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65 print $outfile $complete_processed_data{$_};
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66 close($outfile);
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67 }
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68 # Reset it back to default (probably unnecessary)
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69 $self->OutputFilesClass->given_filename($base_name);
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70 }
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71 else {
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72 warn
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73 "Write called but processing was not marked as complete. Not writing";
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74 }
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75
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76 }
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77
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78 sub suffix {
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79 return 'csv';
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80 }
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81 no Moose;
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82 1;
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83
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84 __END__
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85
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86 =pod
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87
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88 =encoding UTF-8
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89
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90 =head1 NAME
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91
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92 CPT::Writer::TSV
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93
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94 =head1 VERSION
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95
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96 version 1.99.4
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97
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98 =head1 AUTHOR
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99
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100 Eric Rasche <rasche.eric@yandex.ru>
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101
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102 =head1 COPYRIGHT AND LICENSE
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103
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104 This software is Copyright (c) 2014 by Eric Rasche.
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105
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106 This is free software, licensed under:
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107
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108 The GNU General Public License, Version 3, June 2007
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109
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110 =cut