Update cohort.py

cohort.py

@@ -9,7 +9,7 @@ import yaml
 import os
 
 def task_cohort(task,mimic_path,path_benchmark, config_path):
-    root_dir = os.getcwd()
+    root_dir = os.path.dirname(os.path.abspath('UserInterface.ipynb'))
     config_path='./config/'+config_path
     with open(config_path) as f:
         config = yaml.safe_load(f)
@@ -53,9 +53,9 @@ def task_cohort(task,mimic_path,path_benchmark, config_path):
 
     #-----------------------------------------------EXTRACT MIMIC-----------------------------------------------------
     if version == '2':
-        cohort_output = day_intervals_cohort_v22.extract_data(icu_no_icu,label,tim,icd_code, version_path,disease_label)
+        cohort_output = day_intervals_cohort_v22.extract_data(icu_no_icu,label,tim,icd_code, root_dir,disease_label)
     elif version == '1':
-        cohort_output = day_intervals_cohort.extract_data(icu_no_icu,label,tim,icd_code, version_path,disease_label)
+        cohort_output = day_intervals_cohort.extract_data(icu_no_icu,label,tim,icd_code, root_dir,disease_label)
     end = time.time()
     print("Time elapsed : ", round((end - start)/60,2),"mins")
     #----------------------------------------------FEATURES-------------------------------------------------------