public void GetVcfPositions_SkipCorruptPositions()
{
const string input = "2\t55927i\t.\tT\tC\t39\t.\t.\tGT\t0/1\t.\t1/1\n2\t55928\t.\tT\tC\t39\t.\t.\tGT\t0/1\t.\t1/1";
bool observedResults = BgzfBlockVcfReader.HasVcfPositionsOnInterval(input, ChromosomeUtilities.Chr2, 55927, 55927);
Assert.False(observedResults);
}
public void FindVariantsInBlock_ReturnTrue()
{
using (var stream = FileUtilities.GetReadStream(Resources.TopPath("miniHEXA_minimal.vcf.gz")))
{
bool observedResults = BgzfBlockVcfReader.FindVariantsInBlocks(stream, FileOffset, FileOffset, _block,
ChromosomeUtilities.Chr15, 71589360, 71589361);
Assert.False(observedResults);
}
}
public void GetVcfPositions_MixedLineEndings_PartialEntries_MultipleChromosomes_ReturnFalse()
{
bool observedResults = BgzfBlockVcfReader.HasVcfPositionsOnInterval(MixedLineEndingsInput, ChromosomeUtilities.Chr2, 55930, 55940);
Assert.False(observedResults);
}
public void GetVcfPositions_MixedLineEndings_PartialEntries_MultipleChromosomes_ReturnTrue()
{
bool observedResults = BgzfBlockVcfReader.HasVcfPositionsOnInterval(MixedLineEndingsInput, _chr2, 55927, 55928);
Assert.True(observedResults);
}
