Class: Ciika::SRA::Sample
- Inherits:
-
Object
- Object
- Ciika::SRA::Sample
- Defined in:
- lib/ciika/sra/sample.rb
Instance Method Summary collapse
-
#initialize(xml, id: :all) ⇒ Sample
constructor
A new instance of Sample.
- #parse ⇒ Object
Constructor Details
#initialize(xml, id: :all) ⇒ Sample
Returns a new instance of Sample.
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# File 'lib/ciika/sra/sample.rb', line 6 def initialize(xml, id: :all) @sampleset = Ciika::SRA::id_selector("SAMPLE", xml, id) raise NameError, "ID not found" if @sampleset == [] end |
Instance Method Details
#parse ⇒ Object
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# File 'lib/ciika/sra/sample.rb', line 11 def parse @sampleset.map do |sample| { accession: sample.attr("accession").to_s, alias: sample.attr("alias").to_s, title: sample.css("TITLE").inner_text, sample_description: sample.css("DESCRIPTION").inner_text, organism_information: { taxon_id: sample.css("TAXON_ID").inner_text, common_name: sample.css("COMMON_NAME").inner_text, scientific_name: sample.css("SCIENTIFIC_NAME").inner_text, anonymized_name: sample.css("ANONYMIZED_NAME").inner_text, individual_name: sample.css("INDIVIDUAL_NAME").inner_text, }, sample_links: { url_link: sample.css("URL_LINK").map{|node| { label: node.css("LABEL").inner_text, url: node.css("URL").inner_text, } }, entrez_link: sample.css("ENTREZ_LINK").map{|node| { db: node.css("DB").inner_text, id: node.css("ID").inner_text, } }, }, } end end |