net.maizegenetics.dna.snp.io

Class BuilderFromGenotypeHDF5

java.lang.Object

net.maizegenetics.dna.snp.io.BuilderFromGenotypeHDF5

public class BuilderFromGenotypeHDF5
extends Object

Provides Builder and methods to build HDF5 files. The methods for merging files work, but they are far from optimal. It appears that they are taking twice the memory that they should. Ed has looked for the memory leak with a profiler but cannot find it yet. Todo: TAS-70 Details the issues with apparent memory leak.

Author:

Ed Buckler

Method Summary

Modifier and Type	Method and Description
static void	mergeToMutableHDF5(String[] infiles, String newMerge) This merge multiple alignment together into one ByteNucleotideHDF5 File.

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Method Detail

mergeToMutableHDF5

public static void mergeToMutableHDF5(String[] infiles,
                                      String newMerge)

This merge multiple alignment together into one ByteNucleotideHDF5 File. This is designed for putting multiple chromosomes together into one whole genome file.

Parameters:

infiles - array of input alignment names

newMerge - name of ByteNucleotideHDF5