Update Mimic4Dataset.py

Mimic4Dataset.py

@@ -239,6 +239,36 @@ class Mimic4Dataset(datasets.GeneratorBasedBuilder):
                 verif=False
         return verif
 
+        def open_dict(self,cond, proc, out, chart, lab, med):
+            if cond:
+                with open("./data/dict/"+self.config.name.replace(" ","_")+"/condVocab", 'rb') as fp:
+                	condDict = pickle.load(fp)
+            else :
+                condDict=None
+            if proc:
+                with open("./data/dict/"+self.config.name.replace(" ","_")+"/procVocab", 'rb') as fp:
+                    procDict = pickle.load(fp)
+            else :
+                procDict=None
+            if out:
+                with open("./data/dict/"+self.config.name.replace(" ","_")+"/outVocab", 'rb') as fp:
+                    outDic = pickle.load(fp)
+            else :
+                outDic=None
+            if chart:
+                with open("./data/dict/"+self.config.name.replace(" ","_")+"/chartVocab", 'rb') as fp:
+                    chartDic = pickle.load(fp)
+            if lab:
+                with open("./data/dict/"+self.config.name.replace(" ","_")+"/labsVocab", 'rb') as fp:
+                    chartDic = pickle.load(fp)
+            else :
+                chartDic=None
+            if med:
+                with open("./data/dict/"+self.config.name.replace(" ","_")+"/medVocab", 'rb') as fp:
+                    medDict = pickle.load(fp)
+            else :
+                medDict=None
+            return condDict, procDict, outDict, chartDict, medDict
 ###########################################################RAW##################################################################
 
     def _info_raw(self):
@@ -432,11 +462,12 @@ class Mimic4Dataset(datasets.GeneratorBasedBuilder):
         ins_encoder.fit(insVocab)
         with open(filepath, 'rb') as fp:
             dico = pickle.load(fp)
-
+        outDict,chartDict,condDict,procDict,medDict = self.open_dict(self.feat_cond,self.feat_proc,self.feat_out, self.feat_chart, self.feat_lab, self.feat_meds)
         df = pd.DataFrame.from_dict(dico, orient='index')
+            
         for i, data in df.iterrows():
             concat_cols=[]
-            dyn_df,cond_df,demo=concat_data(data,self.config.name.replace(" ","_"),self.feat_cond,self.feat_proc,self.feat_out, self.feat_chart, self.feat_meds,self.feat_lab)
+            dyn_df,cond_df,demo=concat_data(data,self.config.name.replace(" ","_"),self.feat_cond,self.feat_proc,self.feat_out, self.feat_chart, self.feat_meds,self.feat_lab,outDict,chartDict,condDict,procDict,medDict)
             dyn=dyn_df.copy()
             dyn.columns=dyn.columns.droplevel(0)
             cols=dyn.columns
@@ -488,9 +519,9 @@ class Mimic4Dataset(datasets.GeneratorBasedBuilder):
     def _generate_examples_deep(self, filepath):
         with open(filepath, 'rb') as fp:
             dico = pickle.load(fp)
-
+        outDict,chartDict,condDict,procDict,medDict = self.open_dict(self.feat_cond,self.feat_proc,self.feat_out, self.feat_chart, self.feat_lab, self.feat_meds)
         for key, data in dico.items():   
-            stat, demo, meds, chart, out, proc, lab, y = generate_deep(data, self.config.name.replace(" ","_"), self.feat_cond,  self.feat_proc,  self.feat_out,  self.feat_chart, self.feat_meds,self.feat_lab)
+            stat, demo, meds, chart, out, proc, lab, y = generate_deep(data, self.config.name.replace(" ","_"), self.feat_cond,  self.feat_proc,  self.feat_out,  self.feat_chart, self.feat_meds,self.feat_lab,outDict,chartDict,condDict,procDict,medDict)
             
             if self.verif_dim_tensor(proc, out, chart, meds, lab):
                 if self.data_icu: