thbndi commited on
Commit
08904b5
·
1 Parent(s): f0830d9

Update Mimic4Dataset.py

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  1. Mimic4Dataset.py +12 -9
Mimic4Dataset.py CHANGED
@@ -17,41 +17,43 @@ _HOMEPAGE = "https://huggingface.co/datasets/thbndi/Mimic4Dataset"
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  _CITATION = "https://proceedings.mlr.press/v193/gupta22a.html"
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  _GITHUB = "https://github.com/healthylaife/MIMIC-IV-Data-Pipeline/tree/main"
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- class Mimic4Dataset(datasets.GeneratorBasedBuilder):
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- VERSION = datasets.Version("1.0.0")
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-
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  def __init__(
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  self,
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- mimic_path,
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  #config,
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  **kwargs,
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  ):
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- self.mimic_path = mimic_path
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  super().__init__(**kwargs)
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  #self.config = config
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  #cohort.task_cohort(self.task,self.mimic_path)
 
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  BUILDER_CONFIGS = [
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- datasets.GeneratorBasedBuilder(
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  name="Phenotype",
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  version=VERSION,
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  data_dir=os.path.abspath("./data/dict/cohort_icu_readmission_30_I50"),
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  description="Dataset for mimic4 Phenotype task"
 
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  ),
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- datasets.GeneratorBasedBuilder(
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  name="Readmission",
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  version=VERSION,
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  data_dir=os.path.abspath("./data/dict"),
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  description="Dataset for mimic4 Readmission task",
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  ),
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- datasets.GeneratorBasedBuilder(
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  name="Length of Stay",
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  version=VERSION,
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  data_dir=os.path.abspath("./data/dict"),
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  description="Dataset for mimic4 Length of Stay task",
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  ),
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- datasets.GeneratorBasedBuilder(
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  name="Mortality",
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  version=VERSION,
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  data_dir=os.path.abspath("./data/dict"),
@@ -100,6 +102,7 @@ class Mimic4Dataset(datasets.GeneratorBasedBuilder):
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  def _split_generators(self, dl_manager):
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  data_dir = self.config.data_dir + "/dataDic"
 
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  return [
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  datasets.SplitGenerator(name=datasets.Split.TRAIN, gen_kwargs={"filepath": data_dir}),
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  ]
 
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  _CITATION = "https://proceedings.mlr.press/v193/gupta22a.html"
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  _GITHUB = "https://github.com/healthylaife/MIMIC-IV-Data-Pipeline/tree/main"
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+ class Mimic4DatasetConfig(datasets.BuilderConfig):
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+ """BuilderConfig for Mimic4Dataset."""
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+
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  def __init__(
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  self,
 
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  #config,
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  **kwargs,
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  ):
 
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  super().__init__(**kwargs)
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  #self.config = config
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  #cohort.task_cohort(self.task,self.mimic_path)
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+
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+ class Mimic4Dataset(datasets.GeneratorBasedBuilder):
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+ VERSION = datasets.Version("1.0.0")
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  BUILDER_CONFIGS = [
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+ Mimic4DatasetConfig(
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  name="Phenotype",
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  version=VERSION,
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  data_dir=os.path.abspath("./data/dict/cohort_icu_readmission_30_I50"),
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  description="Dataset for mimic4 Phenotype task"
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+ mimic_path = None
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  ),
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+ Mimic4DatasetConfig(
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  name="Readmission",
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  version=VERSION,
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  data_dir=os.path.abspath("./data/dict"),
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  description="Dataset for mimic4 Readmission task",
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  ),
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+ Mimic4DatasetConfig(
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  name="Length of Stay",
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  version=VERSION,
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  data_dir=os.path.abspath("./data/dict"),
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  description="Dataset for mimic4 Length of Stay task",
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  ),
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+ Mimic4DatasetConfig(
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  name="Mortality",
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  version=VERSION,
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  data_dir=os.path.abspath("./data/dict"),
 
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  def _split_generators(self, dl_manager):
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  data_dir = self.config.data_dir + "/dataDic"
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+ mimic=self.mimic_path
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  return [
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  datasets.SplitGenerator(name=datasets.Split.TRAIN, gen_kwargs={"filepath": data_dir}),
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  ]