Mercurial > repos > cpt > cpt_psm_recombine

annotate lib/CPT/ParameterGroup.pm @ 2:d09346afadfa draft default tip

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planemo upload commit f33bdf952d796c5d7a240b132af3c4cbd102decc
author cpt
date Fri, 05 Jan 2024 05:56:18 +0000
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1 package CPT::ParameterGroup;
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2 use Moose;
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3 use strict;
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4 use warnings;
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5 use autodie;
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6
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7 # A special type of a ParameterCollection (could probably be a child...ohwell)
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8 use Moose::Util::TypeConstraints;
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9 #subtype 'TypeStr', as 'Str', where { $_ eq 'xor' || $_ eq 'or' || $_ eq 'and' };
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10 # Replaced with the enum
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11
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12 has 'name' => ( is => 'rw', isa => 'Str');
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13 has 'description' => ( is => 'rw', isa => 'Str');
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14 has 'validator' => ( is => 'rw', isa => enum([qw(xor or and)]));
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15 has 'options' => ( is => 'rw', isa => 'ArrayRef[HashRef]' );
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16
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17
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18 sub validate {
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19 die 'Unimplemented';
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20 }
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21
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22
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23
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24 sub set_data {
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25 my ($self, $hash_ref) = @_;
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26 my %d = %{$hash_ref};
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27 $self->name($d{name});
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28 $self->description($d{description});
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29 $self->validator($d{validator});
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30 $self->options($d{options});
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31 }
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32
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33
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34
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35 sub getopt {
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36 my ($self) = @_;
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37 die 'unimplemented';
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38 }
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39
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40 sub flattenOptionsArray{
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41 my ($self) = @_;
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42 my @opts;
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43 push(@opts, [sprintf("Option Group: %s\n%s\n[%s]", $self->name(), $self->description(), $self->_formatted_choice_str)]);
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44 require CPT::ParameterCollection;
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45 my $pC = CPT::ParameterCollection->new();
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46 foreach(@{$self->options()}){
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47 my %z = %{$_};
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48 my $group_name = $z{group};
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49 my @group_opts = @{$z{options}};
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50 push(@opts, [sprintf("Subgroup: %s", $group_name)]);
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51 foreach(@group_opts){
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52 my $p = $pC->_coerce_param($_);
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53 push(@opts, $p->getOptionsArray());
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54 }
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55 }
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56 return \@opts;
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57 }
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58
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59 sub _formatted_choice_str{
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60 my ($self) = @_;
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61 if($self->validator() eq 'xor'){
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62 return 'Please only use options from ONE of the groups below, and no more';
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63 }elsif($self->validator() eq 'or'){
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64 return 'Please only use options from at least ONE of the groups below';
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65 }elsif($self->validator() eq 'and'){
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66 return 'Please ensure values/defaults are specified for ALL of the options in the groups below';
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67 }
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68 return undef;
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69 }
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70
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71
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72 sub populate_from_getopt {
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73 my ( $self, $opt ) = @_;
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74 die 'unimplemented';
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75 }
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76
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77 no Moose;
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78 1;
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79
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80 __END__
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81
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82 =pod
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83
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84 =encoding UTF-8
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85
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86 =head1 NAME
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87
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88 CPT::ParameterGroup
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89
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90 =head1 VERSION
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91
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92 version 1.99.4
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93
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94 =head2 validate
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95
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96 $pC->validate();
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97
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98 calls the validate method, which loops through and checks that user values line up with the validate method in each and every slot.
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99
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100 Currently unimplemented!
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101
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102 =head2 getopt
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103
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104 my @getopt_compatible_array = $pC->getopt()
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105
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106 Returns a getopt compatible array by looping through the array and simply returning array objects, and calling the getOptionsArray method on CPT::Parameter::* objects
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107
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108 =head2 populate_from_getopt
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109
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110 $parameterCollection->populate_from_getopt($opt);
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111
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112 Populate the ->value() from getopt. This is the special sauce of this portion of the module.
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113 Our test case for this function is the connector choice problem.
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114
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115 {
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116 name => 'Data Source #1',
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117 description => "FASTA data source for our script",
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118 type => 'xor', # must select only from one subgroup
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119 options => [
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120 {
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121 group => 'Chado Custom',
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122 options => [
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123 [ 'host' => 'Hostname', { required => 1, validate => 'Str' } ],
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124 [ 'user' => 'Username', { required => 1, validate => 'Str' } ],
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125 [ 'pass' => 'Password', { required => 1, validate => 'Str' } ],
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126 [ 'name' => 'Database name', { required => 1, validate => 'Str' } ],
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127 [ 'organism' => 'organism name', { required => 1, validate => 'Str' } ],
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128 [ 'landmark' => 'landmark name', { required => 1, validate => 'Str' } ],
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129 ]
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130 },
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131 {
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132 group => 'Chado GMOD pre-defined connector',
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133 options => [
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134 [ 'conn=s' => 'Connection Nickname', { required => 1, validate => 'Str' } ],
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135 ]
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136 },
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137 {
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138 group => 'File',
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139 options => [
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140 [ 'file|f=' => 'Input file', { required => 1, validate => 'File/Input' } ],
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141 ]
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142 },
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143
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144 ]
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145 },
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146
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147 This should intelligently set parameters in $opt based on the passed data. The real question is how to handle password....
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148
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149 =head1 AUTHOR
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150
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151 Eric Rasche <rasche.eric@yandex.ru>
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152
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153 =head1 COPYRIGHT AND LICENSE
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154
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155 This software is Copyright (c) 2014 by Eric Rasche.
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156
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157 This is free software, licensed under:
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158
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159 The GNU General Public License, Version 3, June 2007
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160
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161 =cut