ncbo_annotator 1.0.7 → 1.0.8

data/lib/ncbo_annotator.rb

@@ -30,6 +30,9 @@ module NCBO
       @options.merge!(args)
       
       @ontologies = nil
+      
+      # Check to make sure mappingTypes are capitalized
+      fix_params
     
       raise ArgumentError, ":apikey is required, you can obtain one at http://bioportal.bioontology.org/accounts/new" if @options[:apikey].nil?
     end
@@ -42,6 +45,7 @@ module NCBO
     def annotate(text = nil, options = {})
       @options[:textToAnnotate] = text unless text.nil?
       @options.merge!(options) unless options.empty?
+      fix_params
       
       raise ArgumentError, ":textToAnnotate must be included" if @options[:textToAnnotate].nil?
       
@@ -81,6 +85,16 @@ module NCBO
 
     private
 
+    def fix_params
+      @options[:mappingTypes] = @options[:mappingTypes].split(",") unless @options[:mappingTypes].kind_of?(Array)
+      @options[:ontologiesToExpand] = @options[:ontologiesToExpand].split(",") unless @options[:ontologiesToExpand].kind_of?(Array)
+      @options[:ontologiesToKeepInResult] = @options[:ontologiesToKeepInResult].split(",") unless @options[:ontologiesToKeepInResult].kind_of?(Array)
+      @options[:semanticTypes] = @options[:semanticTypes].split(",") unless @options[:semanticTypes].kind_of?(Array)
+      @options[:stopWords] = @options[:stopWords].split(",") unless @options[:stopWords].kind_of?(Array)
+
+      @options[:mappingTypes].collect! {|e| e.capitalize}
+    end
+
     def annotate_post
       url = @options[:annotator_location] + "/annotator"
       options = @options.clone

metadata

@@ -1,13 +1,13 @@
 --- !ruby/object:Gem::Specification 
 name: ncbo_annotator
 version: !ruby/object:Gem::Version 
-  hash: 25
+  hash: 7
   prerelease: 
   segments: 
   - 1
   - 0
-  - 7
-  version: 1.0.7
+  - 8
+  version: 1.0.8
 platform: ruby
 authors: 
 - Paul R Alexander
@@ -15,7 +15,7 @@ autorequire:
 bindir: bin
 cert_chain: []
 
-date: 2011-11-28 00:00:00 -08:00
+date: 2011-12-01 00:00:00 -08:00
 default_executable: 
 dependencies: 
 - !ruby/object:Gem::Dependency