public void XsvContigFormatter()
{
// Gets the expected sequence from the Xml
string filePathObj = Directory.GetCurrentDirectory() + XsvFilename;
string XsvTempFileName = Path.GetTempFileName();
Assert.IsTrue(File.Exists(filePathObj));
XsvContigParser parserObj = new XsvContigParser(filePathObj, Alphabets.DNA, ',', '#');
Contig contig, expectedContig;
contig = parserObj.ParseContig();
string seqId = string.Empty;
foreach (Contig.AssembledSequence seq in contig.Sequences)
{
seqId += seq.Sequence.ID + ",";
}
// Format Xsv file.
XsvContigFormatter formatObj = new XsvContigFormatter(XsvTempFileName, ',', '#');
formatObj.Write(contig);
formatObj.Close();
formatObj.Dispose();
XsvContigParser parserObj1 = new XsvContigParser(XsvTempFileName, Alphabets.DNA, ',', '#');
expectedContig = parserObj1.ParseContig();
string expectedseqId = string.Empty;
foreach (Contig.AssembledSequence seq in expectedContig.Sequences)
{
expectedseqId += seq.Sequence.ID + ",";
}
// Validate parsed temp file with original Xsv file.
Assert.AreEqual(contig.Length, expectedContig.Length);
Assert.AreEqual(contig.Consensus.Count, expectedContig.Consensus.Count);
Assert.AreEqual(contig.Consensus.ID, expectedContig.Consensus.ID);
Assert.AreEqual(contig.Sequences.Count, expectedContig.Sequences.Count);
Assert.AreEqual(seqId.Length, expectedseqId.Length);
Assert.AreEqual(seqId, expectedseqId);
}
