mesh-medical-subject-headings 2.0.2 → 2.0.3

checksums.yaml

@@ -1,7 +1,7 @@
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data/CHANGELOG.md

@@ -1,3 +1,6 @@
+#2.0.3 / 2014-06-25
+* [FEATURE] You can now link cross-references in heading.summary by passing a block to heading.linkify_summary
+
 #2.0.2 / 2014-06-23
 * [BUGFIX] Removed duplicates in children and parents
 * [BUGFIX] Added require for zlib

data/Gemfile.lock

@@ -1,7 +1,7 @@
 PATH
   remote: .
   specs:
-    mesh-medical-subject-headings (2.0.2)
+    mesh-medical-subject-headings (2.0.3)
 
 GEM
   remote: https://rubygems.org/

data/lib/MESH/heading.rb

@@ -20,6 +20,16 @@ module MESH
       return @summary[locale]
     end
 
+    def linkify_summary
+      linkified_summary = summary.dup
+      linkified_summary.scan(/[A-Z]+[A-Z,\s]+[A-Z]+/).each do |text|
+        heading = @tree.where(entries: /^#{text.strip}$/i).first
+        replacement_text = yield text, heading
+        linkified_summary.sub!(text, replacement_text)
+      end
+      linkified_summary
+    end
+
     def entries(locale = default_locale)
       @entries[locale] ||= []
       return @entries[locale]
@@ -73,10 +83,14 @@ module MESH
       return true
     end
 
-    def inspect
+    def to_s
       return "#{unique_id}, #{original_heading}, [#{tree_numbers.join(',')}]"
     end
 
+    def inspect
+      to_s
+    end
+
     def set_original_heading(heading, locale = default_locale)
       @original_heading[locale] = heading
     end
@@ -91,7 +105,8 @@ module MESH
 
     private
 
-    def initialize
+    def initialize(tree)
+      @tree = tree
       @useful = true
       @tree_numbers = []
       @roots = []

data/lib/MESH/tree.rb

@@ -17,7 +17,7 @@ module MESH
       gzipped_file = File.open(filename)
       file = Zlib::GzipReader.new(gzipped_file)
 
-      current_heading = MESH::Heading.new
+      current_heading = MESH::Heading.new(self)
       current_heading.default_locale = @@default_locale
       file.each_line do |line|
 
@@ -33,7 +33,7 @@ module MESH
                 @by_tree_number[tree_number] = current_heading
               end
             end
-            current_heading = MESH::Heading.new
+            current_heading = MESH::Heading.new(self)
             current_heading.default_locale = @@default_locale
 
           when matches = line.match(/^UI = (.*)/)

data/lib/MESH/version.rb

@@ -1,3 +1,3 @@
 module Mesh
-  VERSION = "2.0.2"
+  VERSION = "2.0.3"
 end

data/test/mesh_core_test.rb

@@ -109,6 +109,39 @@ module MESH
       assert_equal 'A condition with damage to the lining of the lower OESOPHAGUS resulting from chronic acid reflux (OESOPHAGITIS, REFLUX). Through the process of metaplasia, the squamous cells are replaced by a columnar epithelium with cells resembling those of the INTESTINE or the salmon-pink mucosa of the STOMACH. Barrett\'s columnar epithelium is a marker for severe reflux and precursor to ADENOCARCINOMA of the oesophagus.', mh.summary(:en_gb)
     end
 
+    def test_linkify_summary
+      mh = @mesh_tree.find('D001471')
+      assert_equal 'A condition with damage to the lining of the lower ESOPHAGUS resulting from chronic acid reflux (ESOPHAGITIS, REFLUX). Through the process of metaplasia, the squamous cells are replaced by a columnar epithelium with cells resembling those of the INTESTINE or the salmon-pink mucosa of the STOMACH. Barrett\'s columnar epithelium is a marker for severe reflux and precursor to ADENOCARCINOMA of the esophagus.', mh.summary
+
+      found = {
+        'ESOPHAGUS' => false,
+        'ESOPHAGITIS, REFLUX' => false,
+        'INTESTINE' => false,
+        'STOMACH' => false,
+        'ADENOCARCINOMA' => false
+      }
+
+      linkified_summary = mh.linkify_summary do |text, heading|
+        found[text] = true unless heading.nil?
+        "<foo>#{text.downcase}</foo>"
+      end
+
+      assert_equal 5, found.length
+      assert found['ESOPHAGUS']
+      assert found['ESOPHAGITIS, REFLUX']
+      assert found['INTESTINE']
+      assert found['STOMACH']
+      assert found['ADENOCARCINOMA']
+
+      assert_equal 'A condition with damage to the lining of the lower <foo>esophagus</foo> resulting from chronic acid reflux (<foo>esophagitis, reflux</foo>). Through the process of metaplasia, the squamous cells are replaced by a columnar epithelium with cells resembling those of the <foo>intestine</foo> or the salmon-pink mucosa of the <foo>stomach</foo>. Barrett\'s columnar epithelium is a marker for severe reflux and precursor to <foo>adenocarcinoma</foo> of the esophagus.', linkified_summary
+
+    end
+
+    def test_to_s
+      mh = @mesh_tree.find('D001471')
+      assert_equal 'D001471, Barrett Esophagus, [C06.198.102,C06.405.117.102]', mh.to_s
+    end
+
     def test_have_the_correct_entries
       expected_entries = ['Activity Cycles', 'Ultradian Cycles', 'Activity Cycle', 'Cycle, Activity', 'Cycle, Ultradian', 'Cycles, Activity', 'Cycles, Ultradian', 'Ultradian Cycle']
       expected_entries.sort!

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: mesh-medical-subject-headings
 version: !ruby/object:Gem::Version
-  version: 2.0.2
+  version: 2.0.3
 platform: ruby
 authors:
 - Rob Styles
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2014-06-23 00:00:00.000000000 Z
+date: 2014-06-25 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bundler