Examples with BasePoint uk.ac.sussex.gdsc.core.match.BasePoint used on opensource projects

Example 11 with BasePoint

use of uk.ac.sussex.gdsc.core.match.BasePoint in project GDSC-SMLM by aherbert.

the class PsfCreator method getSpots.

/**
 * Extract all the ROI points and optionally exclude those that have a box region overlapping with
 * any other spot.
 *
 * @param offset the offset
 * @return the spots
 */
private BasePoint[] getSpots(float offset, boolean checkOverlap) {
    final int z = imp.getStackSize() / 2;
    // float z = (imp.getStackSize() - 1) / 2.0f; // Interpolate between slices
    final Roi roi = imp.getRoi();
    if (roi != null && roi.getType() == Roi.POINT) {
        final FloatPolygon p = roi.getFloatPolygon();
        final int n = p.npoints;
        if (n == 0) {
            return new BasePoint[0];
        }
        if (offset != 0 && // Check if already float coordinates
        (!SimpleArrayUtils.isInteger(p.xpoints) || !SimpleArrayUtils.isInteger(p.ypoints))) {
            offset = 0;
        }
        final BasePoint[] roiPoints = new BasePoint[n];
        for (int i = 0; i < n; i++) {
            roiPoints[i] = new BasePoint(p.xpoints[i] + offset, p.ypoints[i] + offset, z);
        }
        return (checkOverlap) ? checkSpotOverlap(roiPoints) : roiPoints;
    }
    return new BasePoint[0];
}