Project: s41467-024-46027-y | Function: GetResTime (python)

system: You are an expert Python programmer implementing algorithms from scientific papers.
Complete the masked function based on the algorithm description.
Follow Python best practices and maintain consistent code style.
Return **only** the complete Python function code.

user: Complete this Python function:

**DESCRIPTION:** Calculates water residence time in protein pore slices by analyzing continuous frame occupancy patterns

**KEY TERMS:** {
  "frames_of_wat_arr": "water molecule frame occupancy data",
  "count": "continuous frame counter",
  "count_frame_num": "residence time periods",
  "avg": "average residence time per water",
  "std": "standard deviation of residence times"
}

**CONTEXT CODE:** 	if '1z98' in filename:
		pdbtraj = glob.glob("*1z98*stripped.pdb")[0]
	trajectorytraj = filename
	universetraj = MDAnalysis.Universe(pdbtraj, trajectorytraj)
	wat = universetraj.select_atoms("resname WAT and name O and cyzone 8 2 -2 %s" %slice, updating=True)
	allwat_allframes = []
	allwat_allframes.append(wat.resids)
	for i in range(len(universetraj.trajectory)-1):
		universetraj.trajectory.next()
		allwat_allframes.append(wat.resids)
	outfile = filename.replace('.xtc', '-WAT-PER-FRAME-SLICE-%i.pkl'%(slicenum+1))
	file = open(outfile, "wb")
	pickle.dump(allwat_allframes, file)
	file.close()
	return allwat_allframes

def GetFramesofWat(filename, allwat_allframes, slicenum):
	'''
	From the list of np.arrays with all water resids occupying slice at each frame,
	get another list of np.arrays, each array corresponds to a water resid, containing
	the frames in which it occupies the slice
	Args: 
		filename (str): .xtc filename (to save output as pickle) 
		allwat_allframes (list): list of np.array from GetWatsInFrame()
	Returns: 
		list of np.arrays: each np.array corresponds to a water resid, containing all frame it was found in the pore slice
	'''
	#get all water ids that have been in slice
	allwatset = list(sorted(set(np.concatenate(allwat_allframes))))
	frames_of_wat_arr = []
	#for each water id, record which frame it's in the slice
	for i in range(len(allwatset)):
		frames = []
		for j in range(len(allwat_allframes)):
			if allwatset[i] in allwat_allframes[j]:
				frames.append(j)
		frames_of_wat_arr.append(np.array(frames))
	#save
	outfile = filename.replace('.xtc', '-FRAMES-PER-WAT-SLICE-%i.pkl'%(slicenum+1))
	file = open(outfile, "wb")
	pickle.dump(frames_of_wat_arr, file)
	file.close()

	allwatoutfile = filename.replace('.xtc', '-ALL-WAT-SLICE-%i.pkl'%(slicenum+1))
	allwatfile = open(allwatoutfile, "wb")
	pickle.dump(allwatset, allwatfile)
	allwatfile.close()

	return frames_of_wat_arr

def GetResTime(filename, frames_of_wat_arr, slicenum):
	'''
	From the list of np.arrays with each water and the frames in which it's in the slice,
	calculate how many frames this water is in the slice continuously
	Args:
		filename (str): .xtc filename (to save output as pickle)
		frames_of_wat_arr (list): list of np.arrays from GetFramesofWat()
		slicenum (int): current slice number
	Returns:
		list of np.arrays: each array corresponds to a water resid,
			containing the counts of continous frames it was found in the pore slice
	'''
	# MASKED: Calculates water residence time in protein pore slices by analyzing continuous frame occupancy patterns implementation
	raise NotImplementedError("This function is masked for testing purposes.")

if __name__ == '__main__':
	import argparse

	ps = argparse.ArgumentParser()
	ps.add_argument('filename', type = str, help = '-stripped-state-*.xtc 5000 frame file input with protein and water')
	args = ps.parse_args()
	filename = args.filename
	slices = ["resid 47 or resid 206 or resid 211", 
		"resid 32 or resid 137 or resid 187 or resid 202",
		"resid 29 or resid 107 or resid 218",
		"resid 54 or resid 141 or resid 183 or resid 199",
		"resid 21 or resid 58 or resid 222",
		"resid 17 or resid 96 or resid 175 or resid 226",
		"resid 13 or resid 81 or resid 152 or resid 230",
		"resid 10 or resid 90 or resid 233"]
	for i in range(len(slices)):
		start_time = time.time()
		allwat_allframes = GetWatsInFrame(filename, slices[i], i)
		frames_of_wat_arr = GetFramesofWat(filename, allwat_allframes, i)
		GetResTime(filename, frames_of_wat_arr, i)
		print("--- %s seconds ---" % (time.time() - start_time))


Complete the function implementation replacing "raise NotImplementedError".