tao_rdfizer 0.10.2 → 0.11.0

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
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-  data.tar.gz: e4bbdf5b014fed6779dc79f3b786a2d9d066a2a4dd9a8a1e8a87dec466d908ae
+  metadata.gz: ce27142842502109c882dc01222a5aa8e402f21c9305bcd5797a712dde5a0f8b
+  data.tar.gz: 8b542b1d3d4992e1129fa95cde633967bb55e805d7ed69fc36cb95940215004f
 SHA512:
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+  metadata.gz: 65aecd55bf6fbd609565800231c8f87cad533bc25422912927ef9293e4e7e03bcab6bb5fd639320bf184cd7f0b0aa5de9c5a880734e768f6830761b5eaa6afec
+  data.tar.gz: ef195ea7ddae0dfa1409659066e5700369659d08fd40390c85f3384c3476ca44defd9c8eee602d6ebb5ef0dc75d63894a76fc5f597d79e57f1bf28598ecd20f5

data/bin/tao_rdfizer

@@ -3,6 +3,7 @@ require 'tao_rdfizer'
 require 'json'
 
 mode = nil
+options = {}
 
 ## command line option processing
 require 'optparse'
@@ -17,6 +18,14 @@ optparse = OptionParser.new do |opts|
     mode = :spans
   end
 
+  opts.on('-x', '--x-prefixes', 'without prefixes.') do
+    options[:with_prefixes] = false
+  end
+
+  opts.on('-o', '--only-prefixes', 'only prefixes.') do
+    options[:only_prefixes] = true
+  end
+
   opts.on('-h', '--help', 'displays this screen.') do
     puts opts
     exit
@@ -34,7 +43,7 @@ begin
 	annotations = JSON.parse File.read(ARGV[0]), :symbolize_names => true
 	annotations = [annotations] unless annotations.class == Array
 	rdfizer = TAO::RDFizer.new(mode)
-	puts rdfizer.rdfize(annotations)
+	puts rdfizer.rdfize(annotations, options)
 rescue ArgumentError, IOError => e
 	puts e.message
 end

data/lib/tao_rdfizer/tao_rdfizer.rb

@@ -14,12 +14,15 @@ class TAO::RDFizer
 		else
 			ERB_ANNOTATIONS_TTL
 		end
-
 		@tao_ttl_erb = ERB.new(template, nil, '-')
 		@prefix_ttl_erb = ERB.new(ERB_PREFIXES_TTL, nil, '-')
 	end
 
-	def rdfize(annotations_col, with_prefix = true)
+	def rdfize(annotations_col, options = nil)
+		options ||= {}
+		only_prefixes = options.has_key?(:only_prefixes) ? options[:only_prefixes] == true : false
+		with_prefixes = options.has_key?(:with_prefixes) ? options[:with_prefixes] == true : true
+
 		# check the format
 		annotations_col.each do |annotations|
 			raise "'target' is missing" unless annotations.has_key? :target
@@ -31,6 +34,25 @@ class TAO::RDFizer
 		anns = annotations_col.first
 		anns[:namespaces].each {|n| namespaces[n[:prefix]] = n[:uri]} unless anns[:namespaces].nil?
 
+		prefixes_ttl = @prefix_ttl_erb.result_with_hash(namespaces:namespaces) if only_prefixes || with_prefixes
+
+		if only_prefixes
+			prefixes_ttl
+		else
+			annotations_ttl = get_annotations_ttl(annotations_col, namespaces)
+			if with_prefixes
+				prefixes_ttl + annotations_ttl
+			else
+				annotations_ttl
+			end
+		end
+	end
+
+	private
+
+	def get_annotations_ttl(annotations_col, namespaces)
+		anns = annotations_col.first
+
 		unless @mode ==:spans
 			raise ArgumentError, "A project name has to be specified." unless anns.has_key?(:project)
 			prefix_for_this = anns[:project].downcase.gsub(/ /, '_')
@@ -65,7 +87,7 @@ class TAO::RDFizer
 			end
 
 			begin
-				if @mode == :annotations
+				unless @mode == :span
 					# index attributes
 					attributesh = _attributes.inject({}) do |h, a|
 						if a[:pred].end_with?('_id')
@@ -172,13 +194,9 @@ class TAO::RDFizer
 			spans += _spans unless @mode == :annotations
 		end
 
-		ttl  = ''
-		ttl += @prefix_ttl_erb.result(binding) if with_prefix
-		ttl += @tao_ttl_erb.result(binding)
+		@tao_ttl_erb.result(binding)
 	end
 
-	private
-
 	def include_parent?(spans, span)
 		# spans.each{|s| return true if (s[:begin] <= span[:begin] && s[:end] > span[:end]) || (s[:begin] < span[:begin] && s[:end] >= span[:end])}
 		spans.each{|s| return true if s[:begin] <= span[:begin] && s[:end] >= span[:end]}
@@ -210,6 +228,7 @@ class TAO::RDFizer
 		end
 	end
 
+	# variable: denotations, relations
 	ERB_ANNOTATIONS_TTL = <<~HEREDOC
 		<% denotations.each do |d| -%>
 		<%= d[:obj_uri] %> tao:denoted_by <%= d[:span_uri] %> ;
@@ -221,6 +240,7 @@ class TAO::RDFizer
 		<% end -%>
 	HEREDOC
 
+	# variable: spans
 	ERB_SPANS_TTL = <<~HEREDOC
 		<% spans.each do |s| -%>
 		<%= s[:span_uri] %> rdf:type tao:Text_span ;
@@ -237,6 +257,7 @@ class TAO::RDFizer
 		<% end -%>
 	HEREDOC
 
+	# variable: namespaces
 	ERB_PREFIXES_TTL = <<~HEREDOC
 		@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
 		@prefix tao: <http://pubannotation.org/ontology/tao.owl#> .

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: tao_rdfizer
 version: !ruby/object:Gem::Version
-  version: 0.10.2
+  version: 0.11.0
 platform: ruby
 authors:
 - Jin-Dong Kim
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2021-05-15 00:00:00.000000000 Z
+date: 2021-05-20 00:00:00.000000000 Z
 dependencies: []
 description: It uses TAO (text annotation ontology) for representation of annotations
   to text.