Class: SimpleBioC::Document

Inherits:
Object
  • Object
show all
Defined in:
lib/simple_bioc/document.rb

Instance Attribute Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize(parent) ⇒ Document

Returns a new instance of Document.



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# File 'lib/simple_bioc/document.rb', line 9

def initialize(parent)
  @infons = {}
  @passages = []
  @relations = []
  @collection = parent
end

Instance Attribute Details

#collection ⇒ Object (readonly)

parent



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# File 'lib/simple_bioc/document.rb', line 7

def collection
  @collection
end

#id ⇒ Object

attribute



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# File 'lib/simple_bioc/document.rb', line 4

def id
  @id
end

#infons ⇒ Object

attribute



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# File 'lib/simple_bioc/document.rb', line 4

def infons
  @infons
end

#passages ⇒ Object

attribute



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# File 'lib/simple_bioc/document.rb', line 4

def passages
  @passages
end

#relations ⇒ Object

attribute



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# File 'lib/simple_bioc/document.rb', line 4

def relations
  @relations
end

Instance Method Details

#adjust_ref ⇒ Object 



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# File 'lib/simple_bioc/document.rb', line 25

def adjust_ref
  each_relation{|r| r.adjust_ref}
end

#all_annotations ⇒ Object 



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# File 'lib/simple_bioc/document.rb', line 42

def all_annotations
  ret = []
  @passages.each{|p| p.all_annotations(ret)}
  ret
end

#all_relations ⇒ Object 



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# File 'lib/simple_bioc/document.rb', line 48

def all_relations
  ret = []
  @relations.each{|r| ret << r}
  @passages.each{|p| p.all_relations(ret)}
  ret
end

#all_texts ⇒ Object 



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# File 'lib/simple_bioc/document.rb', line 38

def all_texts
  @passages.map{|p| p.all_texts}.join(" ")
end

#each_relation ⇒ Object 



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# File 'lib/simple_bioc/document.rb', line 29

def each_relation
  @relations.each{|r| yield r}
  @passages.each{|p| p.each_relation{|r| yield r}}
end

#find_node(id) ⇒ Object 



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# File 'lib/simple_bioc/document.rb', line 16

def find_node(id)
  @relations.each{|r| return r if r.id == id}
  @passages.each do |p|
    ret = p.find_node(id)
    return ret unless ret.nil?
  end
  nil
end

#to_s ⇒ Object 



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# File 'lib/simple_bioc/document.rb', line 34

def to_s
  "Document:#{@id}"
end