public void CutomIntervalCompare()
{
var interval1 = new VariantAnnotation.DataStructures.CustomInterval("chr1", 1000, 2000, "test",
new Dictionary <string, string> {
["k1"] = "v1"
}, null);
var interval2 = new VariantAnnotation.DataStructures.CustomInterval("chr1", 1000, 2000, "test",
new Dictionary <string, string> {
["k1"] = "v1"
}, null);
var interval3 = new VariantAnnotation.DataStructures.CustomInterval("chr1", 1010, 2000, "test",
new Dictionary <string, string> {
["k1"] = "v1"
}, null);
var interval4 = new VariantAnnotation.DataStructures.CustomInterval("chr2", 1010, 2000, "test",
new Dictionary <string, string> {
["k1"] = "v1"
}, null);
Assert.True(interval1.Equals(interval2));
Assert.Equal(-1, interval1.CompareTo(interval3));
Assert.Equal(-1, interval1.CompareTo(interval4));
var intervalHash = new HashSet <VariantAnnotation.DataStructures.CustomInterval> {
interval4, interval1
};
Assert.Equal(2, intervalHash.Count);
}
public void DifferentTypeException()
{
var customInterval = new VariantAnnotation.DataStructures.CustomInterval("chr1", 100, 200, "WrongType",
null, null);
var randomPath = GetRandomPath();
var dataVersion = new DataSourceVersion("customInterval", "00", DateTime.Now.Ticks);
using (var writer = new CustomIntervalWriter(randomPath, "chr1", _intervalType, dataVersion))
{
// ReSharper disable once AccessToDisposedClosure
var ex = Assert.Throws <Exception>(() => writer.WriteInterval(customInterval));
Assert.Equal($"Unexpected interval in custom interval writer.\nExpected interval type: {_intervalType}, observed interval type: WrongType", ex.Message);
}
}
public CustomIntervalReadAndWriteTests()
{
_intervalType = "TestInterval";
for (var i = 0; i < _totalIntervals; i++)
{
var start = 100 + i * 10000;
var end = 200 + i * 100 + i * 10000;
var geneName = "TestGene" + i;
var evidence = "Class" + i;
var length = end - start + 1;
// ReSharper disable once PossibleLossOfFraction
float score = i * 3 / 5;
var stringValues = new Dictionary <string, string>();
var nonstringValues = new Dictionary <string, string>();
stringValues.Add("Gene", geneName);
stringValues.Add("Evidence", evidence);
nonstringValues.Add("score", score.ToString(CultureInfo.InvariantCulture));
nonstringValues.Add("length", length.ToString());
if (i == 0)
{
var customInterval = new VariantAnnotation.DataStructures.CustomInterval("chr1", start, end, _intervalType,
null, null);
_expectedCustomIntervals.Add(customInterval);
}
else
{
var customInterval = new VariantAnnotation.DataStructures.CustomInterval("chr1", start, end, _intervalType,
stringValues, nonstringValues);
_expectedCustomIntervals.Add(customInterval);
}
}
_randomPath = GetRandomPath();
WriteCustomIntevalFile(_randomPath);
}
