public void Equals_SameIntervalStartAndEnd()
{
Interval <int> i1 = Interval.Create(5, 10);
Interval <int> i2 = Interval.Create(5, 10);
Assert.That(IntervalExtensions.Equals(i1, i2), Is.True);
}
public void Equals_NullIntervalAndOther_ReturnsTrue()
{
Interval <int> i1 = null;
Interval <int> i2 = null;
Assert.That(IntervalExtensions.Equals(i1, i2), Is.True);
}
public void Equals_DifferentIntervalStarts_ReturnsFalse()
{
Interval <int> i1 = Interval.Create(2, 10);
Interval <int> i2 = Interval.Create(5, 10);
Assert.That(IntervalExtensions.Equals(i1, i2), Is.False);
}
public void Equals_NullOther_ReturnsFalse()
{
Interval <int> i1 = Interval.Create(5, 10);
Interval <int> i2 = null;
Assert.That(IntervalExtensions.Equals(i1, i2), Is.False);
}
public void IsOverlapping_SameInterval_ReturnsTrue()
{
var interval = 10.IntervalTo(20);
var output = IntervalExtensions.IsOverlapping(interval, interval);
Assert.That(output, Is.True);
}
public void Contains_WithTestCases_ProducesExpectedResults(int start, int end, int value, bool expected)
{
var interval = Interval.Create(start, end);
var output = IntervalExtensions.Contains(interval, value);
Assert.That(output, Is.EqualTo(expected));
}
public void IsValid_WithTestCases_ProducesCorrectResults(int start, int end, bool expected)
{
var interval = new StupidInterval(start, end);
var output = IntervalExtensions.IsValid(interval);
Assert.That(output, Is.EqualTo(expected));
}
public void IsOverlapping_WithTestCases_ProducesCorrectResults(int start1, int end1, int start2, int end2, bool expected)
{
Interval <int> interval = Interval.Create(start1, end1);
Interval <int> other = Interval.Create(start2, end2);
var output = IntervalExtensions.IsOverlapping(interval, other);
Assert.That(output, Is.EqualTo(expected));
}
public void TryGetOverlappingIntervals_NullIntervalAndOther_ReturnsNull()
{
Interval <int> interval = null;
Interval <int> other = null;
var output = IntervalExtensions.TryGetOverlappingInterval(interval, other);
Assert.That(output, Is.Null);
}
public void IsOverlapping_NullIntervalAndOther_ReturnsFalse()
{
Interval <int> interval = null;
Interval <int> other = null;
var output = IntervalExtensions.IsOverlapping(interval, other);
Assert.That(output, Is.False);
}
/// <summary>
/// parses the database cache file and populates the specified lists and interval trees
/// </summary>
public TranscriptCacheData Read(IDictionary <ushort, IChromosome> refIndexToChromosome)
{
var genes = ReadItems(_reader, () => Gene.Read(_reader, refIndexToChromosome));
var transcriptRegions = ReadItems(_reader, () => TranscriptRegion.Read(_reader));
var mirnas = ReadItems(_reader, () => IntervalExtensions.Read(_reader));
var peptideSeqs = ReadItems(_reader, () => _reader.ReadAsciiString());
var regulatoryRegions = ReadIntervals(_reader, () => RegulatoryRegion.Read(_reader, refIndexToChromosome));
var transcripts = ReadIntervals(_reader, () => Transcript.Read(_reader, refIndexToChromosome, genes, transcriptRegions, mirnas, peptideSeqs));
return(new TranscriptCacheData(Header, genes, transcriptRegions, mirnas, peptideSeqs, transcripts, regulatoryRegions));
}
public void GetSpan_NullCases_ReturnsZero()
{
Assert.That(IntervalExtensions.GetSpan((IInterval <byte>)null), Is.EqualTo(0));
Assert.That(IntervalExtensions.GetSpan((IInterval <short>)null), Is.EqualTo(0));
Assert.That(IntervalExtensions.GetSpan((IInterval <int>)null), Is.EqualTo(0));
Assert.That(IntervalExtensions.GetSpan((IInterval <long>)null), Is.EqualTo(0));
Assert.That(IntervalExtensions.GetSpan((IInterval <double>)null), Is.EqualTo(0));
Assert.That(IntervalExtensions.GetSpan((IInterval <float>)null), Is.EqualTo(0));
Assert.That(IntervalExtensions.GetSpan((IInterval <decimal>)null), Is.EqualTo(0));
Assert.That(IntervalExtensions.GetSpan((IInterval <DateTime>)null), Is.EqualTo(TimeSpan.Zero));
}
public void TryGetOverlappingIntervals_WithTestCases_ProducesCorrectResults(int start1, int end1, int start2, int end2, int expectedStart, int expectedEnd)
{
Interval <int> interval = Interval.Create(start1, end1);
Interval <int> other = Interval.Create(start2, end2);
Interval <int> expected = (expectedStart > expectedEnd) ? null : Interval.Create(expectedStart, expectedEnd);
var output = IntervalExtensions.TryGetOverlappingInterval(interval, other);
Assert.That(output, Is.EqualTo(expected).Using(IntervalEqualityComparer <int> .Default));
}
public void Contains_NullInterval_ReturnsFalse()
{
var output = IntervalExtensions.Contains(null, 0);
Assert.That(output, Is.False);
}
public void IntervalToWithTag_StartAfterEnd_ThrowsArgumentNullException()
{
Assert.Throws <ArgumentOutOfRangeException>(() => IntervalExtensions.IntervalTo(10, 5, "tag"));
}
public void IsValid_NullInterval_ReturnsFalse()
{
Assert.That(IntervalExtensions.IsValid <int>(null), Is.False);
}
public void IntervalToWithTag_StartLessThanEnd_ReturnsInterval()
{
var interval = IntervalExtensions.IntervalTo(5, 10, "tag");
Assert.That(interval, Is.EqualTo(new Interval <int>(5, 10)).Using(IntervalEqualityComparer <int> .Default));
}
public void Merge_NullIntervals_ThrowsArgumentNullException()
{
Assert.Throws <ArgumentNullException>(() => IntervalExtensions.Merge <int>(null));
}