/// <summary>
/// Private constructor for clone method.
/// </summary>
/// <param name="other">Other UnsureSequenceRegion instance.</param>
private UnsureSequenceRegion(UnsureSequenceRegion other)
: base(other) { }
/// <summary>
/// Private constructor for clone method.
/// </summary>
/// <param name="other">Other UnsureSequenceRegion instance.</param>
private UnsureSequenceRegion(UnsureSequenceRegion other)
: base(other)
{
}
/// <summary>
/// Validate GenBank UnsureSequenceRegion features
/// </summary>
/// <param name="nodeName">XML node name</param>
/// <param name="genMetadata">GenBank Metadata</param>
private void ValidateGenBankUnsureSequenceRegion(string nodeName,
GenBankMetadata genMetadata)
{
// Get Values from XML node.
string expectedLocation = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.Location);
string expectedAllele = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.AlleleNode);
string featureCount = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.QualifierCount);
string expectedDbReference = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.DbReferenceNode);
string geneSymbol = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.GeneSymbol);
string expectedCitation = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.CitationNode);
string expectedExperiment = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.ExperimentNode);
string expectedInference = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.InferenceNode);
string expectedLabel = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.LabelNode);
string expectedNote = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.Note);
string expectedMap = utilityObj.xmlUtil.GetTextValue(
nodeName, Constants.GenbankMapNode);
List<UnsureSequenceRegion> unsureSeqRegionFeatureList =
genMetadata.Features.UnsureSequenceRegions;
// Create a copy of Unsure Seq Region feature.
UnsureSequenceRegion cloneUnSureSeqRegion =
unsureSeqRegionFeatureList[0].Clone();
var locBuilder = new LocationBuilder();
// Validate Unsure Seq Region qualifiers.
Assert.AreEqual(unsureSeqRegionFeatureList.Count.ToString((IFormatProvider) null)
, featureCount);
Assert.AreEqual(cloneUnSureSeqRegion.DatabaseCrossReference[0],
expectedDbReference);
Assert.AreEqual(cloneUnSureSeqRegion.GeneSymbol,
geneSymbol);
Assert.AreEqual(unsureSeqRegionFeatureList[0].Allele,
expectedAllele);
Assert.AreEqual(unsureSeqRegionFeatureList[0].Citation[0],
expectedCitation);
Assert.AreEqual(unsureSeqRegionFeatureList[0].Experiment[0],
expectedExperiment);
Assert.AreEqual(unsureSeqRegionFeatureList[0].GenomicMapPosition,
expectedMap);
Assert.AreEqual(unsureSeqRegionFeatureList[0].Inference[0],
expectedInference);
Assert.AreEqual(unsureSeqRegionFeatureList[0].Label,
expectedLabel);
Assert.AreEqual(locBuilder.GetLocationString(
genMetadata.Features.UnsureSequenceRegions[0].Location),
expectedLocation);
Assert.AreEqual(unsureSeqRegionFeatureList[0].Note[0],
expectedNote);
Assert.AreEqual(unsureSeqRegionFeatureList[0].GenomicMapPosition,
expectedMap);
Assert.IsFalse(string.IsNullOrEmpty(unsureSeqRegionFeatureList[0].Compare.ToString()));
Assert.IsTrue(string.IsNullOrEmpty(unsureSeqRegionFeatureList[0].Replace));
// Create a new Unsure feature using constructor.
var unsureRegion =
new UnsureSequenceRegion(expectedLocation);
var unsureRegionWithLoc =
new UnsureSequenceRegion(
genMetadata.Features.UnsureSequenceRegions[0].Location);
// Set and validate qualifiers.
unsureRegion.Allele = expectedAllele;
unsureRegionWithLoc.GeneSymbol = geneSymbol;
unsureRegionWithLoc.GenomicMapPosition = expectedMap;
Assert.AreEqual(unsureRegionWithLoc.GenomicMapPosition,
expectedMap);
Assert.AreEqual(unsureRegion.Allele, expectedAllele);
Assert.AreEqual(unsureRegionWithLoc.GeneSymbol,
geneSymbol);
}
