push before migration

uncertainty/scripts/Names.csv

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+patient;year;t2;adc;high_b

uncertainty/scripts/select_data.py

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+import glob
+import csv 
+
+directories = {}
+directories['patient'] = []
+directories['year'] = []
+directories['t2'] = []
+directories['adc'] = []
+directories['high_b'] = [] 
+
+# for patient in patients: 
+#     for year in mri_d:
+        # x = glob.glob('/data/pca-rad/dataset/datasets/anonymized_mri/only_nii_directory/{patient}/{year}/')
+
+path = '../../../datasets/anonymized_mri/only_nii_directory/*/*'
+x = glob.glob('../../../datasets/anonymized_mri/only_nii_directory/*/*')
+
+for patient_year in sorted(x): 
+    directories['patient'].append(patient_year.split('/')[-2])
+    directories['year'].append(patient_year.split('/')[-1])
+    for string in sorted(glob.glob(f'../../../datasets/anonymized_mri/only_nii_directory/{patient_year.split("/")[-2]}/{patient_year.split("/")[-1]}/*/*')):
+        if 'T2' in string or 't2' in string:
+            if ('tra' in string):
+                if not ('seg' in string):
+                    directories['t2'].append(string)
+                    # input(string)
+                    # input(patient_year)
+
+    for string in sorted(glob.glob(f'../../../datasets/anonymized_mri/only_nii_directory/{patient_year.split("/")[-2]}/{patient_year.split("/")[-1]}/*')):
+        if 'manual_adc' in string:
+            directories['adc'].append(string)
+        if 'manual_b-1400' in string:
+            directories['high_b'].append(string)
+
+
+print(len(x))
+print(len(directories['t2']))
+print(len(directories['adc']))
+print(len(directories['high_b']))
+
+print(directories)
+with open('test.csv', 'w') as f:
+    for key in directories.keys():
+        f.write("%s,%s\n"%(key,directories[key]))
+# with open('dict.csv', 'w') as csv_file:  
+#     writer = csv.writer(csv_file)
+#     for key, value in directories.items():
+#        writer.writerow([key, value])
+# break 
+# with open('Names.csv', 'w', newline='') as csvfile:
+#     writer = csv.DictWriter(csvfile, fieldnames=['patient','year','t2','adc','high_b'], delimiter=';')
+#     writer.writeheader()
+#     writer.writerows(directories)
+
+# give patients with incomplete exam