104 lines
3.7 KiB
Python
104 lines
3.7 KiB
Python
from thunderfish.dataloader import DataLoader as open_data
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from thunderfish.powerspectrum import spectrogram, decibel
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from IPython import embed
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from audioio import play
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import matplotlib.pyplot as plt
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import numpy as np
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import os
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from scipy.ndimage import gaussian_filter1d
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from modules.filters import bandpass_filter
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def main(folder):
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file = os.path.join(folder, 'traces-grid.raw')
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data = open_data(folder, 60.0, 0, channel=-1)
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time = np.load(folder + 'times.npy', allow_pickle=True)
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freq = np.load(folder + 'fund_v.npy', allow_pickle=True)
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ident = np.load(folder + 'ident_v.npy', allow_pickle=True)
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idx = np.load(folder + 'idx_v.npy', allow_pickle=True)
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t0 = 3*60*60 + 6*60 + 43.5
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dt = 60
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data_oi = data[t0 * data.samplerate: (t0+dt)*data.samplerate, :]
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for i in [10]:
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# getting the spectogramm
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spec_power, spec_freqs, spec_times = spectrogram(
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data_oi[:, i], ratetime=data.samplerate, freq_resolution=50, overlap_frac=0.0)
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fig, ax = plt.subplots(figsize=(20/2.54, 12/2.54))
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ax.pcolormesh(spec_times, spec_freqs, decibel(
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spec_power), vmin=-100, vmax=-50)
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for track_id in np.unique(ident):
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# window_index for time array in time window
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window_index = np.arange(len(idx))[(ident == track_id) &
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(time[idx] >= t0) &
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(time[idx] <= (t0+dt))]
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freq_temp = freq[window_index]
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time_temp = time[idx[window_index]]
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#mean_freq = np.mean(freq_temp)
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#fdata = bandpass_filter(data_oi[:, track_id], data.samplerate, mean_freq-5, mean_freq+200)
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ax.plot(time_temp - t0, freq_temp)
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ax.set_ylim(500, 1000)
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plt.show()
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# filter plot
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id = 10.
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i = 10
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window_index = np.arange(len(idx))[(ident == id) &
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(time[idx] >= t0) &
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(time[idx] <= (t0+dt))]
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freq_temp = freq[window_index]
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time_temp = time[idx[window_index]]
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mean_freq = np.mean(freq_temp)
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fdata = bandpass_filter(
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data_oi[:, i], rate=data.samplerate, lowf=mean_freq-5, highf=mean_freq+200)
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fig, ax = plt.subplots()
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ax.plot(np.arange(len(fdata))/data.samplerate, fdata, marker='*')
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# plt.show()
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# freqency analyis of filtered data
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time_fdata = np.arange(len(fdata))/data.samplerate
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roll_fdata = np.roll(fdata, shift=1)
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period_index = np.arange(len(fdata))[(roll_fdata < 0) & (fdata >= 0)]
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plt.plot(time_fdata, fdata)
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plt.scatter(time_fdata[period_index], fdata[period_index], c='r')
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plt.scatter(time_fdata[period_index-1], fdata[period_index-1], c='r')
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upper_bound = np.abs(fdata[period_index])
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lower_bound = np.abs(fdata[period_index-1])
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upper_times = np.abs(time_fdata[period_index])
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lower_times = np.abs(time_fdata[period_index-1])
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lower_ratio = lower_bound/(lower_bound+upper_bound)
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upper_ratio = upper_bound/(lower_bound+upper_bound)
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time_delta = upper_times-lower_times
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true_zero = lower_times + time_delta*lower_ratio
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plt.scatter(true_zero, np.zeros(len(true_zero)))
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# calculate the frequency
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inst_freq = 1 / np.diff(true_zero)
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filtered_inst_freq = gaussian_filter1d(inst_freq, 0.005)
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fig, ax = plt.subplots()
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ax.plot(filtered_inst_freq, marker='.')
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# in 5 sekunden welcher fisch auf einer elektrode am
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embed()
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exit()
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# data of intrests
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# first look at the raw data, channel 11 is important
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# fig, ax = plt.subplots(figsize=(20/2.54, 12/2.54))
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# ax.plot(np.arange(len(data_oi[:, i])), data_oi[:, i])
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pass
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if __name__ == '__main__':
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main('/Users/acfw/Documents/uni_tuebingen/chirpdetection/gp_benda/data/2022-06-02-10_00/')
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