dimus-biodiversity 0.0.18 → 0.5.1

data/spec/parser/scientific_name_dirty.spec.rb

@@ -1,8 +1,9 @@
+# encoding: UTF-8
 dir = File.dirname("__FILE__")
 require 'rubygems'
 require 'spec'
-require 'treetop'
 require 'yaml'
+require 'treetop'
 
 Treetop.load(File.expand_path(dir + '../../lib/biodiversity/parser/scientific_name_clean'))
 Treetop.load(File.expand_path(dir + '../../lib/biodiversity/parser/scientific_name_dirty'))
@@ -32,61 +33,48 @@ describe ScientificNameDirty do
     parse(input).pos
   end
   
+  def debug(input)
+    res = parse(input)
+    puts "<pre>"
+      if res
+        puts 'success!'
+        puts res.inspect
+      else
+        puts input
+        val = @parser.failure_reason.to_s.match(/column [0-9]*/).to_s.gsub(/column /,'').to_i
+        print ("-" * (val - 1))
+        print "^   Computer says 'no'!\n"
+        puts @parser.failure_reason
+        puts @parser.to_yaml
+      end
+    puts "</pre>"
+  end
+  
   it 'should parse clean names' do
-    parse("Betula verucose (L.) Bar. 1899").should_not be_nil
+    parse("Betula verucosa (L.) Bar. 1899").should_not be_nil
   end
   
-  it 'should parse year with []' do
-    parse("Anthoscopus Cabanis [1851]").should_not be_nil
-    value("Anthoscopus Cabanis [185?]").should == "Anthoscopus Cabanis (185?)"
-    parse("Anthoscopus Cabanis [1851?]").should_not be_nil
-    value("Anthoscopus Cabanis [1851]").should == "Anthoscopus Cabanis (1851)"
-    sn = "Anthoscopus Cabanis [1851?]"
-    value(sn).should == "Anthoscopus Cabanis (1851?)"
-    details(sn).should == {:uninomial=>"Anthoscopus", :authors=>{:names=>["Cabanis"], :approximate_year=>"(1851?)"}, :name_part_verbatim=>"Anthoscopus", :auth_part_verbatim=>"Cabanis [1851?]"}
-    pos(sn).should == {0=>["uninomial", 11], 12=>["author_word", 19], 21=>["year", 26]}
-    sn = "Trismegistia monodii Ando, 1973 [1974]"
-    parse(sn).should_not be_nil
-    value(sn).should == 'Trismegistia monodii Ando 1973 [1974]' #should it be 'Trismegistia monodii Ando 1973 (1974)' instead?
-    details(sn).should == {:genus=>"Trismegistia", :species=>"monodii", :authors=>{:names=>["Ando"], :ambiguous_year=>"1973 [1974]"}, :name_part_verbatim=>"Trismegistia monodii", :auth_part_verbatim=>"Ando, 1973 [1974]"}
-    pos(sn).should ==  {0=>["genus", 12], 13=>["species", 20], 21=>["author_word", 25], 27=>["year", 31], 33=>["year", 37]} 
-    parse("Zygaena witti Wiegel [1973]").should_not be_nil
-    sn = "Deyeuxia coarctata Kunth, 1815 [1816]"
+  it 'should parse double parenthesis' do
+    sn = "Eichornia crassipes ( (Martius) ) Solms-Laub."
     parse(sn).should_not be_nil
-    pos(sn).should == {0=>["genus", 8], 9=>["species", 18], 19=>["author_word", 24], 26=>["year", 30], 32=>["year", 36]}
+    value(sn).should == "Eichornia crassipes (Martius) Solms-Laub."
+    details(sn).should == {:genus=>{:epitheton=>"Eichornia"}, :species=>{:epitheton=>"crassipes", :authorship=>"( (Martius) ) Solms-Laub.", :combinationAuthorTeam=>{:authorTeam=>"Solms-Laub.", :author=>["Solms-Laub."]}, :basionymAuthorTeam=>{:authorTeam=>"Martius", :author=>["Martius"]}}}
+    pos(sn).should == {0=>["genus", 9], 10=>["species", 19], 23=>["author_word", 30], 34=>["author_word", 45]} 
   end
-
-  it 'should parse year with page number' do
-    sn = "Gymnodactylus irregularis WERMUTH 1965: 54"
+  
+  it "should parse year without author" do
+    sn = "Acarospora cratericola 1929"
     parse(sn).should_not be_nil
-    value(sn).should == "Gymnodactylus irregularis WERMUTH 1965"
-    details(sn).should == {:genus=>"Gymnodactylus", :species=>"irregularis", :authors=>{:names=>["WERMUTH"], :year=>"1965"}, :name_part_verbatim=>"Gymnodactylus irregularis", :auth_part_verbatim=>"WERMUTH 1965: 54"}   
-    pos(sn).should ==  {0=>["genus", 13], 14=>["species", 25], 26=>["author_word", 33], 34=>["year", 38]} 
+    pos(sn).should == {0=>["genus", 10], 11=>["species", 22], 23=>["year", 27]}
+    details(sn).should == {:genus=>{:epitheton=>"Acarospora"}, :species=>{:epitheton=>"cratericola", :year=>"1929"}}
   end
   
-  it 'should parse double parenthesis' do
-    sn = "Meiostemon humbertii ( (H. Perrier) ) Exell & Stace"
+  it 'should parse double years' do
+    sn = "Tridentella tangeroae Bruce, 1987-92"
     parse(sn).should_not be_nil
-    value(sn).should == "Meiostemon humbertii (H. Perrier) Exell et Stace"
-    details(sn).should == {:genus=>"Meiostemon", :species=>"humbertii", :orig_authors=>{:names=>["H. Perrier"]}, :authors=>{:names=>["Exell", "Stace"]}, :name_part_verbatim=>"Meiostemon humbertii", :auth_part_verbatim=>"( (H. Perrier) ) Exell & Stace"}
-    pos(sn).should == {0=>["genus", 10], 11=>["species", 20], 24=>["author_word", 26], 27=>["author_word", 34], 38=>["author_word", 43], 46=>["author_word", 51]}
-  end  
-  
-  # Acomys "Geoffroy, I." 1838
-  # Verpericola megasoma "Dall" Pils.
-  # Auricotes neoclayae "Price, Hellenthal and Palma 2003"
-  # Leccinum cinnamomeum var. cinnamomeum "A.H. Sm.
-  
-  # it 'should parse quote' do
-  #   val = 'Acomys "Geoffroy, I." 1838'
-  # end
-
-  # it 'should parse author with []' do
-  #  # OK parse("Farsetia mutabilis [ R.Br. ]").should_not be_nil
-  #  parse("Farsetia mutabilis [R.Br.]").should_not be_nil
-  #  # value("Farsetia mutabilis [R.Br.]").should == "Farsetia mutabilis [R.Br.]"
-  #  # details("Farsetia mutabilis [R.Br.]").should == {}
-  # end
+    pos(sn).should == {0=>["genus", 11], 12=>["species", 21], 22=>["author_word", 27], 29=>["year", 36]}
+    details(sn).should == {:genus=>{:epitheton=>"Tridentella"}, :species=>{:epitheton=>"tangeroae", :authorship=>"Bruce, 1987-92", :basionymAuthorTeam=>{:authorTeam=>"Bruce", :author=>["Bruce"], :year=>"1987-92"}}}
+  end
   
   it 'should parse dirty years' do
     parse("Tridentella tangeroae Bruce, 1988B").should_not be_nil
@@ -96,11 +84,33 @@ describe ScientificNameDirty do
     parse(sn).should_not be_nil
     pos(sn).should == {0=>["genus", 11], 12=>["species", 21], 22=>["author_word", 27], 29=>["year", 33]}
   end
-
-  it 'should parse double years' do
-    sn = "Tridentella tangeroae Bruce, 1987-92"
+  
+  it 'should parse year with page number' do
+    sn = "Gymnodactylus irregularis WERMUTH 1965: 54"
     parse(sn).should_not be_nil
-    pos(sn).should == {0=>["genus", 11], 12=>["species", 21], 22=>["author_word", 27], 29=>["year", 36]}
+    value(sn).should == "Gymnodactylus irregularis WERMUTH 1965"
+    details(sn).should == {:genus=>{:epitheton=>"Gymnodactylus"}, :species=>{:epitheton=>"irregularis", :authorship=>"WERMUTH 1965: 54", :basionymAuthorTeam=>{:authorTeam=>"WERMUTH", :author=>["WERMUTH"], :year=>"1965"}}}
+    pos(sn).should ==  {0=>["genus", 13], 14=>["species", 25], 26=>["author_word", 33], 34=>["year", 38]} 
   end
-
+  
+  it 'should parse year with []' do
+    parse("Anthoscopus Cabanis [1851]").should_not be_nil
+    value("Anthoscopus Cabanis [185?]").should == "Anthoscopus Cabanis (185?)"
+    parse("Anthoscopus Cabanis [1851?]").should_not be_nil
+    value("Anthoscopus Cabanis [1851]").should == "Anthoscopus Cabanis (1851)"
+    sn = "Anthoscopus Cabanis [1851?]"
+    value(sn).should == "Anthoscopus Cabanis (1851?)"
+    details(sn).should == {:uninomial=>{:epitheton=>"Anthoscopus", :authorship=>"Cabanis [1851?]", :basionymAuthorTeam=>{:authorTeam=>"Cabanis", :author=>["Cabanis"], :approximate_year=>"(1851?)"}}}
+    pos(sn).should == {0=>["uninomial", 11], 12=>["author_word", 19], 21=>["year", 26]}
+    sn = "Trismegistia monodii Ando, 1973 [1974]"
+    parse(sn).should_not be_nil
+    value(sn).should == 'Trismegistia monodii Ando 1973 (1974)' #should it be 'Trismegistia monodii Ando 1973 (1974)' instead?
+    details(sn).should == {:genus=>{:epitheton=>"Trismegistia"}, :species=>{:epitheton=>"monodii", :authorship=>"Ando, 1973 [1974]", :basionymAuthorTeam=>{:authorTeam=>"Ando", :author=>["Ando"], :year=>"1973", :approximate_year=>"(1974)"}}}
+    pos(sn).should ==  {0=>["genus", 12], 13=>["species", 20], 21=>["author_word", 25], 27=>["year", 31], 33=>["year", 37]} 
+    parse("Zygaena witti Wiegel [1973]").should_not be_nil
+    sn = "Deyeuxia coarctata Kunth, 1815 [1816]"
+    parse(sn).should_not be_nil
+    pos(sn).should == {0=>["genus", 8], 9=>["species", 18], 19=>["author_word", 24], 26=>["year", 30], 32=>["year", 36]}
+  end
+  
 end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification 
 name: dimus-biodiversity
 version: !ruby/object:Gem::Version 
-  version: 0.0.18
+  version: 0.5.1
 platform: ruby
 authors: 
 - Dmitry Mozzherin
@@ -9,7 +9,7 @@ autorequire:
 bindir: bin
 cert_chain: []
 
-date: 2009-06-12 00:00:00 -07:00
+date: 2009-04-11 00:00:00 -07:00
 default_executable: 
 dependencies: 
 - !ruby/object:Gem::Dependency