net.maizegenetics.analysis.gbs

Class MergeTagsByTaxaFilesByRowPlugin

AbstractPlugin

net.maizegenetics.analysis.gbs.MergeTagsByTaxaFilesByRowPlugin

All Implemented Interfaces:

Plugin, PluginListener, ProgressListener

public class MergeTagsByTaxaFilesByRowPlugin
extends AbstractPlugin

Merges multiple TagsByTaxa files that are too large to fit in memory when combined. Currently, the output file stores only presence or absence of a tag in a taxon, so the merged count is the boolean OR of the individual counts. The program loops over files to determine their size, creates a RandomAccessFile object large enough to hold the merged data, then loops over each file again to fill the RandomAccessFile.

Constructor Detail

MergeTagsByTaxaFilesByRowPlugin

public MergeTagsByTaxaFilesByRowPlugin()

MergeTagsByTaxaFilesByRowPlugin

public MergeTagsByTaxaFilesByRowPlugin(java.awt.Frame parentFrame)

Method Detail

createMergeOutfile

public static void createMergeOutfile(java.lang.String[] infiles,
                                      java.lang.String outfile)

Determines the dimensions of the merged matrix, and creates a RandomAccessFile on disk large enough to hold the data.

creatMergeTBTByTagCount

public void creatMergeTBTByTagCount(java.lang.String infileDirS,
                                    java.lang.String outfileS,
                                    java.lang.String tagCountFileS)

performFunction

public DataSet performFunction(DataSet input)

setParameters

public void setParameters(java.lang.String[] args)

getIcon

public javax.swing.ImageIcon getIcon()

getButtonName

public java.lang.String getButtonName()

getToolTipText

public java.lang.String getToolTipText()

main

public static void main(java.lang.String[] args)