Java Code Examples for ij.measure.ResultsTable#getColumnIndex()

The following examples show how to use ij.measure.ResultsTable#getColumnIndex() . You can vote up the ones you like or vote down the ones you don't like, and go to the original project or source file by following the links above each example. You may check out the related API usage on the sidebar.
Example 1
Source File: LabelToValuePlugin.java    From MorphoLibJ with GNU Lesser General Public License v3.0 5 votes vote down vote up 
private double[] getColumnValues(ResultsTable table, String heading)
{
    String[] allHeaders = table.getHeadings();

    // Check if column header corresponds to row label header
    boolean hasRowLabels = hasRowLabelColumn(table);
    if (hasRowLabels && heading.equals(allHeaders[0]))
    {
        // need to parse row label column
        int nr = table.size();
        double[] values = new double[nr];
        for (int r = 0; r < nr; r++)
        {
            String label = table.getLabel(r);
            values[r] = Double.parseDouble(label);
        }
        return values;
    }

    // determine index of column
    int index = table.getColumnIndex(heading);
    if (index == ResultsTable.COLUMN_NOT_FOUND)
    {
        throw new RuntimeException("Unable to find column index from header: " + heading);
    }
    return table.getColumnAsDoubles(index);
}
Example 2
Source File: DrawTableValuesPlugin.java    From MorphoLibJ with GNU Lesser General Public License v3.0 5 votes vote down vote up 
private double[] getColumnValues(ResultsTable table, String heading)
{
    String[] allHeaders = table.getHeadings();

    // Check if column header corresponds to row label header
    boolean hasRowLabels = hasRowLabelColumn(table);
    if (hasRowLabels && heading.equals(allHeaders[0]))
    {
        // need to parse row label column
        int nr = table.size();
        double[] values = new double[nr];
        for (int r = 0; r < nr; r++)
        {
            String label = table.getLabel(r);
            values[r] = Double.parseDouble(label);
        }
        return values;
    }

    // determine index of column
    int index = table.getColumnIndex(heading);
    if (index == ResultsTable.COLUMN_NOT_FOUND)
    {
        throw new RuntimeException("Unable to find column index from header: " + heading);
    }
    return table.getColumnAsDoubles(index);
}
Example 3
Source File: GeodesicDiameter3DPlugin.java    From MorphoLibJ with GNU Lesser General Public License v3.0 4 votes vote down vote up 
@Override
public void run(String arg0) 
{
	// Open a dialog to choose:
	// - a label image
	// - a set of weights
	int[] indices = WindowManager.getIDList();
	if (indices==null)
	{
		IJ.error("No image", "Need at least one image to work");
		return;
	}
	
	// create the list of image names
	String[] imageNames = new String[indices.length];
	for (int i=0; i<indices.length; i++)
	{
		imageNames[i] = WindowManager.getImage(indices[i]).getTitle();
	}
	
	// name of selected image
	String selectedImageName = IJ.getImage().getTitle();
	
	// create the dialog
	GenericDialog gd = new GenericDialog("Geodesic Diameter 3D");
	gd.addChoice("Label Image (3D):", imageNames, selectedImageName);
	// Set Chessknight weights as default
	gd.addChoice("Distances", ChamferWeights3D.getAllLabels(), 
			ChamferWeights3D.WEIGHTS_3_4_5_7.toString());
	gd.showDialog();
	
	if (gd.wasCanceled())
		return;
	
	// set up current parameters
	int labelImageIndex = gd.getNextChoiceIndex();
	ImagePlus labelPlus = WindowManager.getImage(labelImageIndex+1);
	ChamferWeights3D weights = ChamferWeights3D.fromLabel(gd.getNextChoice());
	
	// check if image is a label image
	if (!LabelImages.isLabelImageType(labelPlus))
	{
		IJ.showMessage("Input image should be a label image");
		return;
	}
	
	// extract label ImageProcessor
	ImageStack labelImage = labelPlus.getStack();
	
	// Compute geodesic diameters, using floating-point calculations
	long start = System.nanoTime();
	ResultsTable table = process(labelImage, weights.getFloatWeights());
	long finalTime = System.nanoTime();
	
	// Final time, displayed in milliseconds
	float elapsedTime = (finalTime - start) / 1000000.0f;

	// display the result table
	String tableName = labelPlus.getShortTitle() + "-GeodDiameters"; 
	table.show(tableName);

	IJUtils.showElapsedTime("Geodesic Diameter 3D", (long) elapsedTime, labelPlus);
	
	
	// extract column corresponding to geodesic diameter
	int gdIndex = table.getColumnIndex("Geod. Diam.");
	double[] geodDiamArray = table.getColumnAsDoubles(gdIndex);
	
	// Check validity of resulting geodesic diameters
	for (double geodDiam : geodDiamArray)
	{
		if (Float.isInfinite((float) geodDiam))
		{
			IJ.showMessage("Geodesic Diameter Warning", "Some geodesic diameters are infinite,\n"
					+ "meaning that some particles are not connected.\n" + "Maybe labeling was not performed?");
			break;
		}
	}
}