fix all shallow models

mimic3_experiments/3_ML_models/lib/data.py

@@ -161,7 +161,7 @@ class _Mimic3Reader(object):
         self.timestep = timestep
         
         start_time = time.time()
-        self.df_label = pd.read_csv(data_path + 'population/{}_{}h.csv'.format(task, duration)).rename(columns={'{}_LABEL'.format(task): 'LABEL'})
+        self.df_label = pd.read_csv(data_path + 'population/{}_{}h.csv'.format(task, duration)).rename(columns={'ID': 'ICUSTAY_ID', '{}_LABEL'.format(task): 'LABEL'})
         self.df_subjects = pd.read_csv(data_path + 'prep/icustays_MV.csv').merge(self.df_label, on='ICUSTAY_ID', how='right')
         self.df_subject_label = self.df_subjects[['SUBJECT_ID', 'ICUSTAY_ID']] \
                                 .merge(self.df_label, on='ICUSTAY_ID', how='right') \

mimic3_experiments/3_ML_models/run_shallow_all.sh

@@ -6,7 +6,7 @@ mkdir -p output
 python run_shallow.py --outcome=mortality --T=48.0 --dt=1.0 --model_type=LR \
     >  >(tee 'log/outcome=mortality,T=48.0,dt=1.0,LR.out') \
     2> >(tee 'log/outcome=mortality,T=48.0,dt=1.0,LR.err' >&2)
-python run_shallow.py --outcome=mortality --T=48.0. --dt=1.0 --model_type=RF \
+python run_shallow.py --outcome=mortality --T=48.0 --dt=1.0 --model_type=RF \
     >  >(tee 'log/outcome=mortality,T=48.0,dt=1.0,RF.out') \
     2> >(tee 'log/outcome=mortality,T=48.0,dt=1.0,RF.err' >&2)