simple_bioc 0.0.15 → 0.0.16

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: 673195f463d46bbf691b695b22a4c8d70c89ef5d
-  data.tar.gz: 4e6f8f9b391ac41f01b26f7066953487f379d446
+  metadata.gz: feecd4ce8d52cafa27b5bc62c3da638352198bf4
+  data.tar.gz: 647f59cbc0be3c0aebccf06a07c1dfd6778c92b7
 SHA512:
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+  metadata.gz: bc7182bb97f4bc65e8c235e7b59106ae584275a6a1836be8a6740c370260daa4be2b450dac2c7419d6533e95aef5247a5017a4c8a3f217753f76631ff184e3fd
+  data.tar.gz: ac121fdc97a23a85456681fdf6e532d6eae6cf6fe17788822d4a3f7ce1e97b1b9febcfdcc2499152ab9da0cddd190e3f895aefa51661f656b0718499d0238663

data/lib/simple_bioc/bioc_reader.rb

@@ -111,6 +111,7 @@ module BioCReader
   def read_location(xml, location, options = {}) 
     location.offset = xml["offset"]
     location.length = xml["length"]
+    location.original_offset = xml["original_offset"]
     true
   end
 

data/lib/simple_bioc/bioc_writer.rb

@@ -88,7 +88,11 @@ module BioCWriter
   end
 
   def write_location(xml, location) 
-    xml.location(:offset => location.offset, :length => location.length)
+    if location.original_offset.nil? || location.original_offset == location.offset
+      xml.location(:offset => location.offset, :length => location.length)
+    else
+      xml.location(:offset => location.offset, :length => location.length, :original_offset => location.original_offset)
+    end
   end
 
   def write_node(xml, node)

data/lib/simple_bioc/location_adjuster.rb

@@ -6,7 +6,7 @@ module SimpleBioC
       obj.annotations.each do |a|
         positions = find_all_locations(obj, a.text)
         a.locations.each do |l|
-          l.original_offset = l.offset.to_i
+          l.original_offset = l.offset.to_i if l.original_offset.nil?
           l.offset = choose_offset_candidate(l.offset, positions)
         end
       end

data/lib/simple_bioc/version.rb

@@ -1,3 +1,3 @@
 module SimpleBioC
-  VERSION = "0.0.15"
+  VERSION = "0.0.16"
 end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: simple_bioc
 version: !ruby/object:Gem::Version
-  version: 0.0.15
+  version: 0.0.16
 platform: ruby
 authors:
 - Dongseop Kwon