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+{"results": {"id": {"eb275979-d99d-4e44-a84f-15ce912ca888": {"fluiddb/about": {"username": "fluiddb", "updated-at": "2012-10-08T17:35:22.902590", "value": "http://dx.doi.org/10.7554/eLife.00013"}, "elifesciences.org/api_v1/article/copyright_holder": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "Alegado et al"}, "elifesciences.org/api_v1/article/article_type": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "research-article"}, "elifesciences.org/api_v1/article/pub_date_day": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 15}, "elifesciences.org/api_v1/article/correspondence": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "*For correspondence: jon_clardy@hms.harvard.edu (JC); nking@berkeley.edu (NK)"}, "elifesciences.org/api_v1/article/received_date_day": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 22}, "elifesciences.org/api_v1/article/award_group_funding_source": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "Gordon and Betty Moore Foundation Marine Microbiology Initiative"}, "elifesciences.org/api_v1/article/research_organism": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "Other"}, "elifesciences.org/api_v1/article/license_url": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "http://creativecommons.org/licenses/by/3.0/"}, "elifesciences.org/api_v1/article/doi_url": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "http://dx.doi.org/10.7554/eLife.00013"}, "elifesciences.org/api_v1/article/pub_date_timestamp": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 1350259200}, "elifesciences.org/api_v1/article/ack": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "AcknowledgementsWe thank Michael Fischbach, Richard Losick, and Russell Vance for critical reading of the manuscript. NK is a Fellow in the Integrated Microbial Biodiversity Program of the Canadian Institute for Advanced Research."}, "elifesciences.org/api_v1/article/journal_title": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "eLife"}, "elifesciences.org/api_v1/article/keywords": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": ["Salpingoeca rosetta", "Algoriphagus", "bacterial sulfonolipid", "multicellular development"]}, "elifesciences.org/api_v1/article/authors": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": ["Rosanna A Alegado", "Laura W Brown", "Shugeng Cao", "Renee K Dermenjian", "Richard Zuzow", "Stephen R Fairclough", "Jon Clardy", "Nicole King"]}, "elifesciences.org/api_v1/article/award_group_award_id": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "F32 GM086054"}, "elifesciences.org/api_v1/article/accepted_date_day": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 18}, "elifesciences.org/api_v1/article/accepted_date_date": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "July 18, 2012"}, "elifesciences.org/api_v1/article/award_group_principle_award_recipient": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "Nicole King"}, "elifesciences.org/api_v1/article/accepted_date_timestamp": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 1342569600}, "elifesciences.org/api_v1/article/abstract": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "Bacterially-produced small molecules exert profound influences on animal health, morphogenesis, and evolution through poorly understood mechanisms. In one of the closest living relatives of animals, the choanoflagellate Salpingoeca rosetta, we find that rosette colony development is induced by the prey bacterium Algoriphagus machipongonensis and its close relatives in the Bacteroidetes phylum. Here we show that a rosette inducing factor (RIF-1) produced by A. machipongonensis belongs to the small class of sulfonolipids, obscure relatives of the better known sphingolipids that play important roles in signal transmission in plants, animals, and fungi. RIF-1 has extraordinary potency (femtomolar, or 10\u221215 M) and S. rosetta can respond to it over a broad dynamic range\u2014nine orders of magnitude. This study provides a prototypical example of bacterial sulfonolipids triggering eukaryotic morphogenesis and suggests molecular mechanisms through which bacteria may have contributed to the evolution of animals."}, "elifesciences.org/api_v1/article/author_notes": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "\u2020These authors contributed equally to this work."}, "elifesciences.org/api_v1/article/received_date_month": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 5}, "elifesciences.org/api_v1/article/received_date_year": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 2012}, "elifesciences.org/api_v1/article/journal_issn_epub": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "2050-084X"}, "elifesciences.org/api_v1/article/pub_date_year": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 2012}, "elifesciences.org/api_v1/article/conflict": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "The remaining authors have no competing interests to declare."}, "elifesciences.org/api_v1/article/funding_statement": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication."}, "elifesciences.org/api_v1/article/received_date_date": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "May 22, 2012"}, "elifesciences.org/api_v1/article/publisher": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "eLife Sciences Publications, Ltd"}, "elifesciences.org/api_v1/article/article_title": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "A bacterial sulfonolipid triggers multicellular development in the closest living relatives of animals"}, "elifesciences.org/api_v1/article/refs": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": ["Agosta WC. 1992. 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J Chem Ecol 33: 1795 \u2013 1805."]}, "elifesciences.org/api_v1/article/license": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited."}, "elifesciences.org/api_v1/article/accepted_date_year": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 2012}, "elifesciences.org/api_v1/article/doi": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "10.7554/eLife.00013"}, "elifesciences.org/api_v1/article/license_type": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "open-access"}, "elifesciences.org/api_v1/article/accepted_date_month": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 7}, "elifesciences.org/api_v1/article/copyright_year": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 2012}, "elifesciences.org/api_v1/article/copyright_statement": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "Copyright \u00a9 2012, Alegado et al"}, "elifesciences.org/api_v1/article/pub_date_month": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 10}, "elifesciences.org/api_v1/article/journal_id": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "elife"}, "elifesciences.org/api_v1/article/components": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": ["http://dx.doi.org/10.7554/eLife.00013.001", "http://dx.doi.org/10.7554/eLife.00013.002", "http://dx.doi.org/10.7554/eLife.00013.003", "http://dx.doi.org/10.7554/eLife.00013.004", "http://dx.doi.org/10.7554/eLife.00013.005", "http://dx.doi.org/10.7554/eLife.00013.006", "http://dx.doi.org/10.7554/eLife.00013.007", "http://dx.doi.org/10.7554/eLife.00013.008", "http://dx.doi.org/10.7554/eLife.00013.009", "http://dx.doi.org/10.7554/eLife.00013.010", "http://dx.doi.org/10.7554/eLife.00013.011", "http://dx.doi.org/10.7554/eLife.00013.012", "http://dx.doi.org/10.7554/eLife.00013.013", "http://dx.doi.org/10.7554/eLife.00013.014", "http://dx.doi.org/10.7554/eLife.00013.015", "http://dx.doi.org/10.7554/eLife.00013.016", "http://dx.doi.org/10.7554/eLife.00013.017", "http://dx.doi.org/10.7554/eLife.00013.018", "http://dx.doi.org/10.7554/eLife.00013.019", "http://dx.doi.org/10.7554/eLife.00013.020", "http://dx.doi.org/10.7554/eLife.00013.021", "http://dx.doi.org/10.7554/eLife.00013.022", "http://dx.doi.org/10.7554/eLife.00013.023", "http://dx.doi.org/10.7554/eLife.00013.024", "http://dx.doi.org/10.7554/eLife.00013.025", "http://dx.doi.org/10.7554/eLife.00013.026", "http://dx.doi.org/10.7554/eLife.00013.027", "http://dx.doi.org/10.7554/eLife.00013.028", "http://dx.doi.org/10.7554/eLife.00013.029", "http://dx.doi.org/10.7554/eLife.00013.030"]}, "elifesciences.org/api_v1/article/subject_area": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": ["Research article", "Cell biology"]}, "elifesciences.org/api_v1/article/received_date_timestamp": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": 1337644800}, "elifesciences.org/api_v1/article/pub_date_date": {"username": "elifesciences.org", "updated-at": "2013-04-23T22:56:51.687475", "value": "October 15, 2012"}}}}}

data/test/test_helper.rb

@@ -0,0 +1 @@
+require 'webmock/test_unit'

data/test/test_paper_summary.rb

@@ -0,0 +1,43 @@
+require 'test/unit'
+require 'paper_summary'
+require 'test_helper'
+
+class PaperSummaryTest < Test::Unit::TestCase
+  def test_elife_summary
+
+    fluiddb_response = File.read(File.join(File.dirname(__FILE__), 'fluiddb.json'))
+    
+    stub_request(:any, /fluiddb.fluidinfo.com\/.*/).
+      to_return(:body => fluiddb_response, :status => 200,  :headers => { 'Content-Length' => fluiddb_response.length })
+
+    dx_doi = File.read(File.join(File.dirname(__FILE__), 'dx_doi.raw'))
+
+    stub_request(:any, /dx.doi.org\/.*/).
+      to_return(dx_doi)
+
+    elife_lookup = File.read(File.join(File.dirname(__FILE__), 'elife_lookup.raw'))
+
+    stub_request(:any, /elife.elifesciences.org\/lookup\/.*/).
+      to_return(elife_lookup)
+
+    elife_xml = File.read(File.join(File.dirname(__FILE__), 'elife.xml'))
+
+    stub_request(:any, /elife.elifesciences.org\/content\/.*/).
+      to_return(:body => elife_xml, :status => 200,  :headers => { 'Content-Length' => elife_xml.length })
+
+    summary_text = PaperSummary.summary_for('doi:10.7554/eLife.00013')[:summary_text]
+    assert summary_text =~ /^All animals, including humans, evolved in a world filled with bacteria./ 
+    assert summary_text =~ /evolution of multicellularity in animals.DOI: http:\/\/dx.doi.org\/10.7554\/eLife.00013.002$/
+      
+  end
+
+  def test_elife_summary_live
+    WebMock.allow_net_connect!
+
+    summary_text = PaperSummary.summary_for('doi:10.7554/eLife.00013')[:summary_text]
+    assert summary_text =~ /^All animals, including humans, evolved in a world filled with bacteria./ 
+    assert summary_text =~ /evolution of multicellularity in animals.DOI: http:\/\/dx.doi.org\/10.7554\/eLife.00013.002$/
+      
+    WebMock.disable_net_connect!
+  end
+end

metadata

@@ -0,0 +1,120 @@
+--- !ruby/object:Gem::Specification
+name: paper_summary
+version: !ruby/object:Gem::Version
+  version: 0.0.1
+platform: ruby
+authors:
+- Jure Triglav
+autorequire: 
+bindir: bin
+cert_chain: []
+date: 2013-07-24 00:00:00.000000000 Z
+dependencies:
+- !ruby/object:Gem::Dependency
+  name: pry
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+- !ruby/object:Gem::Dependency
+  name: rake
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+- !ruby/object:Gem::Dependency
+  name: webmock
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+- !ruby/object:Gem::Dependency
+  name: nokogiri
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - '='
+      - !ruby/object:Gem::Version
+        version: 1.5.6
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - '='
+      - !ruby/object:Gem::Version
+        version: 1.5.6
+description: Summary getter for scientific papers
+email:
+- juretriglav@gmail.com
+executables: []
+extensions: []
+extra_rdoc_files: []
+files:
+- .gitignore
+- Gemfile
+- LICENSE.txt
+- README.md
+- Rakefile
+- lib/paper_summary.rb
+- lib/paper_summary/version.rb
+- paper_summary.gemspec
+- test/dx_doi.raw
+- test/elife.xml
+- test/elife_lookup.raw
+- test/fluiddb.json
+- test/test_helper.rb
+- test/test_paper_summary.rb
+homepage: http://github.com/jure/paper_summary
+licenses: []
+metadata: {}
+post_install_message: 
+rdoc_options: []
+require_paths:
+- lib
+required_ruby_version: !ruby/object:Gem::Requirement
+  requirements:
+  - - ! '>='
+    - !ruby/object:Gem::Version
+      version: '0'
+required_rubygems_version: !ruby/object:Gem::Requirement
+  requirements:
+  - - ! '>='
+    - !ruby/object:Gem::Version
+      version: '0'
+requirements: []
+rubyforge_project: 
+rubygems_version: 2.0.0
+signing_key: 
+specification_version: 4
+summary: Paper_summary gem gets the summary for papers with a DOI or an arXiv identifier
+test_files:
+- test/dx_doi.raw
+- test/elife.xml
+- test/elife_lookup.raw
+- test/fluiddb.json
+- test/test_helper.rb
+- test/test_paper_summary.rb
+has_rdoc: