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Versions: 16
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Stored size: 1.31 KB
Contents
require File.join(File.expand_path(File.dirname(__FILE__)), '../../test_helper.rb')
require 'rbbt/entity'
require 'rbbt/ner/finder'
require 'rbbt/ner/finder'
require 'rbbt/sources/organism'
require 'rbbt/sources/kegg'
require 'rbbt/sources/NCI'
class TestFinder < Test::Unit::TestCase
def _test_namespace_and_format
f = Finder.new(CMD.cmd("head -n 1000", :in => Open.open(Organism.identifiers(Organism.default_code("Hsa")).produce.find)))
assert_equal Organism.default_code("Hsa"), f.instances.first.namespace
assert_equal "Ensembl Gene ID", f.instances.first.format
end
def _test_find
f = Finder.new(Organism.lexicon(Organism.default_code("Hsa")), :grep => ["SF3B1"])
assert_equal "ENSG00000115524", f.find("SF3B1").first
if defined? Entity
assert_equal "Ensembl Gene ID", f.find("SF3B1").first.format
end
end
def _test_find2
f = Finder.new(Organism.lexicon(Organism.default_code("Hsa")), :grep => ["RASGRF2"])
m = f.find("RAS").first
assert f.find("RAS").include? "ENSG00000113319"
end
def test_find_mutation
f = Finder.new(Organism.lexicon(Organism.default_code("Hsa")), :grep => ["RASGRF2"])
f.add_instance({"Genomic Mutation" => /\w+:\w+:\w+/})
m = f.find("The mutation 1:1234:A is intergenic").first
assert_equal "1:1234:A", m.info[:code]
end
end
Version data entries
16 entries across 16 versions & 1 rubygems