Update Mimic4Dataset.py

Mimic4Dataset.py

@@ -11,7 +11,7 @@ from sklearn.preprocessing import LabelEncoder
 import yaml
 from .dataset_utils import vocab, concat_data, generate_deep, generate_ml
 from .task_cohort import create_cohort
-from .icd10 import *
+
 
 
 _DESCRIPTION = """\
@@ -507,39 +507,6 @@ class Mimic4Dataset(datasets.GeneratorBasedBuilder):
                         'OUT': out,
                         }          
     
-#############################################################################################################################
-     def _info_text(self):
-       features = datasets.Features(
-           {
-               "label": datasets.ClassLabel(num_classes=2,names=["0", "1"]),
-               "COND" : datasets.Value(dtype='string', id=None),
-           }
-       )
-       return datasets.DatasetInfo(
-           description=_DESCRIPTION,
-           features=features,
-           homepage=_HOMEPAGE,
-           citation=_CITATION,
-       )
-
-    def  _generate_examples_text(self, filepath):
-        icd = pd.read_csv('icd10.txt',names=['code','description'],sep='\t')
-        with open(filepath, 'rb') as fp:
-                dico = pickle.load(fp)
-        for key, data in dico.items():
-            conds = data['Cond']['fids']
-            text=[]
-            for code in conds:
-                desc = icd[icd['code']==code]
-                if not desc.empty:
-                    text.append(desc['description'].to_string(index=False))
-            template = 'The patient is diagnosed with {}.'
-            text = template.format('; '.join(text))
-            
-            yield int(key),{
-                'label' : data['label'],
-                'COND': text,
-            }
 #############################################################################################################################
     def _info(self):
         self.path = self.init_cohort()
@@ -549,10 +516,7 @@ class Mimic4Dataset(datasets.GeneratorBasedBuilder):
         
         elif self.encoding == 'tensor' :
             return self._info_deep()
-            
-        elif self.encoding == 'text' :
-            return self._info_text()
-            
+        
         else:
             return self._info_raw()
 
@@ -577,9 +541,5 @@ class Mimic4Dataset(datasets.GeneratorBasedBuilder):
         
         elif self.encoding == 'tensor' :
             yield from self._generate_examples_deep(filepath)
-
-        elif self.encoding == 'text' :
-            yield from self._generate_examples_text(filepath)
-            
         else :
             yield from self._generate_examples_raw(filepath)