Sha256: 02133e784c713bbbb584f8f5bca46d796927f75d6bbf3825faf83df890035020
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Size: 1.17 KB
Versions: 24
Compression:
Stored size: 1.17 KB
Contents
require File.expand_path(File.dirname(__FILE__) + '/../../test_helper')
require 'rbbt/sources/entrez'
require 'test/unit'
class TestEntrez < Test::Unit::TestCase
$yeast_tax = 559292
def test_entrez2native
tax = $yeast_tax
fix = proc{|line| line.sub(/SGD:S0/,'S0') }
select = proc{|line| line.match(/SGD:S0/)}
lexicon = Entrez.entrez2native(tax, :fix => fix, :select => select)
assert(lexicon['855611'].include? 'S000005056')
end
def test_entrez2pubmed
tax = $yeast_tax
Log.severity = 0
data = Entrez.entrez2pubmed(tax)
data.read
Log.tsv data
assert(data['850320'].include? '1574125')
end
def test_getgene
geneids = 9129
assert_equal([["pre-mRNA processing factor 3"]], Entrez.get_gene(geneids).description)
geneids = [9129, 728049]
assert_equal([["pre-mRNA processing factor 3"]], Entrez.get_gene(geneids)[9129].description)
end
def test_similarity
assert(Entrez.gene_text_similarity(9129, "PRP3 pre-mRNA processing factor 3 homolog (S. cerevisiae)") > 0)
assert_equal(0, Entrez.gene_text_similarity("NON EXISTENT GENEID", "PRP3 pre-mRNA processing factor 3 homolog (S. cerevisiae)"))
end
end
Version data entries
24 entries across 24 versions & 1 rubygems