Uses of Class
com.intel.genomicsdb.SampleInfo

Uses of SampleInfo in com.intel.genomicsdb

Method parameters in com.intel.genomicsdb with type arguments of type SampleInfo

Modifier and Type	Method and Description
private int	GenomicsDBImporter.addBufferStream(String streamName, htsjdk.variant.vcf.VCFHeader vcfHeader, long bufferCapacity, htsjdk.variant.variantcontext.writer.VariantContextWriterBuilder.OutputType streamType, Iterator<htsjdk.variant.variantcontext.VariantContext> vcIterator, Map<Integer,SampleInfo> sampleIndexToInfo) Add a buffer stream or VC iterator - internal function
int	GenomicsDBImporter.addBufferStream(String streamName, htsjdk.variant.vcf.VCFHeader vcfHeader, long bufferCapacity, htsjdk.variant.variantcontext.writer.VariantContextWriterBuilder.OutputType streamType, Map<Integer,SampleInfo> sampleIndexToInfo) Add a buffer stream as the data source - caller must: 1.
int	GenomicsDBImporter.addSortedVariantContextIterator(String streamName, htsjdk.variant.vcf.VCFHeader vcfHeader, Iterator<htsjdk.variant.variantcontext.VariantContext> vcIterator, long bufferCapacity, htsjdk.variant.variantcontext.writer.VariantContextWriterBuilder.OutputType streamType, Map<Integer,SampleInfo> sampleIndexToInfo) Add a sorted VC iterator as the data source - caller must: 1.
static long	GenomicsDBImporter.initializeSampleInfoMapFromHeader(Map<Integer,SampleInfo> sampleIndexToInfo, htsjdk.variant.vcf.VCFHeader vcfHeader, long rowIdx) Static function that reads sample names from the vcfHeader and adds entries to the map.
int	GenomicsDBImporter.setSortedVariantContextIterator(String streamName, htsjdk.variant.vcf.VCFHeader vcfHeader, Iterator<htsjdk.variant.variantcontext.VariantContext> vcIterator, long bufferCapacity, htsjdk.variant.variantcontext.writer.VariantContextWriterBuilder.OutputType streamType, Map<Integer,SampleInfo> sampleIndexToInfo) Sets sorted VC iterator as the data source and calls setupGenomicsDBImporter().