extcite 0.1.0

checksums.yaml

@@ -0,0 +1,7 @@
+---
+SHA1:
+  metadata.gz: 59c11ddc6a3c2055e6d32941cf1e5227d759d8bb
+  data.tar.gz: 8bb4d062337f6caf5a272cca33900476ff29049c
+SHA512:
+  metadata.gz: 8319b4a0eaacadc82b97d3780df98ae6669b3d62bb017f348dd32c30b09d433ae5b610afeae9d4566f2714b2681dd57526b826819872182c108dafe6a1b780b5
+  data.tar.gz: e26c399bf22cd9e498bf302ae2b484238aed579b6994a8f4e9d81c0da949b60b6b694681459c02af611d0c5664b5d37d2c1f89e071eea86e43c15f13487413f6

data/.gitignore

@@ -0,0 +1,36 @@
+*.gem
+*.rbc
+/.config
+/coverage/
+/InstalledFiles
+/pkg/
+/spec/reports/
+/test/tmp/
+/test/version_tmp/
+/tmp/
+
+## Specific to RubyMotion:
+.dat*
+.repl_history
+build/
+
+## Documentation cache and generated files:
+/.yardoc/
+/_yardoc/
+/doc/
+/rdoc/
+
+## Environment normalisation:
+/.bundle/
+/lib/bundler/man/
+
+# for a library or gem, you might want to ignore these files since the code is
+# intended to run in multiple environments; otherwise, check them in:
+#Gemfile.lock
+.ruby-version
+.ruby-gemset
+
+# unless supporting rvm < 1.11.0 or doing something fancy, ignore this:
+.rvmrc
+
+cache/

data/.travis.yml

@@ -0,0 +1,9 @@
+language: ruby
+cache: bundler
+rvm:
+  - 2.1.7
+  - 2.2.3
+  - 2.2.4
+  - 2.3.1
+script:
+  bundle exec rake test TESTOPTS="-v"

data/CHANGELOG.md

@@ -0,0 +1,14 @@
+## 0.1.0 (2017-04-06)
+
+* First version to Rubygems
+
+## 0.0.9 (2016-06-17)
+
+* battle tested more, fixed a number of bugs
+* now works with arxiv papers
+* now works with biorxiv, or at least should
+* improved extraction of DOIs
+
+## 0.1.0 (2016-06-07)
+
+* just started, :)

data/Gemfile

@@ -0,0 +1,3 @@
+source 'https://rubygems.org'
+
+gemspec

data/Gemfile.lock

@@ -0,0 +1,81 @@
+PATH
+  remote: .
+  specs:
+    extcite (0.1.0)
+      bibtex-ruby (~> 4.4)
+      faraday (~> 0.12.0.1)
+      faraday_middleware (~> 0.11.0.1)
+      oga (~> 2.2)
+      pdf-reader (~> 2.0)
+      serrano (~> 0.3.6)
+      thor (~> 0.19.4)
+
+GEM
+  remote: https://rubygems.org/
+  specs:
+    Ascii85 (1.0.2)
+    afm (0.2.2)
+    ansi (1.5.0)
+    ast (2.3.0)
+    bibtex-ruby (4.4.3)
+      latex-decode (~> 0.0)
+    codecov (0.1.10)
+      json
+      simplecov
+      url
+    docile (1.1.5)
+    faraday (0.12.0.1)
+      multipart-post (>= 1.2, < 3)
+    faraday_middleware (0.11.0.1)
+      faraday (>= 0.7.4, < 1.0)
+    hashery (2.1.2)
+    json (2.0.3)
+    latex-decode (0.2.2)
+      unicode (~> 0.4)
+    multi_json (1.12.1)
+    multipart-post (2.0.0)
+    oga (2.9)
+      ast
+      ruby-ll (~> 2.1)
+    pdf-reader (2.0.0)
+      Ascii85 (~> 1.0.0)
+      afm (~> 0.2.1)
+      hashery (~> 2.0)
+      ruby-rc4
+      ttfunk
+    power_assert (1.0.1)
+    rake (12.0.0)
+    ruby-ll (2.1.2)
+      ansi
+      ast
+    ruby-rc4 (0.1.5)
+    serrano (0.3.6)
+      faraday (~> 0.12.0.1)
+      faraday_middleware (~> 0.11.0.1)
+      multi_json (~> 1.12, >= 1.12.1)
+      thor (~> 0.19.4)
+    simplecov (0.14.1)
+      docile (~> 1.1.0)
+      json (>= 1.8, < 3)
+      simplecov-html (~> 0.10.0)
+    simplecov-html (0.10.0)
+    test-unit (3.2.3)
+      power_assert
+    thor (0.19.4)
+    ttfunk (1.5.0)
+    unicode (0.4.4.2)
+    url (0.3.2)
+
+PLATFORMS
+  ruby
+
+DEPENDENCIES
+  bundler (~> 1.14, >= 1.14.6)
+  codecov (~> 0.1.10)
+  extcite!
+  rake (~> 12.0, >= 12.0.0)
+  simplecov (~> 0.14.1)
+  test-unit (~> 3.2, >= 3.2.1)
+
+BUNDLED WITH
+   1.14.6

data/README.md

@@ -0,0 +1,71 @@
+extcite
+=======
+
+[![gem version](https://img.shields.io/gem/v/extcite.svg)](https://rubygems.org/gems/extcite)
+[![Build Status](https://travis-ci.org/sckott/extcite.svg?branch=master)](https://travis-ci.org/sckott/extcite)
+[![codecov.io](http://codecov.io/github/sckott/extcite/coverage.svg?branch=master)](http://codecov.io/github/sckott/extcite?branch=master)
+
+__`extcite` gets DOIS and generates citations for your papers__
+
+## Install
+
+### Release version
+
+```
+gem install extcite
+```
+
+### Development version
+
+```
+git clone git@github.com:sckott/extcite.git
+cd extcite
+rake install
+```
+
+> if `rake install` fails, try `sudo rake install`. If that fails, open an issue with what `rake install --trace` gives you
+
+## Examples
+
+### Within Ruby
+
+```ruby
+require 'extcite'
+```
+
+#### Search
+
+A single paper
+
+```ruby
+require 'net/http'
+File.write("foo.pdf", Net::HTTP.get(URI.parse("https://scottchamberlain.info/pdfs/GuoEtal2015PlosOne.pdf")))
+Extcite.extract(path: 'foo.pdf')
+```
+
+bib citation is written to a file given in `file` param
+
+Many papers at once
+
+```ruby
+Dir.mkdir('bar')
+File.write("bar/foo1.pdf", Net::HTTP.get(URI.parse("https://scottchamberlain.info/pdfs/Chamberlain&Szocs2013F1000Research.pdf")))
+File.write("bar/foo2.pdf", Net::HTTP.get(URI.parse("https://scottchamberlain.info/pdfs/GuoEtal2015PlosOne.pdf")))
+Extcite.extract(path: 'bar')
+```
+
+### On the CLI
+
+All pdfs in the current directory:
+
+```shell
+extcite extract .
+```
+
+Single paper
+
+```shell
+extcite extract foo.pdf
+```
+
+[changelog]: https://github.com/sckott/extcite/blob/master/CHANGELOG.md

data/Rakefile

@@ -0,0 +1,41 @@
+require "bundler/gem_tasks"
+require 'rake/testtask'
+
+Rake::TestTask.new do |t|
+  t.libs << "test"
+  t.test_files = FileList['test/test-*.rb']
+  t.verbose = true
+end
+
+desc "Run tests"
+task :default => :test
+
+desc "Build extcite docs"
+task :docs do
+	system "yardoc"
+end
+
+desc "bundle install"
+task :bundle do
+  system "bundle install"
+end
+
+desc "clean out builds"
+task :clean do
+  system "ls | grep [0-9].gem | xargs rm"
+end
+
+desc "Build extcite"
+task :build do
+	system "gem build extcite.gemspec"
+end
+
+desc "Install extcite"
+task :install => [:bundle, :build] do
+	system "gem install extcite-#{Extcite::VERSION}.gem"
+end
+
+desc "Release to Rubygems"
+task :release => :build do
+  system "gem push extcite-#{Extcite::VERSION}.gem"
+end

data/bin/extcite

@@ -0,0 +1,17 @@
+#!/usr/bin/env ruby
+
+require "thor"
+
+class Dz < Thor
+  include Thor::Actions
+  require 'extcite'
+
+  desc "extract STRING", "Get bib data from PDFs"
+  # method_option :path => :string
+  def extract(tt)
+  	tt = "#{tt}"
+    Extcite.extract(path: tt)
+  end
+end
+
+Dz.start(ARGV)

data/extcite.gemspec

@@ -0,0 +1,36 @@
+# coding: utf-8
+lib = File.expand_path('../lib', __FILE__)
+$LOAD_PATH.unshift(lib) unless $LOAD_PATH.include?(lib)
+require 'extcite/version'
+
+Gem::Specification.new do |s|
+  s.name        = 'extcite'
+  s.version     = Extcite::VERSION
+  s.date        = '2017-04-06'
+  s.summary     = "Citations from PDFs"
+  s.description = "Gets DOIS and generates citations for your papers"
+  s.authors     = "Scott Chamberlain"
+  s.email       = 'myrmecocystus@gmail.com'
+  s.homepage    = 'http://github.com/sckott/extcite'
+  s.licenses    = 'MIT'
+
+  s.files = `git ls-files -z`.split("\x0").reject {|f| f.match(%r{^(test|spec|features)/}) }
+  s.require_paths = ["lib"]
+
+  s.bindir      = 'bin'
+  s.executables = ['extcite']
+
+  s.add_development_dependency 'bundler', '~> 1.14', '>= 1.14.6'
+  s.add_development_dependency 'rake', '~> 12.0', '>= 12.0.0'
+  s.add_development_dependency 'test-unit', '~> 3.2', '>= 3.2.1'
+  s.add_development_dependency 'simplecov', '~> 0.14.1'
+  s.add_development_dependency 'codecov', '~> 0.1.10'
+
+  s.add_runtime_dependency 'faraday', '~> 0.12.0.1'
+  s.add_runtime_dependency 'faraday_middleware', '~> 0.11.0.1'
+  s.add_runtime_dependency 'thor', '~> 0.19.4'
+  s.add_runtime_dependency 'oga', '~> 2.2'
+  s.add_runtime_dependency 'serrano', '~> 0.3.6'
+  s.add_runtime_dependency 'bibtex-ruby', '~> 4.4'
+  s.add_runtime_dependency 'pdf-reader', '~> 2.0'
+end

data/extra/fetch.rb

@@ -0,0 +1,49 @@
+module Textminer
+  class Fetch #:nodoc:
+      attr_accessor :doi, :type
+
+      def initialize(doi, type)
+        self.doi = doi
+        self.type = type
+      end
+
+      def fetchtext
+        lks = Textminer.links(self.doi)
+        lk = pick_link(lks)
+        case self.type
+        when "xml"
+          # HTTParty.get(lk)
+          coll = []
+          Array(lk).each do |x|
+            coll << HTTParty.get(x)
+          end
+          return coll
+        when "pdf"
+          serialize_pdf(lk, self.doi)
+        end
+      end
+
+      private
+
+      def pick_link(x)
+        case self.type
+        when "xml"
+          x.xml
+        when "pdf"
+          x.pdf
+        else
+          puts "type must be xml or pdf"
+        end
+      end
+
+      def serialize_pdf(x, y)
+        path = "/Users/sacmac/.textminer/" + y.gsub('/', '_') + ".pdf"
+        File.open(path, "wb") do |f|
+          f.write HTTParty.get(x).parsed_response
+        end
+
+        return path
+      end
+
+    end
+end

data/extra/fetch_method.rb

@@ -0,0 +1,17 @@
+##
+# Thin layer around pdf-reader gem's PDF::Reader
+#
+# @param doi [Array] A DOI, digital object identifier
+# @param type [Array] One of two options to download: xml (default) or pdf
+#
+# @example
+#     require 'textminer'
+#     # fetch full text by DOI - xml by default
+#     Textminer.fetch("10.3897/phytokeys.42.7604")
+#     # many DOIs - xml output
+#     res = Textminer.fetch(["10.3897/phytokeys.42.7604", "10.3897/zookeys.516.9439"])
+#     # fetch full text - pdf
+#     Textminer.fetch("10.3897/phytokeys.42.7604", "pdf")
+def self.fetch(doi, type = 'xml')
+  Fetch.new(doi, type).fetchtext
+end

data/lib/extcite/methods_array.rb

@@ -0,0 +1,8 @@
+# Array methods
+class Array
+  def write_bib(file)
+    File.open(file, 'a') do |f|
+      f.puts self
+    end
+  end
+end

data/lib/extcite/methods_string.rb

@@ -0,0 +1,32 @@
+require 'oga'
+require 'bibtex'
+
+# String methods
+class String
+  def write_bib(file)
+    File.open(file, 'a') do |f|
+      f.puts self
+    end
+  end
+end
+
+class String
+	def make_bib_arxiv(id)
+		# prep xml
+		xml = Oga.parse_xml(self)
+		# author = xml.xpath('//author//name')[0].text.downcase.gsub(/\s|\./, '_')
+		year = DateTime.strptime(xml.xpath('//updated')[0].text).year
+
+		# make bib citation
+		bib = BibTeX::Bibliography.new
+		bib << BibTeX::Entry.new({
+		  :bibtex_type => :article,
+		  :url => xml.xpath('//entry/id').text,
+		  :author => xml.xpath('//author//name').collect { |x| x.text }.join(' and '),
+		  :eprint => id,
+		  :title => xml.xpath('//entry//title').text,
+		  :year => year
+		})
+		return bib.to_s
+	end
+end

data/lib/extcite/utils.rb

@@ -0,0 +1,47 @@
+require "oga"
+
+def singlearray2hash(x)
+  if x.length == 1 && x.class == Array
+    return x[0]
+  else
+    return x
+  end
+end
+
+def dir_files(x)
+	Dir.entries(x).select { |entry|
+		!File.directory? File.join(x, entry) and !(entry =='.' || entry == '..')
+	}.map { |z|
+		x + '/' + z
+	}
+end
+
+def make_paths(x)
+	path = Array(x)
+  if path.length == 1
+    # if a directory
+    if File.directory?(path[0])
+      # keep only files with .pdf extension
+      path = dir_files(path[0]).keep_if { |z| !!z.match(/.pdf/) }
+    end
+  end
+
+  # check that files exist
+  path.each do |z|
+    if !File.exist?(z)
+      raise z + ' not found'
+    end
+  end
+
+  return path
+end
+
+def pdf_doi(x)
+  xml = Oga.parse_xml(x)
+  begin
+    tt = xml.xpath('//rdf:Description')
+    return tt.attr('dc:identifier')[0].text.sub(/doi:/, '')
+  rescue
+    return nil
+  end
+end

data/lib/extcite/version.rb

@@ -0,0 +1,3 @@
+module Extcite
+  VERSION = "0.1.0"
+end

data/lib/extcite.rb

@@ -0,0 +1,224 @@
+require "extcite/utils"
+require "extcite/methods_array"
+require "extcite/methods_string"
+require "extcite/version"
+
+
+require 'serrano'
+require 'pdf-reader'
+require 'faraday'
+
+
+
+module Extcite
+  ##
+  # Extract DOIs from one or more PDFs
+  #
+  # @param path [String] Path to a pdf file, or a folder of PDF files
+  # @param file [String] File name to write data to - or nil to stdout
+  # @param output [String] Typeo of output. only bibtex for now
+  #
+  # Return: writes bib files to a .bib file or an array if file is nil
+  #  When writing to a file, `extract` by default appends to the end
+  #  of the file so you can build up your bibtex file with your
+  #  citations
+  #
+  # @example
+  #   require 'extcite'
+  #   require 'faraday'
+  #   # get a paper in pdf format
+  #   path = '2068.pdf'
+  #   res = Faraday.new(:url => "https://peerj.com/articles/2068.pdf").get
+  #   f = File.new(path, "wb")
+  #   f.write(res.body)
+  #   f.close()
+  #   # extract doi from the pdf
+  #   Extcite.extract(path: path)
+  #   Extcite.extract(path: path, file: nil)
+  def self.extract(path:, file: "out.bib", output: "bib")
+    path = make_paths(path)
+    path.each do |x|
+      # try PDF metadata first
+      ids = nil
+      rr = PDF::Reader.new(x)
+      pdfmeta = rr.metadata
+      if !pdfmeta.nil?
+        xml = Oga.parse_xml(pdfmeta)
+        begin
+          tt = xml.xpath('//rdf:Description')
+          # try dc:identifier attribute
+          ss = tt.attr('dc:identifier')[0]
+          if !ss.nil?
+            ids = ss.text.sub(/doi:/, '')
+          else
+            # try prism:doi node
+            pdoi = xml.xpath('//rdf:Description//prism:doi')
+            if pdoi.length == 1
+              ids = pdoi.text
+            else
+              # try pdf:WPS-ARTICLEDOI node
+              wpsdoi = xml.xpath('//rdf:Description//pdf:WPS-ARTICLEDOI')
+              if wpsdoi.length == 1
+                ids = wpsdoi.text
+              else
+                # try pdfx:WPS-ARTICLEDOI node
+                pdfxwpsdoi = xml.xpath('//rdf:Description//pdfx:WPS-ARTICLEDOI')
+                if pdfxwpsdoi.length == 1
+                  ids = pdfxwpsdoi.text
+                else
+                  ids = nil
+                end
+              end
+            end
+          end
+        rescue
+          ids = nil
+        end
+      end
+
+      # if not found, try regexing for DOI
+      if ids.nil?
+        ids = Extcite.get_ids(txt: Extcite.extract_text_one(x))
+      end
+
+      if ids.length == 0
+        puts "no DOI found in " + x
+      else
+        if !ids.match(/arxiv/i).nil? && ids.length < 200
+          conn = Faraday.new(:url => 'http://export.arxiv.org/api/query?id_list=' + ids.gsub(/arxiv:/i, '')).get
+          bibs = conn.body.make_bib_arxiv(ids.gsub(/arxiv:/i, ''))
+        else
+          bibs = Extcite.cont_neg(ids: ids)
+        end
+
+        # if an error or not found, skip
+        bibstest = nil
+        if bibs.class == Array
+          bibstest = bibs[0]
+        end
+
+        if !bibstest.nil?
+          if !bibstest.match(/error|not found/i).nil? || !bibstest.match(/<\/html>/i).nil?
+            puts "DOI found: " + ids + " ; but citation not found via content negotation - passing"
+            # do something else?
+          else
+            if file.nil?
+              return bibs
+            else
+              puts "writing " + ids + " to " + file
+              bibs.write_bib(file)
+            end
+          end
+        end
+      end
+    end
+  end
+
+  ##
+  # Extract DOIs from one or more PDFs after extracting text
+  #
+  # @param path [String] Path to a pdf file, or a folder of PDF files
+  #
+  # @example
+  #   require 'extcite'
+  #   require 'faraday'
+  #   # get a paper in pdf format
+  #   path = '2068.pdf'
+  #   res = Faraday.new(:url => "https://peerj.com/articles/2068.pdf").get
+  #   f = File.new(path, "wb")
+  #   f.write(res.body)
+  #   f.close()
+  #   # extract doi from the pdf
+  #   Extcite.extract_dois(path: path)
+  def self.extract_dois(path:)
+    txt = Extcite.extract_text(path: path)
+    return txt.map { |z| z.match("[0-9]+\\.[0-9]+/.+").to_s.gsub(/\s.+/, '') }
+  end
+
+  ##
+  # Get DOIs from a String or Array of String's
+  #
+  # @param txt [String] String or Array of String's
+  #
+  # Return: Array of DOIs
+  #
+  # @example
+  #   require 'extcite'
+  #   Extcite.get_ids(txt: '10.1016/j.dendro.2014.01.004 adfasdf asd fas df asdfsd')
+  def self.get_ids(txt:)
+    # see if there's
+
+    return Array(txt).map { |z|
+      # detect if is an arxiv paper
+      if !z.match(/arxiv:[0-9]+\.[0-9A-Za-z]+/i).nil?
+        # if so, return arxiv id for later extraction of arxiv citation via their API
+        z = z.match(/arxiv:[0-9]+\.[0-9A-Za-z]+/i).to_s
+      else
+        doi_pattern = '(10[.][0-9]{4,}(?:[.][0-9]+)*/(?:(?![%"#? ])\\S)+)'
+        z = z.match(doi_pattern).to_s.gsub(/\s.+/, '')
+        # z = z.match("10\\.[0-9]+/.+").to_s.gsub(/\s.+/, '')
+      end
+      # clean up doi
+      z = z.gsub(/\.$|\.;$|\.\]$|\.\}$|\.\)$|,$/, '')
+      return z.gsub(/;$|\]$|\}$|\)$/, '')
+    }[0]
+  end
+
+  ##
+  # Extract text from a pdf, or many pdfs
+  #
+  # @param path [String] Path to a pdf file, or a folder of PDF files
+  #
+  # This method is used internally within fetch to parse PDFs.
+  #
+  # @example
+  #   require 'extcite'
+  #   require 'faraday'
+  #   # get a paper in pdf format
+  #   path = '2068.pdf'
+  #   res = Faraday.new(:url => "https://peerj.com/articles/2068.pdf").get
+  #   f = File.new(path, "wb")
+  #   f.write(res.body)
+  #   f.close()
+  #   # extract doi from the pdf
+  #   Extcite.extract_text(path: path)
+  def self.extract_text(path:)
+    path = Array(path)
+    if path.length == 1
+      if File.directory?(path[0])
+        # keep only files with .pdf extension
+        path = dir_files(path[0]).keep_if { |z| !!z.match(/.pdf/) }
+      end
+    end
+
+    out = []
+    path.each do |x|
+      rr = PDF::Reader.new(x)
+      out << rr.pages.map { |page| page.text }.join("\n")
+    end
+    return out
+  end
+
+  ##
+  # Get citation(s) using Crossref content negotation
+  #
+  # @param ids [Array[String]] One or more DOIs in an array
+  #
+  # Return: an array of bib data
+  #
+  # @example
+  #   require 'extcite'
+  #   Extcite.cont_neg(ids: "10.1016/j.dendro.2014.01.004")
+  def self.cont_neg(ids:)
+    out = Serrano.content_negotiation(ids: ids)
+    return out
+  end
+
+  protected
+
+  def self.extract_text_one(x)
+    rr = PDF::Reader.new(x)
+    return rr.pages.map { |page| page.text }.join("\n")
+  end
+
+end

metadata

@@ -0,0 +1,246 @@
+--- !ruby/object:Gem::Specification
+name: extcite
+version: !ruby/object:Gem::Version
+  version: 0.1.0
+platform: ruby
+authors:
+- Scott Chamberlain
+autorequire: 
+bindir: bin
+cert_chain: []
+date: 2017-04-06 00:00:00.000000000 Z
+dependencies:
+- !ruby/object:Gem::Dependency
+  name: bundler
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.14'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 1.14.6
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.14'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 1.14.6
+- !ruby/object:Gem::Dependency
+  name: rake
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '12.0'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 12.0.0
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '12.0'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 12.0.0
+- !ruby/object:Gem::Dependency
+  name: test-unit
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '3.2'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 3.2.1
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '3.2'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 3.2.1
+- !ruby/object:Gem::Dependency
+  name: simplecov
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.14.1
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.14.1
+- !ruby/object:Gem::Dependency
+  name: codecov
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.1.10
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.1.10
+- !ruby/object:Gem::Dependency
+  name: faraday
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.12.0.1
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.12.0.1
+- !ruby/object:Gem::Dependency
+  name: faraday_middleware
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.11.0.1
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.11.0.1
+- !ruby/object:Gem::Dependency
+  name: thor
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.19.4
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.19.4
+- !ruby/object:Gem::Dependency
+  name: oga
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.2'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.2'
+- !ruby/object:Gem::Dependency
+  name: serrano
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.3.6
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: 0.3.6
+- !ruby/object:Gem::Dependency
+  name: bibtex-ruby
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '4.4'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '4.4'
+- !ruby/object:Gem::Dependency
+  name: pdf-reader
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.0'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.0'
+description: Gets DOIS and generates citations for your papers
+email: myrmecocystus@gmail.com
+executables:
+- extcite
+extensions: []
+extra_rdoc_files: []
+files:
+- ".gitignore"
+- ".travis.yml"
+- CHANGELOG.md
+- Gemfile
+- Gemfile.lock
+- README.md
+- Rakefile
+- bin/extcite
+- extcite.gemspec
+- extra/fetch.rb
+- extra/fetch_method.rb
+- lib/extcite.rb
+- lib/extcite/methods_array.rb
+- lib/extcite/methods_string.rb
+- lib/extcite/utils.rb
+- lib/extcite/version.rb
+homepage: http://github.com/sckott/extcite
+licenses:
+- MIT
+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: 2.6.8
+signing_key: 
+specification_version: 4
+summary: Citations from PDFs
+test_files: []