/// <summary>
/// Creates BAMIndex object from the specified BAM file and writes to specified BAMIndex file.
/// </summary>
/// <param name="compressedBAMStream"></param>
/// <param name="indexStorage"></param>
private static void CreateBAMIndexFile(Stream compressedBAMStream, BAMIndexStorage indexStorage)
{
var parser = new BAMParser();
BAMIndex bamIndex = parser.GetIndexFromBAMStorage(compressedBAMStream);
indexStorage.Write(bamIndex);
}
static void CreateBAMIndexFile(string bamFileName, string indexFileName)
{
using (var bamStream = File.OpenRead(bamFileName))
using (var indexStream = File.Create(indexFileName))
using (var indexStorage = new BAMIndexStorage(indexStream))
{
BAMIndex indexFromBamStorage = new BAMParser().GetIndexFromBAMStorage(bamStream);
indexStorage.Write(indexFromBamStorage);
}
}
/// <summary>
/// Creates BAMIndex object from the specified BAM file and writes to specified BAMIndex file.
/// </summary>
/// <param name="compressedBAMStream"></param>
/// <param name="indexStorage"></param>
private static void CreateBAMIndexFile(Stream compressedBAMStream, BAMIndexStorage indexStorage)
{
var parser = new BAMParser();
BAMIndex bamIndex = parser.GetIndexFromBAMStorage(compressedBAMStream);
indexStorage.Write(bamIndex);
}
