Update day_intervals_cohort_v22.py

day_intervals_cohort_v22.py

@@ -187,18 +187,7 @@ def partition_by_mort(df:pd.DataFrame, group_col:str, visit_col:str, admit_col:s
 
     cohort = df.loc[(~df[admit_col].isna()) & (~df[disch_col].isna())]
     
-#     cohort["label"] = (
-#         (~cohort[death_col].isna())
-#         & (cohort[death_col] >= cohort[admit_col])
-#         & (cohort[death_col] <= cohort[disch_col])
-#     )
-#     cohort["label"] = cohort["label"].astype("Int32")
-    #print("cohort",cohort.shape)
-    #print(np.where(~cohort[death_col].isna(),1,0))
-    #print(np.where(cohort.loc[death_col] >= cohort.loc[admit_col],1,0))
-    #print(np.where(cohort.loc[death_col] <= cohort.loc[disch_col],1,0))
     cohort['label']=0
-    #cohort=cohort.fillna(0)
     pos_cohort=cohort[~cohort[death_col].isna()]
     neg_cohort=cohort[cohort[death_col].isna()]
     neg_cohort=neg_cohort.fillna(0)
@@ -322,7 +311,7 @@ def extract_data(use_ICU:str, label:str, time:int, icd_code:str, root_dir,mimic_
         disease_label=disease_label,
         use_ICU=use_ICU
     )
-    print("v22 fin get_visit_pts")
+
     
     # cols to be extracted from get_case_ctrls
     cols = [group_col, visit_col, admit_col, disch_col, 'Age','gender','ethnicity','insurance','label']
@@ -339,7 +328,7 @@ def extract_data(use_ICU:str, label:str, time:int, icd_code:str, root_dir,mimic_
     
     if use_ICU:
         cols.append(adm_visit_col)
-    print('saving summary')
+
     
     if use_disease:
         hids=disease_cohort.extract_diag_cohort(cohort['hadm_id'],icd_code,mimic_path)
@@ -365,7 +354,7 @@ def extract_data(use_ICU:str, label:str, time:int, icd_code:str, root_dir,mimic_
         f.write(summary)
 
     print("[ SUMMARY SUCCESSFULLY SAVED ]")
-    print(summary)
+
 
     return cohort_output