bioruby-phyloxml 1.0.0
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- checksums.yaml +7 -0
- data/.gitignore +9 -0
- data/BSDL +22 -0
- data/COPYING +57 -0
- data/COPYING.ja +51 -0
- data/GPL +340 -0
- data/Gemfile +4 -0
- data/LEGAL +36 -0
- data/LGPL +504 -0
- data/README.md +214 -0
- data/Rakefile +20 -0
- data/bioruby-phyloxml.gemspec +36 -0
- data/doc/Tutorial.rd +152 -0
- data/lib/bio-phyloxml.rb +27 -0
- data/lib/bio-phyloxml/compat/cleanup.rb +13 -0
- data/lib/bio-phyloxml/compat/stub_phyloxml_elements.rb +1 -0
- data/lib/bio-phyloxml/compat/stub_phyloxml_parser.rb +1 -0
- data/lib/bio-phyloxml/compat/stub_phyloxml_writer.rb +1 -0
- data/lib/bio-phyloxml/phyloxml.xsd +582 -0
- data/lib/bio-phyloxml/phyloxml_elements.rb +1186 -0
- data/lib/bio-phyloxml/phyloxml_parser.rb +1001 -0
- data/lib/bio-phyloxml/phyloxml_writer.rb +227 -0
- data/lib/bio-phyloxml/version.rb +7 -0
- data/lib/bio/db/phyloxml/phyloxml_elements.rb +4 -0
- data/lib/bio/db/phyloxml/phyloxml_parser.rb +4 -0
- data/lib/bio/db/phyloxml/phyloxml_writer.rb +4 -0
- data/lib/bioruby-phyloxml.rb +10 -0
- data/sample/test_phyloxml_big.rb +205 -0
- metadata +156 -0
metadata
ADDED
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--- !ruby/object:Gem::Specification
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name: bioruby-phyloxml
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version: !ruby/object:Gem::Version
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version: 1.0.0
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platform: ruby
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authors:
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- Diana Jaunzeikare
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- Clayton Wheeler
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9
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- BioRuby project
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autorequire:
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bindir: exe
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12
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cert_chain: []
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date: 2016-06-15 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: bio
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requirement: !ruby/object:Gem::Requirement
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requirements:
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- - ">="
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- !ruby/object:Gem::Version
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version: 1.5.0
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type: :runtime
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prerelease: false
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version_requirements: !ruby/object:Gem::Requirement
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requirements:
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- - ">="
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- !ruby/object:Gem::Version
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version: 1.5.0
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29
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- !ruby/object:Gem::Dependency
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30
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name: libxml-ruby
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requirement: !ruby/object:Gem::Requirement
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requirements:
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33
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- - "~>"
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- !ruby/object:Gem::Version
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version: '2.8'
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type: :runtime
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prerelease: false
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version_requirements: !ruby/object:Gem::Requirement
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requirements:
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- - "~>"
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- !ruby/object:Gem::Version
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version: '2.8'
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- !ruby/object:Gem::Dependency
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name: bundler
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45
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requirement: !ruby/object:Gem::Requirement
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requirements:
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47
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- - "~>"
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48
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- !ruby/object:Gem::Version
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version: '1.10'
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type: :development
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51
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prerelease: false
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version_requirements: !ruby/object:Gem::Requirement
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requirements:
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54
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- - "~>"
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55
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- !ruby/object:Gem::Version
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56
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version: '1.10'
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57
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- !ruby/object:Gem::Dependency
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58
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name: rake
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requirement: !ruby/object:Gem::Requirement
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requirements:
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61
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- - "~>"
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62
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+
- !ruby/object:Gem::Version
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63
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version: '10.0'
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64
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type: :development
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prerelease: false
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version_requirements: !ruby/object:Gem::Requirement
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requirements:
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- - "~>"
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69
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- !ruby/object:Gem::Version
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70
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version: '10.0'
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71
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- !ruby/object:Gem::Dependency
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72
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name: rdoc
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73
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requirement: !ruby/object:Gem::Requirement
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74
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requirements:
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75
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+
- - "~>"
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76
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+
- !ruby/object:Gem::Version
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77
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version: '4'
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78
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type: :development
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79
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prerelease: false
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80
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version_requirements: !ruby/object:Gem::Requirement
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81
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requirements:
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82
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- - "~>"
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83
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- !ruby/object:Gem::Version
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version: '4'
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description: Provides PhyloXML support for BioRuby. This bioruby-phyloxml gem replaces
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old unmaintained bio-phyloxml gem.
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email:
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- staff@bioruby.org
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executables: []
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extensions: []
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91
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extra_rdoc_files:
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92
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- README.md
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93
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- COPYING
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94
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- COPYING.ja
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95
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- BSDL
|
96
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- LGPL
|
97
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- GPL
|
98
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- doc/Tutorial.rd
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99
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files:
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- ".gitignore"
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101
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- BSDL
|
102
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- COPYING
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103
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- COPYING.ja
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104
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- GPL
|
105
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- Gemfile
|
106
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+
- LEGAL
|
107
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+
- LGPL
|
108
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+
- README.md
|
109
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- Rakefile
|
110
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+
- bioruby-phyloxml.gemspec
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111
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- doc/Tutorial.rd
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112
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- lib/bio-phyloxml.rb
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113
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- lib/bio-phyloxml/compat/cleanup.rb
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114
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- lib/bio-phyloxml/compat/stub_phyloxml_elements.rb
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115
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+
- lib/bio-phyloxml/compat/stub_phyloxml_parser.rb
|
116
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- lib/bio-phyloxml/compat/stub_phyloxml_writer.rb
|
117
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- lib/bio-phyloxml/phyloxml.xsd
|
118
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- lib/bio-phyloxml/phyloxml_elements.rb
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119
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- lib/bio-phyloxml/phyloxml_parser.rb
|
120
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- lib/bio-phyloxml/phyloxml_writer.rb
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121
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- lib/bio-phyloxml/version.rb
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122
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- lib/bio/db/phyloxml/phyloxml_elements.rb
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123
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- lib/bio/db/phyloxml/phyloxml_parser.rb
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124
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- lib/bio/db/phyloxml/phyloxml_writer.rb
|
125
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- lib/bioruby-phyloxml.rb
|
126
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- sample/test_phyloxml_big.rb
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127
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homepage: http://github.com/bioruby/bioruby-phyloxml
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licenses:
|
129
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- Ruby
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130
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metadata: {}
|
131
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post_install_message:
|
132
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rdoc_options:
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133
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- "--main"
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134
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- README.md
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135
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- "--title"
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136
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- Bio::PhyloXML API documentation
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137
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- "--line-numbers"
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138
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require_paths:
|
139
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- lib
|
140
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required_ruby_version: !ruby/object:Gem::Requirement
|
141
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requirements:
|
142
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+
- - ">="
|
143
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- !ruby/object:Gem::Version
|
144
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version: '0'
|
145
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required_rubygems_version: !ruby/object:Gem::Requirement
|
146
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requirements:
|
147
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- - ">="
|
148
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- !ruby/object:Gem::Version
|
149
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version: '0'
|
150
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requirements: []
|
151
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rubyforge_project:
|
152
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rubygems_version: 2.4.5.1
|
153
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signing_key:
|
154
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specification_version: 4
|
155
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summary: PhyloXML plugin for BioRuby
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156
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test_files: []
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