Commits

Sarah Richardson committed a750452

v 5.52

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Files changed (23)

     module_name         => 'Bio::GeneDesign',
     license             => 'bsd',
     dist_author         => q{Sarah Richardson <SMRichardson@lbl.gov>},
-    dist_version        => '5.51',
+    dist_version        => '5.52',
     dist_abstract       => 'Functions for the design of synthetic genes',
     add_to_cleanup      => [ 'Bio::GeneDesign-*' ],
     create_makefile_pl  => 'traditional',
 Revision history for Bio::GeneDesign
 
+5.52 13.10.30
+	Fixed a problem where tests fail on systems that have never had GeneDesign installed
+
 5.51 13.10.22
 	Used Module::Build prompt to avoid breaking automated tests
 
    "provides" : {
       "Bio::GeneDesign" : {
          "file" : "lib/Bio/GeneDesign.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::Basic" : {
          "file" : "lib/Bio/GeneDesign/Basic.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::CodonJuggle" : {
          "file" : "lib/Bio/GeneDesign/CodonJuggle.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::Codons" : {
          "file" : "lib/Bio/GeneDesign/Codons.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::Exceptions" : {
          "file" : "lib/Bio/GeneDesign/Exceptions.pm",
       },
       "Bio::GeneDesign::Graph" : {
          "file" : "lib/Bio/GeneDesign/Graph.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::Oligo" : {
          "file" : "lib/Bio/GeneDesign/Oligo.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::PrefixTree" : {
          "file" : "lib/Bio/GeneDesign/PrefixTree.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::Random" : {
          "file" : "lib/Bio/GeneDesign/Random.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::RestrictionEnzyme" : {
          "file" : "lib/Bio/GeneDesign/RestrictionEnzyme.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::RestrictionEnzymes" : {
          "file" : "lib/Bio/GeneDesign/RestrictionEnzymes.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       },
       "Bio::GeneDesign::ReverseTranslate" : {
          "file" : "lib/Bio/GeneDesign/ReverseTranslate.pm",
-         "version" : "5.51"
+         "version" : "5.52"
       }
    },
    "release_status" : "stable",
          "http://opensource.org/licenses/bsd-license.php"
       ]
    },
-   "version" : "5.51"
+   "version" : "5.52"
 }
 provides:
   Bio::GeneDesign:
     file: lib/Bio/GeneDesign.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::Basic:
     file: lib/Bio/GeneDesign/Basic.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::CodonJuggle:
     file: lib/Bio/GeneDesign/CodonJuggle.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::Codons:
     file: lib/Bio/GeneDesign/Codons.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::Exceptions:
     file: lib/Bio/GeneDesign/Exceptions.pm
     version: 0
   Bio::GeneDesign::Graph:
     file: lib/Bio/GeneDesign/Graph.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::Oligo:
     file: lib/Bio/GeneDesign/Oligo.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::PrefixTree:
     file: lib/Bio/GeneDesign/PrefixTree.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::Random:
     file: lib/Bio/GeneDesign/Random.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::RestrictionEnzyme:
     file: lib/Bio/GeneDesign/RestrictionEnzyme.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::RestrictionEnzymes:
     file: lib/Bio/GeneDesign/RestrictionEnzymes.pm
-    version: 5.51
+    version: 5.52
   Bio::GeneDesign::ReverseTranslate:
     file: lib/Bio/GeneDesign/ReverseTranslate.pm
-    version: 5.51
+    version: 5.52
 requires:
   Bio::Root::Root: 0
   Exception::Class: 0
   perl: 5.006
 resources:
   license: http://opensource.org/licenses/bsd-license.php
-version: 5.51
+version: 5.52

bin/GD_Filter_Enzymes.pl

 use strict;
 use warnings;
 
-my $VERSION = '5.51';
+my $VERSION = '5.52';
 my $GDV = "GD_Filter_Enzymes$VERSION";
 
 local $| = 1;
 
 =head1 VERSION
 
-  Version 5.51
+  Version 5.52
 
 =head1 DESCRIPTION
 

bin/GD_Generate_RSCU_Table.pl

 use strict;
 use warnings;
 
-my $VERSION = '5.51';
+my $VERSION = '5.52';
 my $GDV = "GD_Generate_RSCU_Table_$VERSION";
 my $GDS = ".rscu";
 
 
 =head1 VERSION
 
-  Version 5.51
+  Version 5.52
 
 =head1 DESCRIPTION
 

bin/GD_Graph_Dotplot.pl

 use strict;
 use warnings;
 
-my $VERSION = '5.51';
+my $VERSION = '5.52';
 my $GDV = "GD_Graph_Dotplot_$VERSION";
 
 local $| = 1;
   
 =head1 VERSION
 
-  Version 5.51
+  Version 5.52
   
 =head1 DESCRIPTION
 

bin/GD_Graph_RSCU_Values.pl

 use strict;
 use warnings;
 
-my $VERSION = '5.51';
+my $VERSION = '5.52';
 my $GDV = "GD_Graph_RSCU_Values_$VERSION";
 my $GDS = "_GRV";
 
   
 =head1 VERSION
 
-  Version 5.51
+  Version 5.52
   
 =head1 DESCRIPTION
 

bin/GD_Juggle_Codons.pl

 use strict;
 use warnings;
 
-my $VERSION = '5.51';
+my $VERSION = '5.52';
 my $GDV = "GD_Juggle_Codons_$VERSION";
 my $GDS = "_CJ";
 
 
 =head1 VERSION
 
-  Version 5.51
+  Version 5.52
 
 =head1 DESCRIPTION
 

bin/GD_Reverse_Translate.pl

 use strict;
 use warnings;
 
-my $VERSION = '5.51';
+my $VERSION = '5.52';
 my $GDV = "GD_Reverse_Translate_$VERSION";
 my $GDS = "_RT";
 
 
 =head1 VERSION
 
-  Version 5.51
+  Version 5.52
 
 =head1 DESCRIPTION
 

bin/GD_Sequence_Subtraction.pl

 use strict;
 use warnings;
 
-my $VERSION = '5.51';
+my $VERSION = '5.52';
 my $GDV = "GD_Sequence_Subtraction_$VERSION";
 my $GDS = "_SS";
 
 
 =head1 VERSION
 
-  Version 5.51
+  Version 5.52
 
 =head1 DESCRIPTION
 

lib/Bio/GeneDesign.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-my $VERSION = 5.51;
+my $VERSION = 5.52;
   
 =head1 CONSTRUCTORS
 

lib/Bio/GeneDesign/Basic.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-our $VERSION = 5.51;
+our $VERSION = 5.52;
 
 use base qw(Exporter);
 our @EXPORT_OK = qw(

lib/Bio/GeneDesign/CodonJuggle.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-our $VERSION = 5.51;
+our $VERSION = 5.52;
 
 use base qw(Exporter);
 our @EXPORT_OK = qw(

lib/Bio/GeneDesign/Codons.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-our $VERSION = 5.51;
+our $VERSION = 5.52;
 
 use base qw(Exporter);
 our @EXPORT_OK = qw(

lib/Bio/GeneDesign/Exceptions.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 

lib/Bio/GeneDesign/Graph.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-our $VERSION = 5.51;
+our $VERSION = 5.52;
 
 use base qw(Exporter);
 our @EXPORT_OK = qw(

lib/Bio/GeneDesign/Oligo.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-our $VERSION = 5.51;
+our $VERSION = 5.52;
 
 use base qw(Exporter);
 our @EXPORT_OK = qw(

lib/Bio/GeneDesign/PrefixTree.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-my $VERSION = 5.51;
+my $VERSION = 5.52;
 
 =head1 Functions
 

lib/Bio/GeneDesign/Random.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-our $VERSION = 5.51;
+our $VERSION = 5.52;
 
 use base qw(Exporter);
 our @EXPORT_OK = qw(

lib/Bio/GeneDesign/RestrictionEnzyme.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 
 use base qw(Bio::Root::Root);
 
-our $VERSION = 5.51;
+our $VERSION = 5.52;
 
 my $IIPreg  = qr/   ([A-Z]*)   \^ ([A-Z]*)      /x;
 my $IIAreg  = qr/\A \w+ \(([\-]*\d+) \/ ([\-]*\d+)\)\Z  /x;

lib/Bio/GeneDesign/RestrictionEnzymes.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-our $VERSION = 5.51;
+our $VERSION = 5.52;
 
 use base qw(Exporter);
 our @EXPORT_OK = qw(

lib/Bio/GeneDesign/ReverseTranslate.pm

 
 =head1 VERSION
 
-Version 5.51
+Version 5.52
 
 =head1 DESCRIPTION
 
 use strict;
 use warnings;
 
-our $VERSION = 5.51;
+our $VERSION = 5.52;
 
 use base qw(Exporter);
 our @EXPORT_OK = qw(