rbfam 0.1.3 → 0.2.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/.gitignore +19 -0
- data/Gemfile +4 -0
- data/Gemfile.lock +95 -0
- data/Rakefile +3 -0
- data/db/config.yml +5 -0
- data/db/migrate/20140114232757_add_alignment_table.rb +14 -0
- data/db/migrate/20140114232805_add_sequence_table.rb +17 -0
- data/db/migrate/20140114232810_add_family_table.rb +15 -0
- data/db/schema.rb +44 -0
- data/lib/rbfam.rb +10 -3
- data/lib/rbfam/modules/alignment.rb +15 -17
- data/lib/rbfam/modules/family.rb +17 -19
- data/lib/rbfam/modules/sequence.rb +4 -14
- data/lib/rbfam/scripts/sequences_in_mysql.rb +38 -21
- data/lib/rbfam/version.rb +3 -0
- data/load_rbfam_seed.rb +28 -0
- data/rbfam.gemspec +34 -0
- data/rfam_12.seed.utf8 +139884 -0
- metadata +169 -22
metadata
CHANGED
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@@ -1,77 +1,221 @@
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--- !ruby/object:Gem::Specification
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name: rbfam
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version: !ruby/object:Gem::Version
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-
version: 0.
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4
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version: 0.2.0
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platform: ruby
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authors:
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- Evan Senter
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autorequire:
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bindir: bin
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cert_chain: []
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date:
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date: 2014-12-11 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: standalone_migrations
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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: '2.1'
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- - ">="
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- !ruby/object:Gem::Version
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version: 2.1.5
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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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- !ruby/object:Gem::Version
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version: '2.1'
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- - ">="
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- !ruby/object:Gem::Version
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version: 2.1.5
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- !ruby/object:Gem::Dependency
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name: activerecord
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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: '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: '0'
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- !ruby/object:Gem::Dependency
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name: activesupport
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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: '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: '0'
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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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- - "~>"
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- !ruby/object:Gem::Version
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version: '1.4'
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- - ">="
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- !ruby/object:Gem::Version
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version: 1.4.2
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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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- - "~>"
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- !ruby/object:Gem::Version
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version: '1.4'
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- - ">="
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- !ruby/object:Gem::Version
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version: 1.4.2
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- !ruby/object:Gem::Dependency
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name: bio-stockholm
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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: '0.0'
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.0.1
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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: '0.0'
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.0.1
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- !ruby/object:Gem::Dependency
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name: entrez
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requirement: !ruby/object:Gem::Requirement
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requirements:
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-
- -
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- - "~>"
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- !ruby/object:Gem::Version
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version: '0.5'
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.5.8.1
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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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- - "~>"
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- !ruby/object:Gem::Version
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version: '0.5'
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.5.8.1
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- !ruby/object:Gem::Dependency
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name: httparty
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requirement: !ruby/object:Gem::Requirement
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requirements:
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- -
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- - "~>"
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- !ruby/object:Gem::Version
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version: '0.8'
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.8.3
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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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- - "~>"
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- !ruby/object:Gem::Version
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version: '0.8'
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.8.3
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- !ruby/object:Gem::Dependency
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name:
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name: mysql2
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requirement: !ruby/object:Gem::Requirement
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requirements:
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- -
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- - "~>"
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- !ruby/object:Gem::Version
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version: 0.
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version: '0.3'
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.3.14
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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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- - "~>"
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- !ruby/object:Gem::Version
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version: '0.3'
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- - ">="
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- !ruby/object:Gem::Version
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version: 0.
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version: 0.3.14
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- !ruby/object:Gem::Dependency
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name: nokogiri
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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: '1.6'
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- - ">="
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- !ruby/object:Gem::Version
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version: 1.6.1
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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: '1.6'
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- - ">="
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- !ruby/object:Gem::Version
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version: 1.6.1
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- !ruby/object:Gem::Dependency
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name: parallel
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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: '1.3'
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- - ">="
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- !ruby/object:Gem::Version
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version: 1.3.2
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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: '1.3'
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- - ">="
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- !ruby/object:Gem::Version
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version: 1.3.2
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description: Light wrapper for RFam data in Ruby.
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email:
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email:
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- evansenter@gmail.com
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executables: []
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extensions: []
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extra_rdoc_files: []
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files:
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- ".gitignore"
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- Gemfile
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- Gemfile.lock
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- README.md
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- Rakefile
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- db/config.yml
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- db/migrate/20140114232757_add_alignment_table.rb
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- db/migrate/20140114232805_add_sequence_table.rb
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- db/migrate/20140114232810_add_family_table.rb
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- db/schema.rb
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- lib/rbfam.rb
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- lib/rbfam/helpers/common.rb
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- lib/rbfam/helpers/simple_names.json
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- lib/rbfam/modules/alignment.rb
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@@ -79,10 +223,13 @@ files:
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- lib/rbfam/modules/sequence.rb
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- lib/rbfam/modules/utils.rb
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- lib/rbfam/scripts/sequences_in_mysql.rb
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- lib/rbfam.rb
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-
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- lib/rbfam/version.rb
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- load_rbfam_seed.rb
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- rbfam.gemspec
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- rfam_12.seed.utf8
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homepage: ''
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licenses:
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- MIT
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metadata: {}
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post_install_message:
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rdoc_options: []
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@@ -90,17 +237,17 @@ require_paths:
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- lib
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required_ruby_version: !ruby/object:Gem::Requirement
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requirements:
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-
- -
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- - ">="
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- !ruby/object:Gem::Version
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version: '0'
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version: '2.0'
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required_rubygems_version: !ruby/object:Gem::Requirement
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requirements:
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- -
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- - ">="
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- !ruby/object:Gem::Version
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version: '0'
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requirements: []
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rubyforge_project:
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rubygems_version: 2.
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rubygems_version: 2.4.4
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signing_key:
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specification_version: 4
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summary: Bindings to Rfam.
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