from __future__ import division
import os, os.path, math, copy
from ij import ImagePlus, IJ, WindowManager
from collections import Counter
#from java.awt.event import KeyEvent
#@ Integer (label="Select the threshold value, distnace in pixel, below which points should be ignored", style="slider", min=5, max=100, stepSize=1, value=10, persist = true) threshold
#@ File (label="Select a directory to process images", style="directory", value = "", persist = false) selected_dir
#################################################################
IJ.run("Set Measurements...", "centroid redirect=None decimal=2")
if IJ.isResultsWindow():
IJ.selectWindow("Results")
IJ.run("Close")
################################################
# Obtained from https://thispointer.com/python-how-to-get-list-of-files-in-directory-and-sub-directories/
#non-recursive version
def listDir(dirName, file_type, recursive = False):
# create a list of file and sub directories
# names in the given directory
listOfFile = os.listdir(dirName)
allFiles = list()
# Iterate over all the entries
for entry in listOfFile:
# Create full path
