Class: SimpleNexml

Inherits:
Object
  • Object
show all
Defined in:
lib/fishtank/simple_nexml.rb

Overview

Parse NeXML document and return some data

Instance Attribute Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize(doc: nil, taxon: nil, entity: nil) ⇒ SimpleNexml

Returns a new instance of SimpleNexml.



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# File 'lib/fishtank/simple_nexml.rb', line 12

def initialize(doc: nil, taxon: nil, entity: nil)
  @doc = doc
end

Instance Attribute Details

#doc ⇒ Object

Returns the value of attribute doc.



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# File 'lib/fishtank/simple_nexml.rb', line 8

def doc
  @doc
end

#entity ⇒ Object

Returns the value of attribute entity.



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# File 'lib/fishtank/simple_nexml.rb', line 10

def entity
  @entity
end

#taxon ⇒ Object

Returns the value of attribute taxon.



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# File 'lib/fishtank/simple_nexml.rb', line 9

def taxon
  @taxon
end

Instance Method Details

#cells ⇒ Object 



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# File 'lib/fishtank/simple_nexml.rb', line 30

def cells
  doc.css("cell")
end

#otus ⇒ Object 



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# File 'lib/fishtank/simple_nexml.rb', line 26

def otus
  doc.css("otus")
end

#referenced_chars ⇒ Array

Returns all chars referenced in rows.

Returns:

  • (Array) —

    all chars referenced in rows



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# File 'lib/fishtank/simple_nexml.rb', line 40

def referenced_chars
  cells.inject({}) {|hsh, c| hsh.merge!(c.to_h['char'] => nil)}.keys
end

#referenced_otus ⇒ Array

Returns all chars referenced in rows.

Returns:

  • (Array) —

    all chars referenced in rows



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# File 'lib/fishtank/simple_nexml.rb', line 52

def referenced_otus
  rows.css("row").inject({}) {|hsh, c| hsh.merge!(c.to_h['otu'] => nil)}.keys
end

#referenced_states ⇒ Array

Returns all states referenced in rows.

Returns:

  • (Array) —

    all states referenced in rows



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# File 'lib/fishtank/simple_nexml.rb', line 46

def referenced_states
  cells.inject({}) {|hsh, c| hsh.merge!(c.to_h['state'] => nil)}.keys
end

#rows ⇒ Object 



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# File 'lib/fishtank/simple_nexml.rb', line 34

def rows
  doc.css("row")
end

#stats ⇒ Object 



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# File 'lib/fishtank/simple_nexml.rb', line 16

def stats
  return {
    count: {
      otus: otus.count,
      rows: rows.count,
      cells: cells.count
    }
  }
end