rschenk-pubmed_search 0.1.0
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- data/.document +5 -0
- data/.gitignore +5 -0
- data/LICENSE +20 -0
- data/README.rdoc +49 -0
- data/Rakefile +48 -0
- data/VERSION +1 -0
- data/lib/pubmed_search.rb +106 -0
- data/spec/pubmed_search_spec.rb +68 -0
- data/spec/responses/bangana_tonkinensis_cranksection.xml +49 -0
- data/spec/responses/biodiversity_informatics.xml +22 -0
- data/spec/responses/e_coli_0.xml +100004 -0
- data/spec/responses/e_coli_1.xml +100004 -0
- data/spec/responses/e_coli_2.xml +75241 -0
- data/spec/responses/mus_musculus.xml +100004 -0
- data/spec/spec_helper.rb +53 -0
- metadata +69 -0
data/spec/spec_helper.rb
ADDED
@@ -0,0 +1,53 @@
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require 'spec'
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require 'uri'
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require 'fakeweb'
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$LOAD_PATH.unshift(File.dirname(__FILE__))
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$LOAD_PATH.unshift(File.join(File.dirname(__FILE__), '..', 'lib'))
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require 'pubmed_search'
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Spec::Runner.configure do |config|
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end
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FakeWeb.allow_net_connect = false
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def fake_esearch_response(search_term, options={})
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file = options[:file] || search_term.downcase.gsub(/\W/, '_')
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FakeWeb.register_uri("http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=pubmed&retmax=100000&retstart=0&term=#{URI.escape search_term}",
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:file => File.dirname(__FILE__) + "/responses/#{file}.xml")
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end
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class OnlyInclude
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def initialize(entries)
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@expected_entries = entries
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end
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def matches?(array)
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@array = array
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@array.sort == @expected_entries.sort
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end
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def description
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"only include"
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end
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def failure_message
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if @expected_entries.length != @array.length
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"expected to have #{@expected_entries.length} entries, but had #{@array.length}: #{@array.inspect}"
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else
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"expected #{@array.inspect} to include #{(@expected_entries - @array).inspect}"
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end
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end
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def negative_failure_message
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"#{@array.inspect} expected to include other entries"
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end
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end
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def only_include(*args)
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OnlyInclude.new args
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end
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metadata
ADDED
@@ -0,0 +1,69 @@
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--- !ruby/object:Gem::Specification
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name: rschenk-pubmed_search
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version: !ruby/object:Gem::Version
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version: 0.1.0
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platform: ruby
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authors:
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- Ryan Schenk
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autorequire:
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bindir: bin
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cert_chain: []
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date: 2009-06-02 00:00:00 -07:00
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default_executable:
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dependencies: []
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description:
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email: rschenk@gmail.com
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executables: []
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extensions: []
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extra_rdoc_files:
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- LICENSE
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- README.rdoc
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files:
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- .document
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- .gitignore
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- LICENSE
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- README.rdoc
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- Rakefile
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- VERSION
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- lib/pubmed_search.rb
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- spec/pubmed_search_spec.rb
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- spec/responses/bangana_tonkinensis_cranksection.xml
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35
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- spec/responses/biodiversity_informatics.xml
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36
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- spec/responses/e_coli_0.xml
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37
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- spec/responses/e_coli_1.xml
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38
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- spec/responses/e_coli_2.xml
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- spec/responses/mus_musculus.xml
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- spec/spec_helper.rb
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has_rdoc: false
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homepage: http://github.com/rschenk/pubmed_search
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post_install_message:
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rdoc_options:
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- --charset=UTF-8
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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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- !ruby/object:Gem::Version
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version: "0"
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version:
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required_rubygems_version: !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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version:
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requirements: []
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rubyforge_project:
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rubygems_version: 1.2.0
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signing_key:
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specification_version: 3
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summary: A PubMed searching library with more features than BioRuby
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test_files:
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68
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- spec/pubmed_search_spec.rb
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69
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- spec/spec_helper.rb
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