Cleaning up the repository
Esse commit está contido em:
Mahdad Jafarzadehesfahani
@@ -1,57 +0,0 @@
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import mne
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import numpy as np
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import matplotlib.pyplot as plt
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import yasa
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from mne.time_frequency import tfr_morlet, tfr_multitaper
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%matplotlib qt
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data_path = "P:\\3013102.01\\Data\\"
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participant_session = ['NL_DNDRS_0004__ses-2']
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for idx, c_subj in enumerate(participant_session):
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participant_number = c_subj.split('__')[0]
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session_number = c_subj.split('__')[1]
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# Reading EEG data
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path_EEG_L = data_path + participant_number +'\\' + session_number + '\\eeg\\EEG L.edf'
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path_EEG_R = data_path + participant_number +'\\' + session_number + '\\eeg\\EEG R.edf'
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# Load the EDF file
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raw_EEG_L = mne.io.read_raw_edf(path_EEG_L, preload=True)
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raw_EEG_R = mne.io.read_raw_edf(path_EEG_R, preload=True)
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raw_EEG_L.filter(l_freq=.3, h_freq=30)
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raw_EEG_R.filter(l_freq=.3, h_freq=30)
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raw_EEG_L_get_data = np.ravel(raw_EEG_L.get_data(units="uV"))
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raw_EEG_R_get_data = np.ravel(raw_EEG_R.get_data(units="uV"))
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loc = raw_EEG_L_get_data[7190*256:]
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roc = raw_EEG_R_get_data[7190*256:]
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plt.plot(loc)
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plt.plot(roc)
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REM_events = yasa.rem_detect(loc = loc, roc = roc, sf=256, hypno=None, include=4, amplitude=(30, 325), duration=(0.1, 1.2), freq_rem=(0.2, 8), remove_outliers=True, verbose=False)
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REM_events.summary()
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REM_events.plot_average(time_before=1, time_after=1);
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# Let's get a boolean mask of the REMs in data
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mask = REM_events.get_mask()
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loc_highlight = loc * mask[0, :]
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roc_highlight = roc * mask[1, :]
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loc_highlight[loc_highlight == 0] = np.nan
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roc_highlight[roc_highlight == 0] = np.nan
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plt.figure(figsize=(16, 4.5))
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plt.plot(loc, 'slategrey', label='LOC')
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plt.plot(roc, 'grey', label='ROC')
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plt.plot( loc_highlight, 'indianred')
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plt.plot( roc_highlight, 'indianred')
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plt.xlabel('Time (seconds)')
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plt.ylabel('Amplitude (uV)')
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plt.title('REM sleep EOG data')
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plt.legend()
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@@ -1,232 +0,0 @@
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2021-07-19 18:40:14 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-10896
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2021-07-19 18:40:14 [INFO ] Loading ...
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2021-07-19 18:40:14 [INFO ] Signal file: C:\Users\mahjaf\Downloads\
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2021-07-19 18:40:14 [INFO ] Start datetime: 2021-07-17 03:32:42
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2021-07-19 18:40:14 [INFO ] File duration: 22710 sec
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2021-07-19 18:40:14 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-07-19 18:40:15 [INFO ] Selected channel: EEG L - EEG R
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2021-07-19 18:40:15 [INFO ] Select channel samples: 757 epochs
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2021-07-19 18:40:15 [INFO ] Sampling rate: 256.0 Hz
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2021-07-19 18:40:15 [INFO ]
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=======================================
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2021-07-19 18:40:15 [INFO ] Autoscoring file: Left ...
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2021-07-19 18:40:15 [INFO ] Test set (n_night_sleeps=1)
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2021-07-19 18:40:15 [INFO ] (757, 7680, 1, 1)
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2021-07-19 18:45:08 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-07-19 18:45:08 [INFO ] Loading ...
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2021-07-19 18:45:08 [INFO ] Signal file: C:/Users/mahjaf/Downloads/
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2021-07-19 18:45:08 [INFO ] Start datetime: 2021-07-17 03:32:42
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2021-07-19 18:45:08 [INFO ] File duration: 22710 sec
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2021-07-19 18:45:08 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-07-19 18:45:09 [INFO ] Selected channel: EEG L - EEG R
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2021-07-19 18:45:09 [INFO ] Select channel samples: 757 epochs
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2021-07-19 18:45:09 [INFO ] Sampling rate: 256.0 Hz
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2021-07-19 18:45:09 [INFO ]
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=======================================
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2021-07-19 18:45:09 [INFO ] Autoscoring file: 1 ...
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2021-07-19 18:45:09 [INFO ] Test set (n_night_sleeps=1)
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2021-07-19 18:45:09 [INFO ] (757, 7680, 1, 1)
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2021-07-19 18:45:22 [INFO ] Loading ...
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2021-07-19 18:45:22 [INFO ] Signal file: C:/Users/mahjaf/Downloads/
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2021-07-19 18:47:55 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-07-19 18:47:55 [INFO ] Loading ...
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2021-07-19 18:47:55 [INFO ] Signal file: C:/Users/mahjaf/Downloads/
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2021-07-19 18:47:55 [INFO ] Start datetime: 2021-07-17 03:32:42
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2021-07-19 18:47:55 [INFO ] File duration: 22710 sec
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2021-07-19 18:47:55 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-07-19 18:47:56 [INFO ] Selected channel: EEG L - EEG R
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2021-07-19 18:47:56 [INFO ] Select channel samples: 757 epochs
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2021-07-19 18:47:56 [INFO ] Sampling rate: 256.0 Hz
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2021-07-19 18:47:56 [INFO ]
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=======================================
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2021-07-19 18:47:56 [INFO ] Autoscoring file: 1 ...
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2021-07-19 18:47:56 [INFO ] Test set (n_night_sleeps=1)
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2021-07-19 18:47:56 [INFO ] (757, 7680, 1, 1)
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2021-07-29 18:22:16 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-07-29 18:22:16 [INFO ] Loading ...
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2021-07-29 18:22:16 [INFO ] Signal file: C:/Users/mahjaf/Downloads/
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2021-07-29 18:22:16 [INFO ] Start datetime: 2021-07-29 14:14:33
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2021-07-29 18:22:16 [INFO ] File duration: 5530 sec
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2021-07-29 18:22:16 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-07-29 18:22:16 [INFO ] Selected channel: EEG L - EEG R
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2021-07-29 18:22:16 [INFO ] Select channel samples: 184 epochs
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2021-07-29 18:22:16 [INFO ] Sampling rate: 256.0 Hz
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2021-07-29 18:22:16 [INFO ]
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=======================================
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2021-07-29 18:22:16 [INFO ] Autoscoring file: 1 ...
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2021-07-29 18:22:16 [INFO ] Test set (n_night_sleeps=1)
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2021-07-29 18:22:16 [INFO ] (184, 7680, 1, 1)
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2021-08-05 12:37:38 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-08-05 12:37:38 [INFO ] Loading ...
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2021-08-05 12:37:38 [INFO ] Signal file: C:/Users/mahjaf/Downloads/
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2021-08-05 12:38:38 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-08-05 12:38:38 [INFO ] Loading ...
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2021-08-05 12:38:38 [INFO ] Signal file: C:/Users/mahjaf/Downloads/
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2021-08-05 12:38:38 [INFO ] Start datetime: 2021-08-05 10:43:50
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2021-08-05 12:38:38 [INFO ] File duration: 6320 sec
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2021-08-05 12:38:38 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-08-05 12:38:39 [INFO ] Selected channel: EEG L - EEG R
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2021-08-05 12:38:39 [INFO ] Select channel samples: 210 epochs
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2021-08-05 12:38:39 [INFO ] Sampling rate: 256.0 Hz
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2021-08-05 12:38:39 [INFO ]
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=======================================
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2021-08-05 12:38:39 [INFO ] Autoscoring file: 1 ...
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2021-08-05 12:38:39 [INFO ] Test set (n_night_sleeps=1)
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2021-08-05 12:38:39 [INFO ] (210, 7680, 1, 1)
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2021-08-05 12:40:48 [INFO ] Best model restored from ./out_QS/train/10\best_ckpt\best_model.ckpt-6601
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2021-08-05 12:40:48 [INFO ] Loading ...
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2021-08-05 12:40:48 [INFO ] Signal file: C:/Users/mahjaf/Downloads/
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2021-08-05 12:40:48 [INFO ] Start datetime: 2021-08-05 10:43:50
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2021-08-05 12:40:48 [INFO ] File duration: 6320 sec
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2021-08-05 12:40:48 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-08-05 12:40:48 [INFO ] Selected channel: EEG L - EEG R
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2021-08-05 12:40:48 [INFO ] Select channel samples: 210 epochs
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2021-08-05 12:40:48 [INFO ] Sampling rate: 256.0 Hz
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2021-08-05 12:40:48 [INFO ]
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=======================================
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2021-08-05 12:40:48 [INFO ] Autoscoring file: 1 ...
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2021-08-05 12:40:48 [INFO ] Test set (n_night_sleeps=1)
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2021-08-05 12:40:48 [INFO ] (210, 7680, 1, 1)
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2021-08-09 13:15:34 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-08-09 13:15:34 [INFO ] Loading ...
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2021-08-09 13:15:34 [INFO ] Signal file: C:\Users\asus\Desktop\dr. dresler\zmax\code\ZmaxDonders\Testing\recording-date-2021-08-05-time-10-43-53 Pilot 2\
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2021-08-09 13:15:34 [INFO ] Start datetime: 2021-08-05 10:43:50
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2021-08-09 13:15:34 [INFO ] File duration: 6320 sec
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2021-08-09 13:15:34 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-08-09 13:15:34 [INFO ] Selected channel: EEG L - EEG R
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2021-08-09 13:15:34 [INFO ] Select channel samples: 210 epochs
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2021-08-09 13:15:34 [INFO ] Sampling rate: 256 Hz
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2021-08-09 13:15:34 [INFO ]
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=======================================
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2021-08-09 13:15:34 [INFO ] Autoscoring file: 1 ...
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2021-08-09 13:15:34 [INFO ] Test set (n_night_sleeps=1)
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2021-08-09 13:15:34 [INFO ] (210, 7680, 1, 1)
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2021-08-09 13:29:20 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-08-09 13:29:20 [INFO ] Loading ...
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2021-08-09 13:29:20 [INFO ] Signal file: C:\Users\asus\Desktop\dr. dresler\zmax\code\ZmaxDonders\Testing\recording-date-2021-08-05-time-10-43-53 Pilot 2\
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2021-08-09 13:29:20 [INFO ] Start datetime: 2021-08-05 10:43:50
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||||
2021-08-09 13:29:20 [INFO ] File duration: 6320 sec
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2021-08-09 13:29:20 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-08-09 13:29:20 [INFO ] Selected channel: EEG L - EEG R
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2021-08-09 13:29:20 [INFO ] Select channel samples: 210 epochs
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2021-08-09 13:29:20 [INFO ] Sampling rate: 256 Hz
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2021-08-09 13:29:20 [INFO ]
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=======================================
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2021-08-09 13:29:20 [INFO ] Autoscoring file: 1 ...
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2021-08-09 13:29:20 [INFO ] Test set (n_night_sleeps=1)
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2021-08-09 13:29:20 [INFO ] (210, 7680, 1, 1)
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2021-08-09 13:30:45 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-08-09 13:30:45 [INFO ] Loading ...
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2021-08-09 13:30:45 [INFO ] Signal file: C:\Users\asus\Desktop\dr. dresler\zmax\code\ZmaxDonders\Testing\recording-date-2021-08-05-time-10-43-53 Pilot 2\
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2021-08-09 13:30:45 [INFO ] Start datetime: 2021-08-05 10:43:50
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2021-08-09 13:30:45 [INFO ] File duration: 6320 sec
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2021-08-09 13:30:45 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-08-09 13:30:45 [INFO ] Selected channel: EEG L - EEG R
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2021-08-09 13:30:45 [INFO ] Select channel samples: 210 epochs
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2021-08-09 13:30:45 [INFO ] Sampling rate: 256 Hz
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2021-08-09 13:30:45 [INFO ]
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=======================================
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2021-08-09 13:30:45 [INFO ] Autoscoring file: 1 ...
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2021-08-09 13:30:45 [INFO ] Test set (n_night_sleeps=1)
|
||||
2021-08-09 13:30:45 [INFO ] (210, 7680, 1, 1)
|
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2021-08-09 13:32:30 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-08-09 13:32:30 [INFO ] Loading ...
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2021-08-09 13:32:30 [INFO ] Signal file: C:\Users\asus\Desktop\dr. dresler\zmax\code\ZmaxDonders\Testing\recording-date-2021-08-05-time-10-43-53 Pilot 2\
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2021-08-09 13:32:30 [INFO ] Start datetime: 2021-08-05 10:43:50
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2021-08-09 13:32:30 [INFO ] File duration: 6320 sec
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||||
2021-08-09 13:32:30 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
|
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2021-08-09 13:32:30 [INFO ] Selected channel: EEG L - EEG R
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2021-08-09 13:32:30 [INFO ] Select channel samples: 210 epochs
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2021-08-09 13:32:30 [INFO ] Sampling rate: 256 Hz
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2021-08-09 13:32:30 [INFO ]
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=======================================
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2021-08-09 13:32:30 [INFO ] Autoscoring file: 1 ...
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2021-08-09 13:32:30 [INFO ] Test set (n_night_sleeps=1)
|
||||
2021-08-09 13:32:30 [INFO ] (210, 7680, 1, 1)
|
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2021-08-09 13:53:26 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
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2021-08-09 13:53:26 [INFO ] Loading ...
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||||
2021-08-09 13:53:26 [INFO ] Signal file: C:\Users\asus\Desktop\dr. dresler\zmax\code\ZmaxDonders\Testing\recording-date-2021-08-05-time-10-43-53 Pilot 2\
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2021-08-09 13:53:26 [INFO ] Start datetime: 2021-08-05 10:43:50
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2021-08-09 13:53:26 [INFO ] File duration: 6320 sec
|
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2021-08-09 13:53:26 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
|
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2021-08-09 13:53:26 [INFO ] Selected channel: EEG L - EEG R
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2021-08-09 13:53:26 [INFO ] Select channel samples: 210 epochs
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2021-08-09 13:53:26 [INFO ] Sampling rate: 256 Hz
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||||
2021-08-09 13:53:26 [INFO ]
|
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=======================================
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|
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2021-08-09 13:53:26 [INFO ] Autoscoring file: 1 ...
|
||||
2021-08-09 13:53:26 [INFO ] Test set (n_night_sleeps=1)
|
||||
2021-08-09 13:53:26 [INFO ] (210, 7680, 1, 1)
|
||||
2021-08-09 13:55:07 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
|
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2021-08-09 13:55:07 [INFO ] Loading ...
|
||||
2021-08-09 13:55:07 [INFO ] Signal file: C:\Users\asus\Desktop\dr. dresler\zmax\code\ZmaxDonders\Testing\recording-date-2021-08-05-time-10-43-53 Pilot 2\
|
||||
2021-08-09 13:55:07 [INFO ] Start datetime: 2021-08-05 10:43:50
|
||||
2021-08-09 13:55:07 [INFO ] File duration: 6320 sec
|
||||
2021-08-09 13:55:07 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
|
||||
2021-08-09 13:55:07 [INFO ] Selected channel: EEG L - EEG R
|
||||
2021-08-09 13:55:07 [INFO ] Select channel samples: 210 epochs
|
||||
2021-08-09 13:55:07 [INFO ] Sampling rate: 256 Hz
|
||||
2021-08-09 13:55:07 [INFO ]
|
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=======================================
|
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|
||||
2021-08-09 13:55:07 [INFO ] Autoscoring file: 1 ...
|
||||
2021-08-09 13:55:07 [INFO ] Test set (n_night_sleeps=1)
|
||||
2021-08-09 13:55:07 [INFO ] (210, 7680, 1, 1)
|
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2021-08-09 14:02:37 [INFO ] Loading new array for prediciton...
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2021-08-09 14:02:37 [INFO ]
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=======================================
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2021-08-09 14:02:37 [INFO ] Initializing the model ...
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2021-08-09 14:02:45 [INFO ] Loading new array for prediciton...
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2021-08-09 14:02:45 [INFO ]
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=======================================
|
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|
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2021-08-09 14:02:45 [INFO ] Initializing the model ...
|
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2021-08-11 11:11:32 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
|
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2021-08-11 11:11:58 [INFO ] Loading ...
|
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2021-08-11 11:11:58 [INFO ] Signal file: C:\Users\asus\Desktop\dr. dresler\zmax\code\ZmaxDonders\Testing\recording-date-2021-08-05-time-10-43-53 Pilot 2\
|
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2021-08-11 11:11:58 [INFO ] Start datetime: 2021-08-05 10:43:50
|
||||
2021-08-11 11:11:58 [INFO ] File duration: 6320 sec
|
||||
2021-08-11 11:11:58 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
|
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2021-08-11 12:45:06 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
|
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2021-08-11 12:45:44 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
|
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2021-08-11 12:45:44 [INFO ] Loading ...
|
||||
2021-08-11 12:45:44 [INFO ] Signal file: C:\Users\asus\Desktop\dr. dresler\zmax\code\ZmaxDonders\Testing\recording-date-2021-08-05-time-10-43-53 Pilot 2\
|
||||
2021-08-11 12:45:44 [INFO ] Start datetime: 2021-08-05 10:43:50
|
||||
2021-08-11 12:45:44 [INFO ] File duration: 6320 sec
|
||||
2021-08-11 12:45:44 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
|
||||
2021-08-11 12:45:44 [INFO ] Selected channel: EEG L - EEG R
|
||||
2021-08-11 12:45:44 [INFO ] Select channel samples: 210 epochs
|
||||
2021-08-11 12:45:44 [INFO ] Sampling rate: 256 Hz
|
||||
2021-08-11 12:45:44 [INFO ]
|
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=======================================
|
||||
|
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2021-08-11 12:45:44 [INFO ] Autoscoring file: 1 ...
|
||||
2021-08-11 12:45:44 [INFO ] Test set (n_night_sleeps=1)
|
||||
2021-08-11 12:45:44 [INFO ] (210, 7680, 1, 1)
|
||||
2021-08-11 12:47:18 [INFO ] Best model restored from ./out_QS/train/4\best_ckpt\best_model.ckpt-16140
|
||||
2021-08-11 12:47:18 [INFO ] Loading ...
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2021-08-11 12:47:18 [INFO ] Signal file: C:\Users\asus\Desktop\dr. dresler\zmax\code\ZmaxDonders\Testing\recording-date-2021-08-05-time-10-43-53 Pilot 2\
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2021-08-11 12:47:18 [INFO ] Start datetime: 2021-08-05 10:43:50
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2021-08-11 12:47:18 [INFO ] File duration: 6320 sec
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2021-08-11 12:47:18 [INFO ] Epoch duration: 30.0 sec (changed from 1 sec)
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2021-08-11 12:47:18 [INFO ] Selected channel: EEG L - EEG R
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2021-08-11 12:47:18 [INFO ] Select channel samples: 210 epochs
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2021-08-11 12:47:18 [INFO ] Sampling rate: 256 Hz
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2021-08-11 12:47:18 [INFO ]
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=======================================
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2021-08-11 12:47:18 [INFO ] Autoscoring file: 1 ...
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2021-08-11 12:47:18 [INFO ] Test set (n_night_sleeps=1)
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2021-08-11 12:47:18 [INFO ] (210, 7680, 1, 1)
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model_checkpoint_path: "best_model.ckpt-6603"
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