conceptql 0.0.1

data/spec/spec_helper.rb

@@ -0,0 +1,74 @@
+require 'sequel'
+
+class Minitest::SharedExamples < Module
+  include Minitest::Spec::DSL
+
+  def self.find(name)
+    @shared_examples ||= {}
+    @shared_examples[name]
+  end
+
+  def self.register(name, &block)
+    @shared_examples ||= {}
+    @shared_examples[name] = block
+  end
+end
+
+def shared_examples_for(name, &block)
+  Minitest::SharedExamples.register(name, &block)
+end
+
+shared_examples_for(:evaluator) do |subject|
+  subject.must_respond_to(:evaluate)
+  subject.must_respond_to(:query)
+  subject.must_respond_to(:types)
+end
+
+shared_examples_for(:source_vocabulary_node) do |subject|
+  subject.must_behave_like(:evaluator)
+  subject.must_respond_to(:table)
+  subject.must_respond_to(:concept_column)
+  subject.must_respond_to(:source_column)
+  subject.must_respond_to(:vocabulary_id)
+end
+
+shared_examples_for(:standard_vocabulary_node) do |subject|
+  subject.must_behave_like(:evaluator)
+  subject.must_respond_to(:table)
+  subject.must_respond_to(:concept_column)
+  subject.must_respond_to(:vocabulary_id)
+end
+
+shared_examples_for(:node) do |subject|
+  subject.must_respond_to(:values)
+  subject.must_respond_to(:arguments)
+  subject.must_respond_to(:children)
+end
+
+shared_examples_for(:temporal_node) do |subject|
+  subject.must_behave_like(:evaluator)
+  subject.must_respond_to(:where_clause)
+end
+
+shared_examples_for(:casting_node) do |subject|
+  subject.must_behave_like(:evaluator)
+  subject.must_respond_to(:my_type)
+  subject.must_respond_to(:i_point_at)
+  subject.must_respond_to(:these_point_at_me)
+end
+
+module Minitest::Assertions
+  def assert_behaves_like(subject, name, msg = nil)
+    Minitest::SharedExamples.find(name).call(subject)
+  end
+end
+
+module Minitest::Expectations
+  infect_an_assertion :assert_behaves_like, :must_behave_like, :reverse
+end
+
+def require_double(double_name)
+  p = Pathname.new('.')
+  p = p + 'spec' + 'doubles' + (double_name + '_double')
+  require(p.expand_path)
+end

metadata

@@ -0,0 +1,327 @@
+--- !ruby/object:Gem::Specification
+name: conceptql
+version: !ruby/object:Gem::Version
+  version: 0.0.1
+platform: ruby
+authors:
+- Ryan Duryea
+autorequire: 
+bindir: bin
+cert_chain: []
+date: 2014-07-11 00:00:00.000000000 Z
+dependencies:
+- !ruby/object:Gem::Dependency
+  name: activesupport
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '4.1'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '4.1'
+- !ruby/object:Gem::Dependency
+  name: sequelizer
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '0.0'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '0.0'
+- !ruby/object:Gem::Dependency
+  name: thor
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '0.19'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '0.19'
+- !ruby/object:Gem::Dependency
+  name: pg
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '0.17'
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '0.17'
+- !ruby/object:Gem::Dependency
+  name: bundler
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.5'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.5'
+- !ruby/object:Gem::Dependency
+  name: ruby-graphviz
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.2'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.2'
+- !ruby/object:Gem::Dependency
+  name: rake
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '10.3'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '10.3'
+- !ruby/object:Gem::Dependency
+  name: minitest
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '5.4'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '5.4'
+- !ruby/object:Gem::Dependency
+  name: guard-minitest
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.3'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.3'
+description: ConceptQL is a query language for specifying queries to be run OMOP CDMv4
+  structured data
+email:
+- aguynamedryan@gmail.com
+executables:
+- conceptql
+extensions: []
+extra_rdoc_files: []
+files:
+- ".gitignore"
+- CHANGELOG.md
+- Gemfile
+- Guardfile
+- LICENSE.txt
+- README.md
+- Rakefile
+- bin/conceptql
+- conceptql.gemspec
+- doc/ConceptQL Specification (alpha).pdf
+- doc/diagram_0.png
+- doc/spec.md
+- lib/conceptql.rb
+- lib/conceptql/behaviors/dottable.rb
+- lib/conceptql/cli.rb
+- lib/conceptql/date_adjuster.rb
+- lib/conceptql/graph.rb
+- lib/conceptql/graph_nodifier.rb
+- lib/conceptql/logger.rb
+- lib/conceptql/nodes/after.rb
+- lib/conceptql/nodes/before.rb
+- lib/conceptql/nodes/binary_operator_node.rb
+- lib/conceptql/nodes/casting_node.rb
+- lib/conceptql/nodes/complement.rb
+- lib/conceptql/nodes/concept.rb
+- lib/conceptql/nodes/condition_type.rb
+- lib/conceptql/nodes/cpt.rb
+- lib/conceptql/nodes/date_range.rb
+- lib/conceptql/nodes/death.rb
+- lib/conceptql/nodes/during.rb
+- lib/conceptql/nodes/except.rb
+- lib/conceptql/nodes/first.rb
+- lib/conceptql/nodes/from.rb
+- lib/conceptql/nodes/gender.rb
+- lib/conceptql/nodes/hcpcs.rb
+- lib/conceptql/nodes/icd10.rb
+- lib/conceptql/nodes/icd9.rb
+- lib/conceptql/nodes/icd9_procedure.rb
+- lib/conceptql/nodes/intersect.rb
+- lib/conceptql/nodes/last.rb
+- lib/conceptql/nodes/loinc.rb
+- lib/conceptql/nodes/node.rb
+- lib/conceptql/nodes/occurrence.rb
+- lib/conceptql/nodes/pass_thru.rb
+- lib/conceptql/nodes/person.rb
+- lib/conceptql/nodes/person_filter.rb
+- lib/conceptql/nodes/place_of_service_code.rb
+- lib/conceptql/nodes/procedure_occurrence.rb
+- lib/conceptql/nodes/race.rb
+- lib/conceptql/nodes/rxnorm.rb
+- lib/conceptql/nodes/snomed.rb
+- lib/conceptql/nodes/source_vocabulary_node.rb
+- lib/conceptql/nodes/standard_vocabulary_node.rb
+- lib/conceptql/nodes/started_by.rb
+- lib/conceptql/nodes/temporal_node.rb
+- lib/conceptql/nodes/time_window.rb
+- lib/conceptql/nodes/union.rb
+- lib/conceptql/nodes/visit.rb
+- lib/conceptql/nodes/visit_occurrence.rb
+- lib/conceptql/nodifier.rb
+- lib/conceptql/query.rb
+- lib/conceptql/tree.rb
+- lib/conceptql/version.rb
+- lib/conceptql/view_maker.rb
+- spec/conceptql/behaviors/dottable_spec.rb
+- spec/conceptql/date_adjuster_spec.rb
+- spec/conceptql/nodes/after_spec.rb
+- spec/conceptql/nodes/before_spec.rb
+- spec/conceptql/nodes/casting_node_spec.rb
+- spec/conceptql/nodes/complement_spec.rb
+- spec/conceptql/nodes/concept_spec.rb
+- spec/conceptql/nodes/condition_type_spec.rb
+- spec/conceptql/nodes/cpt_spec.rb
+- spec/conceptql/nodes/date_range_spec.rb
+- spec/conceptql/nodes/death_spec.rb
+- spec/conceptql/nodes/during_spec.rb
+- spec/conceptql/nodes/except_spec.rb
+- spec/conceptql/nodes/first_spec.rb
+- spec/conceptql/nodes/from_spec.rb
+- spec/conceptql/nodes/gender_spec.rb
+- spec/conceptql/nodes/hcpcs_spec.rb
+- spec/conceptql/nodes/icd10_spec.rb
+- spec/conceptql/nodes/icd9_procedure_spec.rb
+- spec/conceptql/nodes/icd9_spec.rb
+- spec/conceptql/nodes/intersect_spec.rb
+- spec/conceptql/nodes/last_spec.rb
+- spec/conceptql/nodes/loinc_spec.rb
+- spec/conceptql/nodes/occurrence_spec.rb
+- spec/conceptql/nodes/person_filter_spec.rb
+- spec/conceptql/nodes/person_spec.rb
+- spec/conceptql/nodes/place_of_service_code_spec.rb
+- spec/conceptql/nodes/procedure_occurrence_spec.rb
+- spec/conceptql/nodes/query_double.rb
+- spec/conceptql/nodes/race_spec.rb
+- spec/conceptql/nodes/rxnorm_spec.rb
+- spec/conceptql/nodes/snomed_spec.rb
+- spec/conceptql/nodes/source_vocabulary_node_spec.rb
+- spec/conceptql/nodes/standard_vocabulary_node_spec.rb
+- spec/conceptql/nodes/started_by_spec.rb
+- spec/conceptql/nodes/temporal_node_spec.rb
+- spec/conceptql/nodes/time_window_spec.rb
+- spec/conceptql/nodes/union_spec.rb
+- spec/conceptql/nodes/visit_occurrence_spec.rb
+- spec/conceptql/query_spec.rb
+- spec/conceptql/tree_spec.rb
+- spec/doubles/stream_for_casting_double.rb
+- spec/doubles/stream_for_occurrence_double.rb
+- spec/doubles/stream_for_temporal_double.rb
+- spec/spec_helper.rb
+homepage: https://github.com/outcomesinsights/conceptql
+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: 2.2.2
+signing_key: 
+specification_version: 4
+summary: Generate OMOP CDMv4-compatible queries from a ConceptQL file
+test_files:
+- spec/conceptql/behaviors/dottable_spec.rb
+- spec/conceptql/date_adjuster_spec.rb
+- spec/conceptql/nodes/after_spec.rb
+- spec/conceptql/nodes/before_spec.rb
+- spec/conceptql/nodes/casting_node_spec.rb
+- spec/conceptql/nodes/complement_spec.rb
+- spec/conceptql/nodes/concept_spec.rb
+- spec/conceptql/nodes/condition_type_spec.rb
+- spec/conceptql/nodes/cpt_spec.rb
+- spec/conceptql/nodes/date_range_spec.rb
+- spec/conceptql/nodes/death_spec.rb
+- spec/conceptql/nodes/during_spec.rb
+- spec/conceptql/nodes/except_spec.rb
+- spec/conceptql/nodes/first_spec.rb
+- spec/conceptql/nodes/from_spec.rb
+- spec/conceptql/nodes/gender_spec.rb
+- spec/conceptql/nodes/hcpcs_spec.rb
+- spec/conceptql/nodes/icd10_spec.rb
+- spec/conceptql/nodes/icd9_procedure_spec.rb
+- spec/conceptql/nodes/icd9_spec.rb
+- spec/conceptql/nodes/intersect_spec.rb
+- spec/conceptql/nodes/last_spec.rb
+- spec/conceptql/nodes/loinc_spec.rb
+- spec/conceptql/nodes/occurrence_spec.rb
+- spec/conceptql/nodes/person_filter_spec.rb
+- spec/conceptql/nodes/person_spec.rb
+- spec/conceptql/nodes/place_of_service_code_spec.rb
+- spec/conceptql/nodes/procedure_occurrence_spec.rb
+- spec/conceptql/nodes/query_double.rb
+- spec/conceptql/nodes/race_spec.rb
+- spec/conceptql/nodes/rxnorm_spec.rb
+- spec/conceptql/nodes/snomed_spec.rb
+- spec/conceptql/nodes/source_vocabulary_node_spec.rb
+- spec/conceptql/nodes/standard_vocabulary_node_spec.rb
+- spec/conceptql/nodes/started_by_spec.rb
+- spec/conceptql/nodes/temporal_node_spec.rb
+- spec/conceptql/nodes/time_window_spec.rb
+- spec/conceptql/nodes/union_spec.rb
+- spec/conceptql/nodes/visit_occurrence_spec.rb
+- spec/conceptql/query_spec.rb
+- spec/conceptql/tree_spec.rb
+- spec/doubles/stream_for_casting_double.rb
+- spec/doubles/stream_for_occurrence_double.rb
+- spec/doubles/stream_for_temporal_double.rb
+- spec/spec_helper.rb
+has_rdoc: