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]); } }