formatting changes in used directories

CellData.py

@@ -163,6 +163,7 @@ class CellData:
         self.__read_fi_spiketimes_info__()
         contrast = []
         for i in range(len(self.fi_intensities)):
+
             contrast.append((self.fi_intensities[i] - self.fi_trans_amplitudes[i]) / self.fi_trans_amplitudes[i])
 
         return contrast

analysis.py

@@ -18,7 +18,7 @@ def main():
     # args = parser.parse_args()
 
     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):
     #     print("Argument dir is not a directory.")

run_cellwise_fitting.sh

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

test.py

@@ -16,14 +16,25 @@ from scipy.optimize import curve_fit
 from scipy.signal import find_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):
     fit_path = os.path.join(folder, item)
 
     fit = ModelFit(fit_path)
     print(fit.get_fit_routine_error())
-    # fit.generate_master_plot()
+    fit.generate_master_plot()
 
 
 quit()