public void CreateAndQuery_multiple_chromosomes()
{
using (var stream = new MemoryStream())
using (var writer = new ExtendedBinaryWriter(stream))
{
var index = new RefMinorIndex(writer, GenomeAssembly.GRCh37, new DataSourceVersion("name", "1", DateTime.Now.Ticks), SaCommon.SchemaVersion);
index.Add(0, 100);
index.Add(0, 105);
index.Add(0, 110);
index.Add(0, 115);
index.Add(1, 200);
index.Add(1, 205);
index.Add(1, 210);
index.Add(2, 315);
index.Write(320);
(long location, int byteCount, int count) = index.GetFileRange(0);
Assert.Equal(100, location);
Assert.Equal(100, byteCount);
Assert.Equal(4, count);
(location, byteCount, count) = index.GetFileRange(1);
Assert.Equal(200, location);
Assert.Equal(115, byteCount);
Assert.Equal(3, count);
(location, byteCount, count) = index.GetFileRange(2);
Assert.Equal(315, location);
Assert.Equal(5, byteCount);
Assert.Equal(1, count);
}
}
private void WritePosition(List <ISupplementaryDataItem> saItems)
{
var refMinorItem = (RefMinorItem)GetRefMinorItem(saItems);
if (refMinorItem == null)
{
return;
}
_refMinorIndex.Add(refMinorItem.Chromosome.Index, _stream.Position);
_writer.WriteOpt(refMinorItem.Position);
_writer.WriteOptAscii(refMinorItem.GlobalMajor);
}
public void ReadBack()
{
var stream = new MemoryStream();
using (var writer = new ExtendedBinaryWriter(stream))
{
var index = new RefMinorIndex(writer, GenomeAssembly.GRCh37, new DataSourceVersion("name", "1", DateTime.Now.Ticks), SaCommon.SchemaVersion);
index.Add(0, 100);
index.Add(0, 105);
index.Add(0, 110);
index.Add(0, 115);
index.Add(1, 200);
index.Add(1, 205);
index.Add(1, 210);
index.Add(2, 315);
index.Write(320);
}
var readStream = new MemoryStream(stream.ToArray())
{
Position = 0
};
using (var reader = new ExtendedBinaryReader(readStream))
{
var index = new RefMinorIndex(reader);
(long location, int byteCount, int count) = index.GetFileRange(0);
Assert.Equal(100, location);
Assert.Equal(100, byteCount);
Assert.Equal(4, count);
(location, byteCount, count) = index.GetFileRange(1);
Assert.Equal(200, location);
Assert.Equal(115, byteCount);
Assert.Equal(3, count);
(location, byteCount, count) = index.GetFileRange(2);
Assert.Equal(315, location);
Assert.Equal(5, byteCount);
Assert.Equal(1, count);
}
}