mimiweb 0.1.1 → 0.1.2
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- data/README.rdoc +19 -21
- data/VERSION +1 -1
- data/lib/mimiweb.rb +3 -3
- data/mimiweb.gemspec +2 -2
- data/test/test_mimiweb.rb +40 -0
- metadata +15 -15
data/README.rdoc
CHANGED
@@ -6,37 +6,34 @@ http://portal.ncibi.org/gateway/
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http://mimi.ncibi.org/MimiWeb/main-page.jsp
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-
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== Usage
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-
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require 'mimiweb'
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-
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# Free text search
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results = Mimiweb.search("pwp1")
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-
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# GeneID search (Entrez)
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results = Mimiweb.entrez(1436)
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# Or pass a type. Types are: compounds, interactions, reactions, nlp.
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# Default = :interactions
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-
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results = Mimiweb.entrez(7389, :compounds)
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-
ruby-1.9.2-p290 :001 > results = Mimiweb.entrez(1436)
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-
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# KEGG CompundID search
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results = Mimiweb.kegg_compund("C00061")
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-
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# KEGG ReactionID search
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-
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-
:reactions
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-
:nlp
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-
:interactions # default
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results = Mimiweb.kegg_reaction("R00548")
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-
ruby-1.9.2-p290 :001 > results = Mimiweb.entrez(1436, type)
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+
== To Do
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-
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-
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-
ruby-1.9.2-p290 :001 > results = Mimiweb.kegg_compund("C00061")
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-
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-
== KEGG ReactionID search
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-
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-
ruby-1.9.2-p290 :001 > results = Mimiweb.kegg_reaction("R00548")
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* Tests
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* Error handling
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== Contributing to mimiweb
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@@ -51,4 +48,5 @@ ruby-1.9.2-p290 :001 > results = Mimiweb.kegg_reaction("R00548")
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== Copyright
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Copyright (c) 2011 Jose Irizarry. See LICENSE.txt for
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-
further details.
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+
further details.
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+
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data/VERSION
CHANGED
@@ -1 +1 @@
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1
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-
0.1.
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1
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+
0.1.2
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data/lib/mimiweb.rb
CHANGED
@@ -6,16 +6,16 @@ module Mimiweb
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include HTTParty
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BASE_URL = 'http://mimi.ncibi.org/MimiWeb/fetch.jsp?'
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def search(term)
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get_results(:search, term)
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get_results(:search, term, type="")
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end
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def entrez(id, type="interactions")
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get_results(:geneid, id, type)
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end
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def kegg_compound(id)
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-
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get_results(:cid, id, type="")
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end
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def kegg_reaction(id)
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get_results(:rid, id)
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get_results(:rid, id, type="")
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end
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private
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data/mimiweb.gemspec
CHANGED
@@ -5,11 +5,11 @@
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5
5
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Gem::Specification.new do |s|
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s.name = "mimiweb"
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-
s.version = "0.1.
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+
s.version = "0.1.2"
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s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
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s.authors = ["Jose Irizarry"]
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-
s.date = "2011-10-
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s.date = "2011-10-11"
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s.description = "Access to MiMI and Metabolomics databases via a web service provided by NCIBI."
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s.email = "jose@mrkp.co"
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s.extra_rdoc_files = [
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data/test/test_mimiweb.rb
CHANGED
@@ -1,4 +1,44 @@
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require 'helper'
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class TestMimiweb < Test::Unit::TestCase
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def test_free_text_search
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term = "pwp1"
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results = Mimiweb.search(term)
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assert_equal 'Array', results.class.to_s
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end
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def test_entrez_compounds_search
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term = 7389
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results = Mimiweb.entrez(term, :compounds)
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assert_equal 'Array', results.class.to_s
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end
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def test_entrez_reactions_search
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term = 1436
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results = Mimiweb.entrez(term, :reactions)
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assert_equal 'Hashie::Mash', results.class.to_s
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end
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def test_entrez_nlp_search
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term = 4005
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results = Mimiweb.entrez(term, :nlp)
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assert_equal 'Array', results.class.to_s
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end
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def test_entrez_interactions_search
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term = 1436
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results = Mimiweb.entrez(term)
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assert_equal 'Array', results.class.to_s
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end
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def test_kegg_compound_search
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term = "C00061"
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results = Mimiweb.kegg_compound(term)
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assert_equal 'Hashie::Mash', results.class.to_s
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end
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def test_kegg_reactions_search
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term = "R00548"
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results = Mimiweb.kegg_reaction(term)
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assert_equal 'Hashie::Mash', results.class.to_s
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end
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end
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metadata
CHANGED
@@ -1,7 +1,7 @@
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1
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--- !ruby/object:Gem::Specification
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name: mimiweb
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version: !ruby/object:Gem::Version
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version: 0.1.
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version: 0.1.2
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prerelease:
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platform: ruby
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authors:
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@@ -9,11 +9,11 @@ authors:
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autorequire:
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bindir: bin
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cert_chain: []
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-
date: 2011-10-
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date: 2011-10-11 00:00:00.000000000Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: shoulda
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requirement: &
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requirement: &81283900 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ! '>='
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@@ -21,10 +21,10 @@ dependencies:
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version: '0'
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type: :development
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prerelease: false
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version_requirements: *
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version_requirements: *81283900
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- !ruby/object:Gem::Dependency
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name: bundler
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requirement: &
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requirement: &81283560 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ~>
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@@ -32,10 +32,10 @@ dependencies:
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version: 1.0.0
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type: :development
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prerelease: false
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version_requirements: *
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version_requirements: *81283560
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- !ruby/object:Gem::Dependency
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name: jeweler
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requirement: &
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requirement: &81283310 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ~>
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@@ -43,10 +43,10 @@ dependencies:
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version: 1.6.4
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type: :development
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prerelease: false
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version_requirements: *
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version_requirements: *81283310
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- !ruby/object:Gem::Dependency
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name: rcov
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requirement: &
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requirement: &81283010 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ! '>='
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@@ -54,10 +54,10 @@ dependencies:
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version: '0'
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type: :development
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prerelease: false
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version_requirements: *
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version_requirements: *81283010
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- !ruby/object:Gem::Dependency
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name: httparty
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requirement: &
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requirement: &81282680 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ! '>='
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@@ -65,10 +65,10 @@ dependencies:
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version: '0'
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type: :development
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prerelease: false
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version_requirements: *
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version_requirements: *81282680
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- !ruby/object:Gem::Dependency
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name: hashie
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requirement: &
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requirement: &81282380 !ruby/object:Gem::Requirement
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none: false
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requirements:
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- - ! '>='
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@@ -76,7 +76,7 @@ dependencies:
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version: '0'
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type: :development
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prerelease: false
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version_requirements: *
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version_requirements: *81282380
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description: Access to MiMI and Metabolomics databases via a web service provided
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by NCIBI.
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email: jose@mrkp.co
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@@ -112,7 +112,7 @@ required_ruby_version: !ruby/object:Gem::Requirement
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version: '0'
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segments:
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- 0
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-
hash:
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hash: 662934685
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required_rubygems_version: !ruby/object:Gem::Requirement
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none: false
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requirements:
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