net.maizegenetics.analysis.gbs

Class MergeTagsByTaxaFilesPlugin

AbstractPlugin

net.maizegenetics.analysis.gbs.MergeTagsByTaxaFilesPlugin

All Implemented Interfaces:

Plugin, PluginListener, ProgressListener

public class MergeTagsByTaxaFilesPlugin
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

MergeTagsByTaxaFilesPlugin

public MergeTagsByTaxaFilesPlugin()

MergeTagsByTaxaFilesPlugin

public MergeTagsByTaxaFilesPlugin(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.

fillMergeOutfile

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

Inserts tag count values into the RandomAccessFile created by @link{createMergeOutfile}.

taxaRedirect

public static kotlin.Array[] taxaRedirect(java.lang.String[] fromNames,
                                          java.lang.String[] toNames)

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()