opentox-ruby 0.0.1
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- data/LICENSE +674 -0
- data/README.rdoc +23 -0
- data/Rakefile +87 -0
- data/VERSION +1 -0
- data/bin/opentox-install-debian.sh +105 -0
- data/bin/opentox-install-ubuntu.sh +375 -0
- data/lib/algorithm.rb +82 -0
- data/lib/compound.rb +128 -0
- data/lib/config/config_ru.rb +51 -0
- data/lib/dataset.rb +226 -0
- data/lib/environment.rb +77 -0
- data/lib/helper.rb +26 -0
- data/lib/model.rb +143 -0
- data/lib/opentox.owl +809 -0
- data/lib/overwrite.rb +14 -0
- data/lib/rest_client_wrapper.rb +168 -0
- data/lib/spork.rb +83 -0
- data/lib/task.rb +176 -0
- data/lib/templates/config.yaml +41 -0
- data/lib/validation.rb +20 -0
- metadata +437 -0
data/lib/validation.rb
ADDED
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@@ -0,0 +1,20 @@
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module OpenTox
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class Validation
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attr_accessor :uri
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def initialize(params)
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@uri = OpenTox::RestClientWrapper.post(File.join(@@config[:services]["opentox-validation"],"/crossvalidation"),params,nil,false)
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end
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def self.crossvalidation(params)
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params[:uri] = File.join(@@config[:services]['opentox-validation'], "crossvalidation")
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params[:num_folds] = 10 unless params[:num_folds]
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params[:random_seed] = 2 unless params[:random_seed]
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params[:stratified] = false unless params[:stratified]
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OpenTox::Validation.new(params)
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end
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end
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end
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metadata
ADDED
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@@ -0,0 +1,437 @@
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--- !ruby/object:Gem::Specification
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name: opentox-ruby
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version: !ruby/object:Gem::Version
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hash: 29
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prerelease: false
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segments:
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- 0
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- 0
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- 1
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version: 0.0.1
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platform: ruby
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authors:
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- Christoph Helma, Martin Guetlein, Andreas Maunz, Micha Rautenberg, David Vorgrimmler
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autorequire:
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bindir: bin
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cert_chain: []
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date: 2010-11-24 00:00:00 +01:00
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default_executable:
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dependencies:
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- !ruby/object:Gem::Dependency
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name: sinatra
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prerelease: false
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requirement: &id001 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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- !ruby/object:Gem::Version
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hash: 3
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segments:
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- 0
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version: "0"
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type: :runtime
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version_requirements: *id001
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- !ruby/object:Gem::Dependency
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name: emk-sinatra-url-for
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prerelease: false
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requirement: &id002 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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- !ruby/object:Gem::Version
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hash: 3
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segments:
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- 0
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version: "0"
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type: :runtime
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version_requirements: *id002
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- !ruby/object:Gem::Dependency
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name: sinatra-respond_to
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prerelease: false
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requirement: &id003 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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- !ruby/object:Gem::Version
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hash: 3
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segments:
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- 0
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version: "0"
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type: :runtime
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version_requirements: *id003
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- !ruby/object:Gem::Dependency
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name: sinatra-static-assets
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prerelease: false
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requirement: &id004 !ruby/object:Gem::Requirement
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none: false
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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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version_requirements: *id004
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- !ruby/object:Gem::Dependency
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name: rest-client
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prerelease: false
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requirement: &id005 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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- !ruby/object:Gem::Version
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hash: 3
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segments:
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- 0
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version: "0"
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type: :runtime
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version_requirements: *id005
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- !ruby/object:Gem::Dependency
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name: rack
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prerelease: false
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requirement: &id006 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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hash: 3
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segments:
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- 0
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version: "0"
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type: :runtime
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version_requirements: *id006
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- !ruby/object:Gem::Dependency
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name: rack-contrib
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prerelease: false
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requirement: &id007 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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hash: 3
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segments:
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version: "0"
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type: :runtime
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version_requirements: *id007
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- !ruby/object:Gem::Dependency
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name: rack-flash
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prerelease: false
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requirement: &id008 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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segments:
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version_requirements: *id008
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- !ruby/object:Gem::Dependency
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name: nokogiri
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prerelease: false
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requirement: &id009 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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segments:
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type: :runtime
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version_requirements: *id009
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- !ruby/object:Gem::Dependency
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name: rubyzip
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prerelease: false
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requirement: &id010 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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- !ruby/object:Gem::Version
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type: :runtime
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version_requirements: *id010
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- !ruby/object:Gem::Dependency
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name: roo
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prerelease: false
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requirement: &id011 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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version_requirements: *id011
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- !ruby/object:Gem::Dependency
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name: spreadsheet
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prerelease: false
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requirement: &id012 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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version_requirements: *id012
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- !ruby/object:Gem::Dependency
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name: google-spreadsheet-ruby
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prerelease: false
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requirement: &id013 !ruby/object:Gem::Requirement
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none: false
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requirements:
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version_requirements: *id013
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- !ruby/object:Gem::Dependency
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name: tmail
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prerelease: false
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requirement: &id014 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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version_requirements: *id014
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- !ruby/object:Gem::Dependency
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name: rinruby
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prerelease: false
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requirement: &id015 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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- !ruby/object:Gem::Dependency
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name: rjb
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prerelease: false
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requirement: &id016 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ">="
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version_requirements: *id016
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- !ruby/object:Gem::Dependency
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name: dm-core
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prerelease: false
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requirement: &id017 !ruby/object:Gem::Requirement
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none: false
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requirements:
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version_requirements: *id017
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- !ruby/object:Gem::Dependency
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name: dm-serializer
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requirement: &id018 !ruby/object:Gem::Requirement
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- !ruby/object:Gem::Dependency
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name: dm-timestamps
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prerelease: false
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none: false
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version_requirements: *id019
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- !ruby/object:Gem::Dependency
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name: dm-types
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prerelease: false
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requirement: &id020 !ruby/object:Gem::Requirement
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none: false
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name: dm-migrations
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prerelease: false
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name: dm-mysql-adapter
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320
|
+
requirements:
|
|
321
|
+
- - ">="
|
|
322
|
+
- !ruby/object:Gem::Version
|
|
323
|
+
hash: 1
|
|
324
|
+
segments:
|
|
325
|
+
- 1
|
|
326
|
+
version: "1"
|
|
327
|
+
type: :runtime
|
|
328
|
+
version_requirements: *id022
|
|
329
|
+
- !ruby/object:Gem::Dependency
|
|
330
|
+
name: dm-validations
|
|
331
|
+
prerelease: false
|
|
332
|
+
requirement: &id023 !ruby/object:Gem::Requirement
|
|
333
|
+
none: false
|
|
334
|
+
requirements:
|
|
335
|
+
- - ">="
|
|
336
|
+
- !ruby/object:Gem::Version
|
|
337
|
+
hash: 1
|
|
338
|
+
segments:
|
|
339
|
+
- 1
|
|
340
|
+
version: "1"
|
|
341
|
+
type: :runtime
|
|
342
|
+
version_requirements: *id023
|
|
343
|
+
- !ruby/object:Gem::Dependency
|
|
344
|
+
name: haml
|
|
345
|
+
prerelease: false
|
|
346
|
+
requirement: &id024 !ruby/object:Gem::Requirement
|
|
347
|
+
none: false
|
|
348
|
+
requirements:
|
|
349
|
+
- - ">="
|
|
350
|
+
- !ruby/object:Gem::Version
|
|
351
|
+
hash: 5
|
|
352
|
+
segments:
|
|
353
|
+
- 3
|
|
354
|
+
version: "3"
|
|
355
|
+
type: :runtime
|
|
356
|
+
version_requirements: *id024
|
|
357
|
+
- !ruby/object:Gem::Dependency
|
|
358
|
+
name: jeweler
|
|
359
|
+
prerelease: false
|
|
360
|
+
requirement: &id025 !ruby/object:Gem::Requirement
|
|
361
|
+
none: false
|
|
362
|
+
requirements:
|
|
363
|
+
- - ">="
|
|
364
|
+
- !ruby/object:Gem::Version
|
|
365
|
+
hash: 3
|
|
366
|
+
segments:
|
|
367
|
+
- 0
|
|
368
|
+
version: "0"
|
|
369
|
+
type: :development
|
|
370
|
+
version_requirements: *id025
|
|
371
|
+
description: Ruby wrapper for the OpenTox REST API (http://www.opentox.org)
|
|
372
|
+
email: helma@in-silico.ch
|
|
373
|
+
executables:
|
|
374
|
+
- opentox-install-ubuntu.sh
|
|
375
|
+
- opentox-install-debian.sh
|
|
376
|
+
extensions: []
|
|
377
|
+
|
|
378
|
+
extra_rdoc_files:
|
|
379
|
+
- LICENSE
|
|
380
|
+
- README.rdoc
|
|
381
|
+
files:
|
|
382
|
+
- LICENSE
|
|
383
|
+
- README.rdoc
|
|
384
|
+
- Rakefile
|
|
385
|
+
- VERSION
|
|
386
|
+
- bin/opentox-install-debian.sh
|
|
387
|
+
- bin/opentox-install-ubuntu.sh
|
|
388
|
+
- lib/algorithm.rb
|
|
389
|
+
- lib/compound.rb
|
|
390
|
+
- lib/config/config_ru.rb
|
|
391
|
+
- lib/dataset.rb
|
|
392
|
+
- lib/environment.rb
|
|
393
|
+
- lib/helper.rb
|
|
394
|
+
- lib/model.rb
|
|
395
|
+
- lib/opentox.owl
|
|
396
|
+
- lib/overwrite.rb
|
|
397
|
+
- lib/rest_client_wrapper.rb
|
|
398
|
+
- lib/spork.rb
|
|
399
|
+
- lib/task.rb
|
|
400
|
+
- lib/templates/config.yaml
|
|
401
|
+
- lib/validation.rb
|
|
402
|
+
has_rdoc: true
|
|
403
|
+
homepage: http://github.com/helma/opentox-ruby-api-wrapper
|
|
404
|
+
licenses: []
|
|
405
|
+
|
|
406
|
+
post_install_message:
|
|
407
|
+
rdoc_options:
|
|
408
|
+
- --charset=UTF-8
|
|
409
|
+
require_paths:
|
|
410
|
+
- lib
|
|
411
|
+
required_ruby_version: !ruby/object:Gem::Requirement
|
|
412
|
+
none: false
|
|
413
|
+
requirements:
|
|
414
|
+
- - ">="
|
|
415
|
+
- !ruby/object:Gem::Version
|
|
416
|
+
hash: 3
|
|
417
|
+
segments:
|
|
418
|
+
- 0
|
|
419
|
+
version: "0"
|
|
420
|
+
required_rubygems_version: !ruby/object:Gem::Requirement
|
|
421
|
+
none: false
|
|
422
|
+
requirements:
|
|
423
|
+
- - ">="
|
|
424
|
+
- !ruby/object:Gem::Version
|
|
425
|
+
hash: 3
|
|
426
|
+
segments:
|
|
427
|
+
- 0
|
|
428
|
+
version: "0"
|
|
429
|
+
requirements: []
|
|
430
|
+
|
|
431
|
+
rubyforge_project:
|
|
432
|
+
rubygems_version: 1.3.7
|
|
433
|
+
signing_key:
|
|
434
|
+
specification_version: 3
|
|
435
|
+
summary: Ruby wrapper for the OpenTox REST API
|
|
436
|
+
test_files: []
|
|
437
|
+
|