Update cohort.py

cohort.py

@@ -7,26 +7,29 @@ import shutil
 import time
 import yaml
 
-
-def task_cohort(task,mimic_path,path_benchmark, config):
-    sys.path.append('/preprocessing/day_intervals_preproc')
-    sys.path.append('/utils')
-    sys.path.append('/preprocessing/hosp_module_preproc')
-    sys.path.append('/model')
-    import day_intervals_cohort_v2
-    import day_intervals_cohort
-    import feature_selection_icu
-    import data_generation_icu_modify
+def task_cohort(task,mimic_path,path_benchmark, config_path):
     root_dir = path_benchmark
-    with open(config) as f:
+    config_path=path_benchmark+'/config/'+config_path
+    with open(config_path) as f:
         config = yaml.safe_load(f)
     version_path = mimic_path
     version = version_path.split('/')[-1][0]
     print(version)
 
 if __name__ == '__main__':
+    
+    
     task = sys.argv[1]
     mimic_path = sys.argv[2]
     path_benchmark = sys.argv[3]
     config = sys.argv[4]
+    sys.path.append(path_benchmark+'/preprocessing/day_intervals_preproc')
+    sys.path.append(path_benchmark+'/utils')
+    sys.path.append(path_benchmark+'/preprocessing/hosp_module_preproc')
+    sys.path.append(path_benchmark+'/model')
+    import day_intervals_cohort_v2
+    import day_intervals_cohort
+    import feature_selection_icu
+    import data_generation_icu_modify
+    
     task_cohort(task, mimic_path, path_benchmark, config)