/// <summary>
/// Private constructor for clone method.
/// </summary>
/// <param name="other">Other Attenuator instance.</param>
private Attenuator(Attenuator other)
: base(other) { }
/// <summary>
/// Private constructor for clone method.
/// </summary>
/// <param name="other">Other Attenuator instance.</param>
private Attenuator(Attenuator other)
: base(other)
{
}
public void ValidateGenBankAttenuatorFeatureQualifiers()
{
// Get Values from XML node.
string filePath = utilityObj.xmlUtil.GetTextValue(
Constants.GenBankAttenuatorQualifiers, Constants.FilePathNode);
string attenuatorLocation = utilityObj.xmlUtil.GetTextValue(
Constants.GenBankAttenuatorQualifiers, Constants.Location);
string featureCount = utilityObj.xmlUtil.GetTextValue(
Constants.GenBankAttenuatorQualifiers, 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<Attenuator> attenuatorList = metadata.Features.Attenuators;
// Create a clone of attenuator feature.
Attenuator attenuatorClone = attenuatorList[0].Clone();
Assert.AreEqual(attenuatorList.Count.ToString((IFormatProvider) null), featureCount);
Assert.IsTrue(string.IsNullOrEmpty(attenuatorList[0].GeneSymbol));
Assert.IsFalse(string.IsNullOrEmpty(attenuatorClone.DatabaseCrossReference.ToString()));
Assert.IsTrue(string.IsNullOrEmpty(attenuatorClone.Allele));
Assert.IsFalse(string.IsNullOrEmpty(attenuatorList[0].ToString()));
Assert.IsFalse(string.IsNullOrEmpty(attenuatorClone.Experiment.ToString()));
Assert.IsTrue(string.IsNullOrEmpty(attenuatorList[0].GenomicMapPosition));
Assert.IsFalse(string.IsNullOrEmpty(attenuatorList[0].GeneSynonym.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(attenuatorList[0].Inference.ToString()));
Assert.IsTrue(string.IsNullOrEmpty(attenuatorList[0].Label));
Assert.AreEqual(locBuilder.GetLocationString(
metadata.Features.Attenuators[0].Location), attenuatorLocation);
Assert.IsFalse(string.IsNullOrEmpty(attenuatorList[0].Note.ToString()));
Assert.IsTrue(string.IsNullOrEmpty(attenuatorList[0].Operon));
Assert.IsFalse(string.IsNullOrEmpty(attenuatorList[0].OldLocusTag.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(attenuatorList[0].Phenotype.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(attenuatorList[0].LocusTag.ToString()));
Assert.IsFalse(string.IsNullOrEmpty(attenuatorList[0].OldLocusTag.ToString()));
// Create a new Attenuator and validate the same.
var attenuator = new Attenuator(attenuatorLocation);
var attenuatorWithILoc = new Attenuator(
metadata.Features.Attenuators[0].Location);
// Set qualifiers and validate them.
attenuator.Allele = attenuatorLocation;
attenuator.GeneSymbol = string.Empty;
attenuatorWithILoc.GenomicMapPosition = string.Empty;
Assert.IsTrue(string.IsNullOrEmpty(attenuator.GeneSymbol));
Assert.AreEqual(attenuator.Allele, attenuatorLocation);
Assert.IsTrue(string.IsNullOrEmpty(attenuatorWithILoc.GenomicMapPosition));
// Log VSTest GUI.
ApplicationLog.WriteLine(
"GenBank Features P1: Successfully validated the GenBank Features");
}
