/// <summary>
/// Private constructor for clone method.
/// </summary>
/// <param name="other">Other InterveningDNA instance.</param>
private InterveningDna(InterveningDna other)
: base(other) { }
/// <summary>
/// Private constructor for clone method.
/// </summary>
/// <param name="other">Other InterveningDNA instance.</param>
private InterveningDna(InterveningDna other)
: base(other)
{
}
public void ValidateGenBankInterveningDNAFeatureQualifiers()
{
// Get Values from XML node.
string filePath = utilityObj.xmlUtil.GetTextValue(
Constants.GenBankInterveningDNA, Constants.FilePathNode);
string iDNALocation = utilityObj.xmlUtil.GetTextValue(
Constants.GenBankInterveningDNA, Constants.Location);
string featureCount = utilityObj.xmlUtil.GetTextValue(
Constants.GenBankInterveningDNA, Constants.QualifierCount);
// Parse a GenBank file.
ISequenceParser parserObj = new GenBankParser();
{
IEnumerable<ISequence> seqList = parserObj.Parse(filePath);
var locBuilder = new LocationBuilder();
var metadata =
(GenBankMetadata) seqList.ElementAt(0).Metadata[Constants.GenBank];
List<InterveningDna> iDNAList = metadata.Features.InterveningDNAs;
// Create a clone copy and validate.
InterveningDna iDNAClone = iDNAList[0].Clone();
Assert.AreEqual(iDNAList.Count.ToString((IFormatProvider) null), featureCount);
Assert.IsTrue(string.IsNullOrEmpty(iDNAClone.GeneSymbol.ToString(null)));
Assert.IsFalse(string.IsNullOrEmpty(iDNAClone.DatabaseCrossReference.ToString()));
Assert.IsTrue(string.IsNullOrEmpty(iDNAClone.Allele));
Assert.IsFalse(string.IsNullOrEmpty(iDNAList[0].Citation.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(iDNAList[0].Experiment.ToString()));
Assert.IsTrue(string.IsNullOrEmpty(iDNAList[0].GenomicMapPosition));
Assert.IsFalse(string.IsNullOrEmpty(iDNAList[0].GeneSynonym.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(iDNAList[0].Inference.ToString()));
Assert.IsTrue(string.IsNullOrEmpty(iDNAList[0].Label));
Assert.AreEqual(locBuilder.GetLocationString(
metadata.Features.InterveningDNAs[0].Location), iDNALocation);
Assert.IsFalse(string.IsNullOrEmpty(iDNAList[0].Note.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(iDNAList[0].OldLocusTag.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(iDNAList[0].LocusTag.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(iDNAList[0].OldLocusTag.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(iDNAList[0].Function.ToString()));
Assert.IsTrue(string.IsNullOrEmpty(iDNAList[0].Number));
Assert.IsTrue(string.IsNullOrEmpty(iDNAList[0].StandardName));
// Create a new Intervening DNA signal and validate the same.
var iDNA = new InterveningDna(iDNALocation);
var iDNAWithIloc = new InterveningDna(
metadata.Features.DisplacementLoops[0].Location);
// Set qualifiers and validate them.
iDNA.GeneSymbol = iDNALocation;
iDNAWithIloc.GeneSymbol = iDNALocation;
Assert.AreEqual(iDNA.GeneSymbol, iDNALocation);
Assert.AreEqual(iDNAWithIloc.GeneSymbol, iDNALocation);
// Log VSTest GUI.
ApplicationLog.WriteLine(
"GenBank Features P1: Successfully validated the GenBank Features");
}
}
