Alexander/P-unit_model
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formatting changes in used directories

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a.ott 2020-08-01 12:06:39 +02:00
parent eeb43fd7fc
commit 5f2597381c
4 changed files with 16 additions and 4 deletions
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1
CellData.py
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@ -163,6 +163,7 @@ class CellData:
self.__read_fi_spiketimes_info__() self.__read_fi_spiketimes_info__()
contrast = [] contrast = []
for i in range(len(self.fi_intensities)): for i in range(len(self.fi_intensities)):
contrast.append((self.fi_intensities[i] - self.fi_trans_amplitudes[i]) / self.fi_trans_amplitudes[i]) contrast.append((self.fi_intensities[i] - self.fi_trans_amplitudes[i]) / self.fi_trans_amplitudes[i])
return contrast return contrast

2
analysis.py
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@ -18,7 +18,7 @@ def main():
# args = parser.parse_args() # args = parser.parse_args()
dir_path = "results/invivo_results/" # args.dir dir_path = "results/invivo_results/" # args.dir
# dir_path = "results/results_add__trial_more_iter_NM/invivo_results" # args.dir dir_path = "results/test_data/"
# if not os.path.isdir(dir_path): # if not os.path.isdir(dir_path):
# print("Argument dir is not a directory.") # print("Argument dir is not a directory.")

2
run_cellwise_fitting.sh
View File

@ -1,5 +1,5 @@
for file in data/invivo_bursty/*; do for file in data/test_data/*; do
if [ -d "$file" ]; then if [ -d "$file" ]; then
nice python3 run_Fitter.py --cell $file nice python3 run_Fitter.py --cell $file
fi fi

15
test.py
View File

@ -16,14 +16,25 @@ from scipy.optimize import curve_fit
from scipy.signal import find_peaks from scipy.signal import find_peaks
from thunderfish.eventdetection import threshold_crossing_times, threshold_crossings, detect_peaks from thunderfish.eventdetection import threshold_crossing_times, threshold_crossings, detect_peaks
folder = "./results/invivo_results/2010-11-08-al-invivo-1/" isis = np.random.normal(0, 1, 200000)
bins = np.arange(-5, 5, 0.1)
counts = np.array([np.sum((isis >= b) & (isis < b+0.1)) for b in bins]) / len(isis)
plt.plot(counts)
plt.show()
quit()
folder = "./results/test_data/start_parameter_1_err_28.43"
fit = ModelFit(folder)
print(fit.get_fit_routine_error())
fit.generate_master_plot()
quit()
for item in os.listdir(folder): for item in os.listdir(folder):
fit_path = os.path.join(folder, item) fit_path = os.path.join(folder, item)
fit = ModelFit(fit_path) fit = ModelFit(fit_path)
print(fit.get_fit_routine_error()) print(fit.get_fit_routine_error())
# fit.generate_master_plot() fit.generate_master_plot()
quit() quit()