Field Detail

• gridSizeXStatic

  public static int gridSizeXStatic

• gridSizeYStatic

  public static int gridSizeYStatic

• overlapStatic

  public static double overlapStatic

• directoryStatic

  public static String directoryStatic

• fileNamesStatic

  public static String fileNamesStatic

• rgbOrderStatic

  public static String rgbOrderStatic

• tileConfStatic

  public static String tileConfStatic

• writeOnlyTileConfStatic

  public static boolean writeOnlyTileConfStatic

• startXStatic

  public static int startXStatic

• startYStatic

  public static int startYStatic

• startIStatic

  public static int startIStatic

• handleRGBStatic

  public static String handleRGBStatic

• fusionMethodStatic

  public static String fusionMethodStatic

• alphaStatic

  public static double alphaStatic

• thresholdRStatic

  public static double thresholdRStatic

• thresholdDisplacementRelativeStatic

  public static double thresholdDisplacementRelativeStatic

• thresholdDisplacementAbsoluteStatic

  public static double thresholdDisplacementAbsoluteStatic

• previewOnlyStatic

  public static boolean previewOnlyStatic

• computeOverlapStatic

  public static boolean computeOverlapStatic

Constructor Detail

• Stitch_Image_Grid

  public Stitch_Image_Grid()

Method Detail

• run

  public void run(String arg0)

  Specified by:

  run in interface ij.plugin.PlugIn

• stitchImageGrid

  public static ij.ImagePlus stitchImageGrid(String filenames,
                                             String inputDirectory,
                                             GridLayout gridLayout,
                                             String handleRGB,
                                             String fusionMethod,
                                             String outputFileName,
                                             double overlap,
                                             int startX,
                                             int startY,
                                             int startI,
                                             boolean writeOnlyOutput,
                                             boolean previewOnly,
                                             boolean computeOverlap)

  Stitch grid of 2D images

  Parameters:

  filenames - file name format (for example: "TiledConfocal_{ii}.lsm")

  inputDirectory - input directory

  gridLayout - grid layout information

  handleRGB - RGB mode (@see stitching.CommonFunctions.colorList)

  fusionMethod - fusion method (@see stitching.CommonFunctions.methodListCollection)

  outputFileName - output file name (for example: "TileConfiguration.txt")

  overlap - percentage of overlap

  startX - starting X value

  startY - starting Y value

  startI - starting I value

  writeOnlyOutput - "Save Only Tile Configuration" option

  previewOnly - "create only preview" option

  computeOverlap - "compute overlap" option

• getLeadingZeros

  public static String getLeadingZeros(int zeros,
                                       int number)

• openFileWrite

  public static PrintWriter openFileWrite(String fileName)