rbbt-text 1.1.4 → 1.1.5

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: 571b05a78ab3a1bb51d37604cab69773555fd331
-  data.tar.gz: 61983fbd5d98c8412bb2fd36d0639eb7086f9287
+  metadata.gz: 357d34614c78eef41ce0bf2a143feafa73960e71
+  data.tar.gz: 4a08f43322486115cbf54d40dabe5d5559652465
 SHA512:
-  metadata.gz: 25f718d2733cbd5bb2bb521bdc4d50e7386ac39a573c2424897bad98b1f8674beeec56c7162bec91c5afb555163eea995bbd740f9d855d13fc084d6248eff4cd
-  data.tar.gz: 184f47a53ffcb220ba68faf03343f869eb65b0f12022561355c9cf417245781ebfc46efa81a49c1a9d9d746b9e42434bbe4e9dc49cc6d70eb216ecc6f0517b48
+  metadata.gz: 29c0950181322582432792dfc56a58480c35486c66ccf76e8096fd7c89ef10a2eadcfe236c91f4bbb6502944acde47338fa39c5337b9e80bc2ec22a3150747a9
+  data.tar.gz: 767440205f67636ca59d1897acff712e05d1b59063cf77bdfbb8a7b5893444794d89b39bf6a72724305061fc38e31ea7ec00d5d223991edc8bf67d4ad803c94b

data/lib/rbbt/ner/rnorm.rb

@@ -100,10 +100,22 @@ class Normalizer
 
 
   def initialize(lexicon, options = {})
-    @synonyms = TSV === lexicon ? lexicon : TSV.open(lexicon, :type => :flat, :unnamed => true)
+    @synonyms = case lexicon
+                when TSV
+                  lexicon.unnamed = true
+                  lexicon
+                when Array
+                  tsv = TSV.setup(lexicon, :fields => [], :type => :flat, :unnamed => true, :defaul_value => [])
+                  tsv.add_field "Term" do |k,v|
+                    k
+                  end
+                  tsv
+                else
+                  TSV.open(lexicon, :type => :flat, :unnamed => true)
+                end
 
     @index = CueIndex.new
-    @index.load(lexicon, options[:max_candidates])
+    @index.load(@synonyms, options[:max_candidates])
 
     @to_entrez = options[:to_entrez]
     @tokens = Tokenizer.new(options[:file])
@@ -157,6 +169,7 @@ class Normalizer
   end
 
   def resolve(mention, text = nil, options = {})
+    text, options = nil, text if options.empty? and Hash === text
     candidates = match(mention)
     select(candidates, mention, text, options)
   end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: rbbt-text
 version: !ruby/object:Gem::Version
-  version: 1.1.4
+  version: 1.1.5
 platform: ruby
 authors:
 - Miguel Vazquez
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2015-07-21 00:00:00.000000000 Z
+date: 2017-08-10 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: rbbt-util
@@ -178,31 +178,31 @@ required_rubygems_version: !ruby/object:Gem::Requirement
       version: '0'
 requirements: []
 rubyforge_project: 
-rubygems_version: 2.4.6
+rubygems_version: 2.6.6
 signing_key: 
 specification_version: 4
 summary: Text mining tools for the Ruby Bioinformatics Toolkit (rbbt)
 test_files:
-- test/rbbt/nlp/open_nlp/test_sentence_splitter.rb
-- test/rbbt/nlp/test_nlp.rb
+- test/test_helper.rb
+- test/rbbt/ner/test_abner.rb
+- test/rbbt/ner/test_rnorm.rb
+- test/rbbt/ner/test_patterns.rb
 - test/rbbt/ner/test_regexpNER.rb
-- test/rbbt/ner/test_banner.rb
-- test/rbbt/ner/segment/test_transformed.rb
+- test/rbbt/ner/test_chemical_tagger.rb
 - test/rbbt/ner/segment/test_segmented.rb
 - test/rbbt/ner/segment/test_named_entity.rb
-- test/rbbt/ner/test_abner.rb
+- test/rbbt/ner/segment/test_transformed.rb
+- test/rbbt/ner/test_linnaeus.rb
+- test/rbbt/ner/test_segment.rb
 - test/rbbt/ner/test_oscar4.rb
 - test/rbbt/ner/test_finder.rb
-- test/rbbt/ner/test_patterns.rb
-- test/rbbt/ner/test_rnorm.rb
-- test/rbbt/ner/test_segment.rb
-- test/rbbt/ner/test_ngram_prefix_dictionary.rb
 - test/rbbt/ner/test_token_trieNER.rb
+- test/rbbt/ner/test_banner.rb
 - test/rbbt/ner/test_NER.rb
-- test/rbbt/ner/test_linnaeus.rb
-- test/rbbt/ner/test_chemical_tagger.rb
+- test/rbbt/ner/test_ngram_prefix_dictionary.rb
 - test/rbbt/entity/test_document.rb
-- test/rbbt/bow/test_bow.rb
 - test/rbbt/bow/test_dictionary.rb
+- test/rbbt/bow/test_bow.rb
 - test/rbbt/bow/test_misc.rb
-- test/test_helper.rb
+- test/rbbt/nlp/test_nlp.rb
+- test/rbbt/nlp/open_nlp/test_sentence_splitter.rb