public PianoAnnotationProvider(string pathPrefix, ISequenceProvider sequenceProvider)
{
Name = "Transcript annotation provider";
_sequence = sequenceProvider.Sequence;
_transcriptCache = InitiateCache(FileUtilities.GetReadStream(CacheConstants.TranscriptPath(pathPrefix)), sequenceProvider.GetChromosomeIndexDictionary(), sequenceProvider.GenomeAssembly, sequenceProvider.NumRefSeqs);
GenomeAssembly = _transcriptCache.GenomeAssembly;
DataSourceVersions = _transcriptCache.DataSourceVersions;
}
public TranscriptCacheTests()
{
_expectedDataSourceVersions = GetDataSourceVersions();
var transcriptIntervalArrays = GetTranscripts().ToIntervalArrays(11);
var regulatoryRegionIntervalArrays = GetRegulatoryRegions().ToIntervalArrays(11);
_cache = new TranscriptCache(_expectedDataSourceVersions, ExpectedGenomeAssembly, transcriptIntervalArrays,
regulatoryRegionIntervalArrays);
}
