Uses of Class
com.pacbio.secondary.vis.io.hdf.file.cmph5.CMPH5File

Packages that use CMPH5File

Package	Description
com.pacbio.secondary.vis.io.hdf.test	Hdf library test suite
com.pacbio.secondary.vis.svc.server.hdf	HDFService utils

Uses of CMPH5File in com.pacbio.secondary.vis.io.hdf.test

Methods in com.pacbio.secondary.vis.io.hdf.test with parameters of type CMPH5File

Modifier and Type	Method and Description
protected static void	HDFTest.testDataStreaming(CMPH5File cmp_file, H5ScalarDS dataset, StreamingDataConsumer consumer) Demo/Test method only.
protected static void	HDFTest.testGetAlignmentIndexTableForInterval(CMPH5File cmp_file, java.lang.String contig_id, long start, long end) Demo/Test method.
protected static void	HDFTest.testStreamAlignmentIndexData(CMPH5File cmp_file) Demo/Test method only.
protected static void	HDFTest.testStreamFirstReadGroupData(CMPH5File cmp_file) Demo/Test method only.
protected static boolean	HDFTest.testWriteDataSet(CMPH5File cmp_file) Demo/Test method only.

Uses of CMPH5File in com.pacbio.secondary.vis.svc.server.hdf

Methods in com.pacbio.secondary.vis.svc.server.hdf with parameters of type CMPH5File

Modifier and Type	Method and Description
protected java.util.ArrayList<RawRead>	GenomicDataBuilder.gatherBasesData(CMPH5File cmp_h5_file, java.util.ArrayList<WsRead> alignedReads, AlignmentIndexTable table, long start, long end, int mode)
protected float	GenomicDataBuilder.gatherMetricsData(CMPH5File cmp_h5_file, java.util.ArrayList<WsRead> alignedReads, java.util.ArrayList<RawRead> raw_reads, AlignmentIndexTable table, long start, long end, int mode)