import pandas as pd import numpy as np import scipy.signal as signal import matplotlib.pyplot as plt from time import sleep from random import choice as r_choice from sys import exit if __name__ == "__main__": if __package__ is None: # make relative imports work as described here: https://peps.python.org/pep-0366/#proposed-change __package__ = "teng_ml" import sys from os import path filepath = path.realpath(path.abspath(__file__)) sys.path.insert(0, path.dirname(path.dirname(filepath))) from .util.transform import Normalize from .util.data_loader import get_datafiles file = "/home/matth/data/2023-04-25_kapton_8.2V_179mm002.csv" class PeakInfo: """ Helper class for "iterating" through selected peaks. """ def __init__(self): self.reset() def reset(self): self._peak_names = [ "first", "second", "last", "lowest" ] self._peaks = { p: None for p in self._peak_names } self._iter = 0 def current(self): # return (self._peak_names[self._iter]), self._peaks[self._peak_names[self._iter]] return self._peaks[self._peak_names[self._iter]] def name(self): return self._peak_names[self._iter] def next(self): if self._iter < len(self._peak_names) - 1: self._iter += 1 return self.current() def prev(self): if self._iter > 0: self._iter -= 1 return self.current() def set(self, value): """Assign a value to the current peak""" self._peaks[self._peak_names[self._iter]] = value def is_done(self): for peak in self._peaks.values(): if peak is None: return False return True def __getitem__(self, key): return self._peaks[key] def __setitem__(self, key, value): self._peaks[key] = value def __repr__(self): return f"{self._peak_names[self._iter]} peak" def find_peaks(a): peaks = signal.find_peaks(a) def on_click(fig, ax, peaks, event): """ Let the user select first, second and last peak by clicking on them in this order. Right click undos the last selection """ select = None if event.button == 1: # left click peaks.set((event.xdata, event.ydata)) print(f"{peaks}: {event.xdata} - {event.ydata}") ax.set_title(f"{peaks}: {event.xdata} - {event.ydata}") peaks.next() elif event.button == 3: # right click ax.set_title(f"Undo {peaks.name()}") if not peaks.is_done(): peaks.prev() peaks.set(None) if peaks.is_done(): message = "Close window when done" else: message = f"Click on {peaks}" fig.suptitle(message) fig.canvas.draw() # fig1.canvas.flush_events() def calc_peaks(peaks): # get the peak points from the information of a Peaks object # 90% distance between first and second min_distance = max(1, (peaks["second"][0] - peaks["first"][0]) * 0.9) min_height = peaks["lowest"][1] * 0.99 vpeaks = signal.find_peaks(vdata, height=min_height, distance=min_distance) return vpeaks if __name__ == "__main__": """ Peak identification: plot, let user choose first, second, last and lowest peak for identification """ df = pd.read_csv(file) a = df.to_numpy() # a2 = interpolate_to_linear_time() # print(a2) # exit() vdata = Normalize(0, 1)(a[:,2]) plt.ion() # vpeaks[0] is the list of the peaks vpeaks = signal.find_peaks(vdata)[0] fig, ax = plt.subplots() ax.plot(vdata) peak_lines = ax.vlines(vpeaks, 0, 1, colors="r") ax.grid(True) fig.suptitle("Click on first peak") peak_info = PeakInfo() # handle clicks fig.canvas.mpl_connect("button_press_event", lambda ev: on_click(fig, ax, peak_info, ev)) # run until user closes, events are handled with on_click function print(vdata.size) while plt.fignum_exists(fig.number): plt.pause(0.01) if (peak_info.is_done()): vpeaks = calc_peaks(peak_info)[0] x_margin = (a[-1,0] - a[0,0]) * 0.05 # allow some margin if user clicked not close enough on peak vpeaks = vpeaks[(vpeaks >= peak_info["first"][0] - x_margin) & (vpeaks <= peak_info["last"][0] + x_margin)] # remove peaks before first and after last peak_lines.remove() peak_lines = ax.vlines(vpeaks, 0, 1, colors="r") peak_info.reset() print(a[:,0], vpeaks) # separate peaks indices = np.arange(0, a[:,0].size) peak_datas = [] for i in range(len(vpeaks) - 1): # TODO: user <= or < peak_datas.append(vdata[(indices >= vpeaks[i]) & (indices < vpeaks[i+1])]) plt.plot(peak_datas[i]) print(peak_datas) plt.pause(20)