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update parsing imports

#2
by gabrielaltay - opened
Files changed (1) hide show
  1. anat_em.py +6 -3
anat_em.py CHANGED
@@ -27,6 +27,9 @@ import datasets
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  from .bigbiohub import kb_features
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  from .bigbiohub import BigBioConfig
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  from .bigbiohub import Tasks
 
 
 
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  _LANGUAGES = ['English']
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  _PUBMED = True
@@ -154,7 +157,7 @@ class AnatEMDataset(datasets.GeneratorBasedBuilder):
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  continue
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  # Read brat annotations for the given text file and convert example to the source format
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- brat_example = parsing.parse_brat_file(file)
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  source_example = self._to_source_example(file, brat_example)
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  yield source_example["document_id"], source_example
@@ -166,8 +169,8 @@ class AnatEMDataset(datasets.GeneratorBasedBuilder):
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  continue
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  # Read brat annotations for the given text file and convert example to the BigBio-KB format
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- brat_example = parsing.parse_brat_file(file)
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- kb_example = parsing.brat_parse_to_bigbio_kb(brat_example)
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  kb_example["id"] = kb_example["document_id"]
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  # Fix text type annotation for the converted example
 
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  from .bigbiohub import kb_features
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  from .bigbiohub import BigBioConfig
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  from .bigbiohub import Tasks
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+ from .bigbiohub import parse_brat_file
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+ from .bigbiohub import brat_parse_to_bigbio_kb
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+
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  _LANGUAGES = ['English']
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  _PUBMED = True
 
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  continue
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  # Read brat annotations for the given text file and convert example to the source format
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+ brat_example = parse_brat_file(file)
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  source_example = self._to_source_example(file, brat_example)
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  yield source_example["document_id"], source_example
 
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  continue
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  # Read brat annotations for the given text file and convert example to the BigBio-KB format
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+ brat_example = parse_brat_file(file)
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+ kb_example = brat_parse_to_bigbio_kb(brat_example)
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  kb_example["id"] = kb_example["document_id"]
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  # Fix text type annotation for the converted example