public void TestRead()
{
var reader = new UniprotXmlFormatRandomReader();
reader.Open(@"../../../data/P04114.xml");
var entry = reader.Read("APOB_HUMAN");
Assert.IsNotNull(entry);
Assert.AreEqual(56, entry.SequenceVariants.Count);
Assert.AreEqual("In dbSNP:rs1367117.", entry.SequenceVariants[0].Description);
Assert.AreEqual("VAR_016184", entry.SequenceVariants[0].ID);
Assert.AreEqual("3 13 14 15", entry.SequenceVariants[0].Evidence);
Assert.AreEqual("T", entry.SequenceVariants[0].Original);
Assert.AreEqual("I", entry.SequenceVariants[0].Variation);
Assert.AreEqual(98, entry.SequenceVariants[0].Position);
Assert.AreEqual(48, entry.SequenceConflicts.Count);
Assert.AreEqual("In Ref. 5; AAB60718/CAA28420.", entry.SequenceConflicts[0].Description);
Assert.AreEqual("5", entry.SequenceConflicts[0].Evidence);
Assert.AreEqual(" ", entry.SequenceConflicts[0].Original);
Assert.AreEqual(" ", entry.SequenceConflicts[0].Variation);
Assert.AreEqual(11, entry.SequenceConflicts[0].BeginPosition);
Assert.AreEqual(13, entry.SequenceConflicts[0].EndPosition);
Assert.AreEqual("L", entry.SequenceConflicts[1].Original);
Assert.AreEqual("V", entry.SequenceConflicts[1].Variation);
Assert.AreEqual(329, entry.SequenceConflicts[1].BeginPosition);
Assert.AreEqual(329, entry.SequenceConflicts[1].EndPosition);
}
public UniprotEntry GetUniprotEntry(string proteinName)
{
var m = upNameRegex.Match(proteinName);
if (!m.Success)
{
return(null);
}
var name = m.Groups[1].Value;
if (!map.ContainsKey(name))
{
if (reader == null)
{
reader = new UniprotXmlFormatRandomReader();
reader.Open(_uniprotXmlFile);
}
if (reader.Has(name))
{
var result = reader.Read(name);
map[name] = result;
return(result);
}
else
{
return(null);
}
}
else
{
return(map[name]);
}
}
