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package Class::AutoClass::Root; |
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use strict; |
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=head1 NAME |
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Class::AutoClass::Root |
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=head1 SYNOPSIS |
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# Here's how to throw and catch an exception using the eval-based syntax. |
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$obj->throw("This is an exception"); |
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eval { |
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$obj->throw("This is catching an exception"); |
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}; |
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if( $@ ) { |
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print "Caught exception"; |
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} else { |
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print "no exception"; |
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} |
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=head1 DESCRIPTION |
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This class provides some basic functionality for Class::* classes. |
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This package is borrowed from bioperl project (http://bioperl.org/). Because of the |
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formidable size of the bioperl library, Root.pm is included here with modifications. |
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These modifications were to pare its functioanlity down for its simple job here |
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(removing routines that are out of context and removing references to bioperl to avoid confusion). |
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Functions originally from Steve Chervitz of bioperl. Refactored by Ewan |
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Birney of bioperl. Re-refactored by Lincoln Stein of bioperl. |
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=head2 Throwing Exceptions |
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One of the functionalities that Class::AutoClass::Root provides is the |
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ability to throw() exceptions with pretty stack traces. |
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=head1 CONTACT |
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contact: Chris Cavnor -> ccavnor@systemsbiology.org |
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=head1 APPENDIX |
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45
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The rest of the documentation details each of the object |
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methods. Internal methods are usually preceded with a _ |
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=cut |
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#' |
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52
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use vars qw(@ISA $DEBUG $ID $Revision $VERSION $VERBOSITY $ERRORLOADED @EXPORT); |
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1518
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use strict; |
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852
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54
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55
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BEGIN { |
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57
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$ID = 'Class::AutoClass::Root'; |
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$VERSION = 1.0; |
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$Revision = ''; |
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$DEBUG = 0; |
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$VERBOSITY = 0; |
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19195
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$ERRORLOADED = 0; |
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} |
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65
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66
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67
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=head2 new |
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69
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Purpose : generic instantiation function can be overridden if |
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special needs of a module cannot be done in _initialize |
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72
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=cut |
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74
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sub new { |
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1
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1
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1
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my $class = shift; |
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1
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3
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my $self = {}; |
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1
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33
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8
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bless $self, ref($class) || $class; |
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79
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1
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50
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5
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if(@_ > 1) { |
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# if the number of arguments is odd but at least 3, we'll give |
81
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# it a try to find -verbose |
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0
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0
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shift if @_ % 2; |
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0
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0
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my %param = @_; |
84
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0
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0
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0
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$self->verbose($param{'-VERBOSE'} || $param{'-verbose'}); |
85
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} |
86
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1
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4
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return $self; |
87
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} |
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89
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=head2 verbose |
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91
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Title : verbose |
92
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Usage : $self->verbose(1) |
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Function: Sets verbose level for how ->warn behaves |
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-1 = no warning |
95
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0 = standard, small warning |
96
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1 = warning with stack trace |
97
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2 = warning becomes throw |
98
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Returns : The current verbosity setting (integer between -1 to 2) |
99
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Args : -1,0,1 or 2 |
100
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101
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102
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=cut |
103
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104
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sub verbose { |
105
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3
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3
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1
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6
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my ($self,$value) = @_; |
106
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# allow one to set global verbosity flag |
107
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3
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50
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12
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return $DEBUG if $DEBUG; |
108
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3
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50
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8
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return $VERBOSITY unless ref $self; |
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110
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3
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100
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66
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if (defined $value || ! defined $self->{'_root_verbose'}) { |
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1
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50
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7
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$self->{'_root_verbose'} = $value || 0; |
112
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} |
113
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3
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11
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return $self->{'_root_verbose'}; |
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} |
115
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116
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sub _register_for_cleanup { |
117
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0
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0
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0
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my ($self,$method) = @_; |
118
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0
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0
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0
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if($method) { |
119
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0
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0
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0
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if(! exists($self->{'_root_cleanup_methods'})) { |
120
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0
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0
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$self->{'_root_cleanup_methods'} = []; |
121
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} |
122
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0
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0
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push(@{$self->{'_root_cleanup_methods'}},$method); |
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0
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123
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} |
124
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} |
125
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126
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sub _unregister_for_cleanup { |
127
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0
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0
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0
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my ($self,$method) = @_; |
128
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0
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0
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my @methods = grep {$_ ne $method} $self->_cleanup_methods; |
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0
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0
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129
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0
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0
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$self->{'_root_cleanup_methods'} = \@methods; |
130
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} |
131
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132
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133
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sub _cleanup_methods { |
134
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69
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69
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98
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my $self = shift; |
135
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69
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50
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33
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656
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return unless ref $self && $self->isa('HASH'); |
136
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69
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50
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7334
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my $methods = $self->{'_root_cleanup_methods'} or return; |
137
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0
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0
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@$methods; |
138
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139
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} |
140
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141
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=head2 throw |
142
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143
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Title : throw |
144
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Usage : $obj->throw("throwing exception message") |
145
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Function: Throws an exception, which, if not caught with an eval brace |
146
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will provide a nice stack trace to STDERR with the message |
147
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Returns : nothing |
148
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Args : A string giving a descriptive error message |
149
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150
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151
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=cut |
152
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153
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sub throw{ |
154
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1
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1
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1
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466
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my ($self,$string) = @_; |
155
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156
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1
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4
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my $std = $self->_stack_trace_dump(); |
157
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158
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1
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10
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my $out = "\n-------------------- EXCEPTION --------------------\n". |
159
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"MSG: ".$string."\n".$std."-------------------------------------------\n"; |
160
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1
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8
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die $out; |
161
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162
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} |
163
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164
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=head2 stack_trace |
165
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166
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Title : stack_trace |
167
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Usage : @stack_array_ref= $self->stack_trace |
168
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Function: gives an array to a reference of arrays with stack trace info |
169
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each coming from the caller(stack_number) call |
170
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Returns : array containing a reference of arrays |
171
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Args : none |
172
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173
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174
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=cut |
175
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176
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sub stack_trace{ |
177
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3
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3
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1
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506
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my ($self) = @_; |
178
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179
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3
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10
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my $i = 0; |
180
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3
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4
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my @out; |
181
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my $prev; |
182
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3
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25
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while( my @call = caller($i++)) { |
183
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# major annoyance that caller puts caller context as |
184
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# function name. Hence some monkeying around... |
185
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9
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17
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$prev->[3] = $call[3]; |
186
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9
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11
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push(@out,$prev); |
187
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9
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62
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$prev = \@call; |
188
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} |
189
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3
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6
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$prev->[3] = 'toplevel'; |
190
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3
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5
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push(@out,$prev); |
191
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3
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9
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return @out; |
192
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} |
193
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194
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=head2 _stack_trace_dump |
195
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196
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Title : _stack_trace_dump |
197
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Usage : |
198
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Function: |
199
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Example : |
200
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Returns : |
201
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Args : |
202
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203
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204
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=cut |
205
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206
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sub _stack_trace_dump{ |
207
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2
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2
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3
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my ($self) = @_; |
208
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209
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2
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14
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my @stack = $self->stack_trace(); |
210
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211
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2
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5
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shift @stack; |
212
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2
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15
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shift @stack; |
213
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2
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5
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shift @stack; |
214
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215
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2
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7
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my $out; |
216
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2
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4
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my ($module,$function,$file,$position); |
217
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218
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219
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2
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4
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foreach my $stack ( @stack) { |
220
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4
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6
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($module,$file,$position,$function) = @{$stack}; |
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4
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13
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221
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4
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18
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$out .= "STACK $function $file:$position\n"; |
222
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} |
223
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224
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2
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14
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return $out; |
225
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} |
226
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227
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228
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=head2 deprecated |
229
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230
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Title : deprecated |
231
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Usage : $obj->deprecated("Method X is deprecated"); |
232
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Function: Prints a message about deprecation |
233
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unless verbose is < 0 (which means be quiet) |
234
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Returns : none |
235
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Args : Message string to print to STDERR |
236
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237
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=cut |
238
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239
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sub deprecated{ |
240
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1
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1
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1
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1128
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my ($self,$msg) = @_; |
241
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1
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50
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4
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if( $self->verbose >= 0 ) { |
242
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1
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5
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print STDERR $msg, "\n", $self->_stack_trace_dump; |
243
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} |
244
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} |
245
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246
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=head2 warn |
247
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248
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Title : warn |
249
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Usage : $object->warn("Warning message"); |
250
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Function: Places a warning. What happens now is down to the |
251
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verbosity of the object (value of $obj->verbose) |
252
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verbosity 0 or not set => small warning |
253
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verbosity -1 => no warning |
254
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verbosity 1 => warning with stack trace |
255
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verbosity 2 => converts warnings into throw |
256
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Example : |
257
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Returns : |
258
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Args : |
259
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260
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=cut |
261
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262
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sub warn{ |
263
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2
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2
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1
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1035
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my ($self,$string) = @_; |
264
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265
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2
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4
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my $verbose; |
266
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2
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50
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50
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if( $self->can('verbose') ) { |
267
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2
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6
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$verbose = $self->verbose; |
268
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} else { |
269
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0
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0
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$verbose = 0; |
270
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} |
271
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272
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2
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50
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11
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if( $verbose == 2 ) { |
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50
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50
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273
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0
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0
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$self->throw($string); |
274
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} elsif( $verbose == -1 ) { |
275
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0
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0
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return; |
276
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} elsif( $verbose == 1 ) { |
277
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0
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0
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my $out = "\n-------------------- WARNING ---------------------\n". |
278
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"MSG: ".$string."\n"; |
279
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0
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0
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$out .= $self->_stack_trace_dump; |
280
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281
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0
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0
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print STDERR $out; |
282
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0
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0
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return; |
283
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} |
284
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285
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2
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7
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my $out = "\n-------------------- WARNING ---------------------\n". |
286
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"MSG: ".$string."\n". |
287
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"---------------------------------------------------\n"; |
288
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2
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6
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print STDERR $out; |
289
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} |
290
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291
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=head2 debug |
292
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293
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Title : debug |
294
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Usage : $obj->debug("This is debugging output"); |
295
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Function: Prints a debugging message when verbose is > 0 |
296
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Returns : none |
297
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Args : message string(s) to print to STDERR |
298
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299
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=cut |
300
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301
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sub debug{ |
302
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0
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0
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1
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0
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my ($self,@msgs) = @_; |
303
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304
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0
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0
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0
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if( $self->verbose > 0 ) { |
305
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0
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0
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print STDERR join("", @msgs); |
306
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} |
307
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|
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} |
308
|
|
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309
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|
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|
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sub DESTROY { |
310
|
69
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|
|
69
|
|
20803
|
my $self = shift; |
311
|
69
|
50
|
|
|
|
342
|
my @cleanup_methods = $self->_cleanup_methods or return; |
312
|
0
|
|
|
|
|
|
for my $method (@cleanup_methods) { |
313
|
0
|
|
|
|
|
|
$method->($self); |
314
|
|
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} |
315
|
|
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|
|
} |
316
|
|
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317
|
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318
|
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319
|
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|
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1; |
320
|
|
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