Update dataset_utils.py

dataset_utils.py

@@ -308,4 +308,77 @@ def generate_ml(dyn,stat,demo,concat_cols,concat):
         
     X_df=pd.concat([dyn_df,stat],axis=1)
     X_df=pd.concat([X_df,demo],axis=1)
-    return X_df    
+    return X_df  
+
+
+def generate_text(data,icd,items,feat_cond,feat_chart,feat_meds, feat_proc, feat_out):
+    #Diagnosis
+    if feat_cond:
+        conds = data['Cond']['fids']
+        cond_text=[]
+        for code in conds:
+            desc = icd[icd['code']==code]
+            if not desc.empty:
+                cond_text.append(desc['description'].to_string(index=False))
+        template = 'The patient is diagnosed with {}.'
+        cond_text = template.format(';'.join(cond_text))
+    else :
+        cond_text=''
+            
+    #chart
+    if feat_chart:  
+        chart = data['Chart']
+        if chart:
+            charts=chart['val']
+            feat=charts.keys()
+            chart_val=[charts[key] for key in feat]
+            chart_mean = [round(np.mean(c),3) for c in chart_val]
+            feat_text = [(items[items['itemid']==f]['label']).to_string(index=False) for f in feat]
+            template='{} for {}'
+            chart_text = []
+            for mean_val, feat_label in zip(chart_mean, feat_text):
+                text = template.format(mean_val,feat_label)
+                chart_text.append(text)
+            chart_text='The chart events mesured are :{}.' + ';'.join(chart_text)
+    else:
+        chart_text=''
+        
+        
+    #meds
+    if feat_meds:  
+        meds = data['Med']
+        if meds:
+            feat=meds['signal'].keys()
+            meds_val=[meds['amount'][key] for key in feat]
+            meds_mean = [round(np.mean(c),3) for c in meds_val]
+            feat_text = [(items[items['itemid']==f]['label']).to_string(index=False) for f in feat]
+            template='{} of {}'
+            meds_text = []
+            for mean_val, feat_label in zip(meds_mean, feat_text):
+                text = template.format(mean_val,feat_label)
+                meds_text.append(text)
+            meds_text='The mean amounts of medications administered during the episode are :{}.' + ';'.join(meds_text)
+        else:
+            meds_text=''
+
+    #proc
+    if feat_proc:  
+        proc = data['Proc']
+        if proc:
+            feat=proc.keys()
+            feat_text = [(items[items['itemid']==f]['label']).to_string(index=False) for f in feat]
+            proc_text='The procedures performed are :{}.' + ';'.join(feat_text)
+    else:
+        proc_text=''
+
+    #out
+    if feat_out:  
+        out = data['Out']
+        if out:
+            feat=out.keys()
+            feat_text = [(items[items['itemid']==f]['label']).to_string(index=False) for f in feat]
+            out_text='The outputs collected are :{}.' + ';'.join(feat_text)
+    else:
+        out_text=''
+
+    return cond_text,chart_text,meds_text,proc_text,out_text