ctgb-ids-converter 0.1.0

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data/Gemfile

@@ -0,0 +1,16 @@
+source "http://rubygems.org"
+# Add dependencies required to use your gem here.
+# Example:
+gem "typhoeus"
+gem "json"
+
+# Add dependencies to develop your gem here.
+# Include everything needed to run rake, tests, features, etc.
+group :development do
+  gem "rspec"
+  gem "rdoc"
+  gem "bundler"
+  gem "jeweler"
+  # gem "rcov"
+  gem "debugger"
+end

data/Gemfile.lock

@@ -0,0 +1,80 @@
+GEM
+  remote: http://rubygems.org/
+  specs:
+    addressable (2.3.5)
+    builder (3.2.2)
+    columnize (0.3.6)
+    debugger (1.5.0)
+      columnize (>= 0.3.1)
+      debugger-linecache (~> 1.2.0)
+      debugger-ruby_core_source (~> 1.2.0)
+    debugger-linecache (1.2.0)
+    debugger-ruby_core_source (1.2.0)
+    diff-lcs (1.2.4)
+    ethon (0.6.1)
+      ffi (>= 1.3.0)
+      mime-types (~> 1.18)
+    faraday (0.8.8)
+      multipart-post (~> 1.2.0)
+    ffi (1.9.0)
+    git (1.2.6)
+    github_api (0.10.1)
+      addressable
+      faraday (~> 0.8.1)
+      hashie (>= 1.2)
+      multi_json (~> 1.4)
+      nokogiri (~> 1.5.2)
+      oauth2
+    hashie (2.0.5)
+    highline (1.6.19)
+    httpauth (0.2.0)
+    jeweler (1.8.7)
+      builder
+      bundler (~> 1.0)
+      git (>= 1.2.5)
+      github_api (= 0.10.1)
+      highline (>= 1.6.15)
+      nokogiri (= 1.5.10)
+      rake
+      rdoc
+    json (1.8.0)
+    jwt (0.1.8)
+      multi_json (>= 1.5)
+    mime-types (1.25)
+    multi_json (1.8.0)
+    multi_xml (0.5.5)
+    multipart-post (1.2.0)
+    nokogiri (1.5.10)
+    oauth2 (0.9.2)
+      faraday (~> 0.8)
+      httpauth (~> 0.2)
+      jwt (~> 0.1.4)
+      multi_json (~> 1.0)
+      multi_xml (~> 0.5)
+      rack (~> 1.2)
+    rack (1.5.2)
+    rake (10.1.0)
+    rdoc (3.12.2)
+      json (~> 1.4)
+    rspec (2.14.1)
+      rspec-core (~> 2.14.0)
+      rspec-expectations (~> 2.14.0)
+      rspec-mocks (~> 2.14.0)
+    rspec-core (2.14.5)
+    rspec-expectations (2.14.2)
+      diff-lcs (>= 1.1.3, < 2.0)
+    rspec-mocks (2.14.3)
+    typhoeus (0.6.5)
+      ethon (~> 0.6.1)
+
+PLATFORMS
+  ruby
+
+DEPENDENCIES
+  bundler
+  debugger
+  jeweler
+  json
+  rdoc
+  rspec
+  typhoeus

data/LICENSE.txt

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+Copyright (c) 2013 masciugo
+
+Permission is hereby granted, free of charge, to any person obtaining
+a copy of this software and associated documentation files (the
+"Software"), to deal in the Software without restriction, including
+without limitation the rights to use, copy, modify, merge, publish,
+distribute, sublicense, and/or sell copies of the Software, and to
+permit persons to whom the Software is furnished to do so, subject to
+the following conditions:
+
+The above copyright notice and this permission notice shall be
+included in all copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
+EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
+MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
+NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE
+LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION
+OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION
+WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.

data/README.rdoc

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+= ctgb-ids-converter
+
+Description goes here.
+
+== Contributing to ctgb-ids-converter
+ 
+* Check out the latest master to make sure the feature hasn't been implemented or the bug hasn't been fixed yet.
+* Check out the issue tracker to make sure someone already hasn't requested it and/or contributed it.
+* Fork the project.
+* Start a feature/bugfix branch.
+* Commit and push until you are happy with your contribution.
+* Make sure to add tests for it. This is important so I don't break it in a future version unintentionally.
+* Please try not to mess with the Rakefile, version, or history. If you want to have your own version, or is otherwise necessary, that is fine, but please isolate to its own commit so I can cherry-pick around it.
+
+== Copyright
+
+Copyright (c) 2013 masciugo. See LICENSE.txt for
+further details.
+

data/Rakefile

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+# encoding: utf-8
+require 'bundler'
+begin
+  Bundler.setup(:default, :development)
+rescue Bundler::BundlerError => e
+  $stderr.puts e.message
+  $stderr.puts "Run `bundle install` to install missing gems"
+  exit e.status_code
+end
+require 'rake'
+require 'jeweler'
+require './lib/ctgb-ids-converter/version.rb'
+
+Jeweler::Tasks.new do |gem|
+  # gem is a Gem::Specification... see http://docs.rubygems.org/read/chapter/20 for more options
+  gem.name = "ctgb-ids-converter"
+  gem.homepage = "http://github.com/masciugo/ctgb-ids-converter"
+  gem.license = "MIT"
+  gem.summary = %Q{ctgb-ids-converter service client}
+  gem.description = %Q{A library to access the ctgb-ids-converter service}
+  gem.email = "masciugo@gmail.com"
+  gem.authors = ["masciugo"]
+  gem.version = CtgbIdsConverter::VERSION 
+  gem.files = FileList['lib/**/*.rb', '[A-Z]*','spec/**/*'].to_a
+# dependencies defined in Gemfile
+end
+Jeweler::RubygemsDotOrgTasks.new
+
+require 'rspec/core'
+require 'rspec/core/rake_task'
+RSpec::Core::RakeTask.new(:spec) do |spec|
+  spec.rspec_opts = "--format documentation --color --debug"
+  spec.pattern = FileList['spec/**/*_spec.rb']
+end
+
+# RSpec::Core::RakeTask.new(:rcov) do |spec|
+#   spec.pattern = 'spec/**/*_spec.rb'
+#   spec.rcov = true
+# end
+
+task :default => :spec
+
+require 'rdoc/task'
+Rake::RDocTask.new do |rdoc|
+  version = File.exist?('VERSION') ? File.read('VERSION') : ""
+
+  rdoc.rdoc_dir = 'rdoc'
+  rdoc.title = "ctgb-ids-converter #{version}"
+  rdoc.rdoc_files.include('README*')
+  rdoc.rdoc_files.include('lib/**/*.rb')
+end

data/VERSION

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+0.1.0

data/lib/ctgb-ids-converter.rb

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+require 'typhoeus'
+require 'json'
+
+require 'ctgb-ids-converter/version.rb'
+require 'ctgb-ids-converter/exceptions.rb'
+require 'ctgb-ids-converter/config.rb'
+require 'ctgb-ids-converter/remote_converter.rb'
+

data/lib/ctgb-ids-converter/config.rb

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+class CtgbIdsConverter::Config
+  class << self 
+    attr_accessor :host, :hydra, :token, :port
+  end
+  @port = 80
+end

data/lib/ctgb-ids-converter/exceptions.rb

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+module CtgbIdsConverter
+  class WrongIdException < RuntimeError;  end
+  class UnauthorizedConversionException < RuntimeError;  end
+end

data/lib/ctgb-ids-converter/remote_converter.rb

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+class CtgbIdsConverter::RemoteConverter
+  
+  def self.connected?
+    run_request('/api/check_connection') do |response|
+      response.code == 200
+    end
+  end
+
+  def self.code(code)
+    convert(code,:sp2r)
+  end
+
+  def self.decode(code)
+    convert(code,:sr2p)
+  end
+
+  private
+
+  def self.convert(code,direction)
+    run_request("/api/projects/convert/1/#{direction}/#{code}", :method => :put ) do |response|
+      case response.code
+      when 200
+        return JSON.parse(response.response_body)['conv_id']
+      when 400
+        raise CtgbIdsConverter::WrongIdException
+      when 401
+        raise CtgbIdsConverter::UnauthorizedConversionException
+      else
+        raise "Conversion service returned code #{response.code}"
+      end
+    end
+  end
+
+  def self.run_request(resource_path, opts = {}, &block)
+    request = Typhoeus::Request.new(get_uri(resource_path), opts)
+    request.on_complete do |response|
+      # puts response.request.base_url
+      # puts response.response_body.class
+      return yield(response)
+    end
+    CtgbIdsConverter::Config.hydra.queue(request)
+    CtgbIdsConverter::Config.hydra.run
+  end
+
+  def self.get_uri(resource_path)
+    uri_host_part + resource_path + uri_token_part
+  end
+
+  def self.uri_host_part
+    "http://#{CtgbIdsConverter::Config.host}:#{CtgbIdsConverter::Config.port}"
+  end
+
+  def self.uri_token_part
+    postfix = "token=#{CtgbIdsConverter::Config.token}"
+    postfix.insert(0, '?') unless postfix.start_with? '?'
+  end
+
+end

data/lib/ctgb-ids-converter/version.rb

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+module CtgbIdsConverter
+  VERSION = "0.1.0"
+end

data/spec/ctgb-ids-converter_spec.rb

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+require File.expand_path(File.dirname(__FILE__) + '/spec_helper')
+
+describe "CtgbIdsConverter version" do
+  subject { CtgbIdsConverter::VERSION }
+  it {should be_a_kind_of(String)}
+  it {should match(/\d+\.\d+\.\d+/)}
+end
+
+describe "CtgbIdsConverter configuration attributes for service on linux2" do
+  before(:each) do
+    CtgbIdsConverter::Config.hydra = Typhoeus::Hydra.new
+    CtgbIdsConverter::Config.host = 'localhost'
+    CtgbIdsConverter::Config.token = 'zU4vFmORUQ9DBJPlJlt'
+  end
+  subject {CtgbIdsConverter::Config}
+  its(:hydra){ should be_a_kind_of(Typhoeus::Hydra)}
+  its(:host){ should == 'localhost'}
+  its(:token){ should == 'zU4vFmORUQ9DBJPlJlt'}
+  its(:port){ should == 80}
+  context "when set port to 3001" do
+    before(:each) do
+      CtgbIdsConverter::Config.port = 3001
+    end
+    its(:port){ should == 3001}
+  end
+end
+
+# following test are based on ids_converter web service running locally on port 3001 with two test user
+describe CtgbIdsConverter::RemoteConverter do
+  subject(:converter) { CtgbIdsConverter::RemoteConverter }
+  before(:each) do
+    CtgbIdsConverter::Config.hydra = Typhoeus::Hydra.new
+    CtgbIdsConverter::Config.host = 'localhost'
+    CtgbIdsConverter::Config.token = 'zU4vFmORUQ9DBJPlJlt'  #test user with insert public id privilege
+    CtgbIdsConverter::Config.port = 3001
+  end
+
+  describe ".connected?" do
+    it "returns true" do
+      converter.connected?.should be_true
+    end
+  end
+
+  describe ".code" do
+    context "when providing a correct public id" do
+      it "returns coding" do
+        converter.code('AN000127').should == 'XX999341'
+      end
+    end
+    context "when providing a wrong public id" do
+      specify { expect {converter.code('AN000127xs')}.to raise_error CtgbIdsConverter::WrongIdException }
+      specify { expect {converter.code('')}.to raise_error CtgbIdsConverter::WrongIdException }
+    end
+    context "when providing a new public id but user has no intert privileges" do
+      # for this to work AN000000 should be missing in the conversion id DB (ids_pair table)
+      before(:each) do
+        CtgbIdsConverter::Config.token = 'dFdwK5Hhk5d3ocIebea' #test user without insert public id privilege
+      end
+      specify { expect {converter.code('AN000000')}.to raise_error CtgbIdsConverter::UnauthorizedConversionException }
+    end
+  end
+
+  describe ".decode" do
+    context "when providing a correct clinic id" do
+      it "returns decoding" do
+        converter.decode('XX999341').should == 'AN000127'
+      end
+    end
+    context "when providing a wrong clinic id" do
+      specify { expect {converter.decode('XX999341xxx')}.to raise_error CtgbIdsConverter::WrongIdException }
+      specify { expect {converter.decode('')}.to raise_error CtgbIdsConverter::WrongIdException }
+    end
+  end
+end

data/spec/spec_helper.rb

@@ -0,0 +1,10 @@
+require 'rspec'
+
+# Requires supporting files with custom matchers and macros, etc,
+# in ./support/ and its subdirectories.
+Dir["#{File.dirname(__FILE__)}/support/**/*.rb"].each {|f| require f}
+
+RSpec.configure do |config|
+end
+
+require 'ctgb-ids-converter'

metadata

@@ -0,0 +1,156 @@
+--- !ruby/object:Gem::Specification
+name: ctgb-ids-converter
+version: !ruby/object:Gem::Version
+  version: 0.1.0
+platform: ruby
+authors:
+- masciugo
+autorequire: 
+bindir: bin
+cert_chain: []
+date: 2013-10-15 00:00:00.000000000 Z
+dependencies:
+- !ruby/object:Gem::Dependency
+  name: typhoeus
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+- !ruby/object:Gem::Dependency
+  name: json
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - ! '>='
+      - !ruby/object:Gem::Version
+        version: '0'
+- !ruby/object:Gem::Dependency
+  name: rspec
+  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: rdoc
+  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: bundler
+  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: jeweler
+  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: debugger
+  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'
+description: A library to access the ctgb-ids-converter service
+email: masciugo@gmail.com
+executables: []
+extensions: []
+extra_rdoc_files:
+- LICENSE.txt
+- README.rdoc
+files:
+- Gemfile
+- Gemfile.lock
+- LICENSE.txt
+- README.rdoc
+- Rakefile
+- VERSION
+- lib/ctgb-ids-converter.rb
+- lib/ctgb-ids-converter/config.rb
+- lib/ctgb-ids-converter/exceptions.rb
+- lib/ctgb-ids-converter/remote_converter.rb
+- lib/ctgb-ids-converter/version.rb
+- spec/ctgb-ids-converter_spec.rb
+- spec/spec_helper.rb
+homepage: http://github.com/masciugo/ctgb-ids-converter
+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: 2.0.3
+signing_key: 
+specification_version: 4
+summary: ctgb-ids-converter service client
+test_files: []