pheval 0.6.0__py3-none-any.whl → 0.6.2__py3-none-any.whl

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Files changed (7) hide show
  1. pheval/post_processing/phenopacket_truth_set.py +3 -1
  2. pheval/post_processing/post_processing.py +5 -2
  3. {pheval-0.6.0.dist-info → pheval-0.6.2.dist-info}/METADATA +1 -1
  4. {pheval-0.6.0.dist-info → pheval-0.6.2.dist-info}/RECORD +7 -7
  5. {pheval-0.6.0.dist-info → pheval-0.6.2.dist-info}/LICENSE +0 -0
  6. {pheval-0.6.0.dist-info → pheval-0.6.2.dist-info}/WHEEL +0 -0
  7. {pheval-0.6.0.dist-info → pheval-0.6.2.dist-info}/entry_points.txt +0 -0
pheval/post_processing/phenopacket_truth_set.py CHANGED
@@ -225,7 +225,9 @@ class PhenopacketTruthSet:
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  pl.lit(0).cast(pl.Int64).alias("rank"),
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  pl.lit(True).alias("true_positive"),
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  pl.col("disease_identifier")
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- .map_elements(lambda x: map_disease_id(x, mondo_mapping_table))
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+ .map_elements(
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+ lambda x: map_disease_id(x, mondo_mapping_table), return_dtype=pl.Utf8
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+ )
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  .alias("mondo_identifier"),
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  ]
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  )
pheval/post_processing/post_processing.py CHANGED
@@ -150,7 +150,10 @@ def _get_result_type(
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  case ResultType.VARIANT:
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  return phenopacket_truth_set.classified_variant, _write_variant_result
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  case ResultType.DISEASE:
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- return phenopacket_truth_set.classified_disease, _write_disease_result
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+ return (
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+ lambda id_: phenopacket_truth_set.classified_disease(id_, mondo_mapping_table),
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+ _write_disease_result,
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+ )
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  def create_empty_pheval_result(
@@ -178,7 +181,7 @@ def create_empty_pheval_result(
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  f"phenopackets to {output_dir}"
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  )
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  executed_results.add(result_type)
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- phenopacket_truth_set = PhenopacketTruthSet(phenopacket_dir, mondo_mapping_table)
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+ phenopacket_truth_set = PhenopacketTruthSet(phenopacket_dir)
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  classify_method, write_method = _get_result_type(result_type, phenopacket_truth_set)
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  for file in all_files(phenopacket_dir):
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  classified_results = classify_method(file.stem)
{pheval-0.6.0.dist-info → pheval-0.6.2.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.3
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  Name: pheval
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- Version: 0.6.0
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+ Version: 0.6.2
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  Summary:
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  Author: Yasemin Bridges
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  Author-email: y.bridges@qmul.ac.uk
{pheval-0.6.0.dist-info → pheval-0.6.2.dist-info}/RECORD RENAMED
@@ -19,8 +19,8 @@ pheval/infra/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  pheval/infra/exomiserdb.py,sha256=pM9-TfjrgurtH4OtM1Enk5oVhIxGQN3rKRlrxHuObTM,5080
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  pheval/post_processing/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  pheval/post_processing/mondo_mapping.py,sha256=Vetk0acOtR__FXnx9wy2pcDDWFz1mQkc88alKUn0muI,937
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- pheval/post_processing/phenopacket_truth_set.py,sha256=oD2072hrv0xdiJdPv8X6bSHPCp771ApgJB9q0ZODqAg,10241
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- pheval/post_processing/post_processing.py,sha256=qxQVq-vPWy8wr1Tqh6KK8J7M_97mYqpsSzKHGrQr5aY,10100
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+ pheval/post_processing/phenopacket_truth_set.py,sha256=xSP9uu6Qxuog4HFXJiRJdBdQXn6GLSKBgSDpH4TtgD4,10301
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+ pheval/post_processing/post_processing.py,sha256=g99MBjGzl5qPi8CK6CLKH0XAFdkt1uSye25VbzqV1Kg,10166
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  pheval/post_processing/validate_result_format.py,sha256=w7zbpbS-fxwQuUwkqJPsD2nQV4SZxxVk3e7-MZEBV8I,2891
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  pheval/prepare/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  pheval/prepare/create_noisy_phenopackets.py,sha256=kYFwQjBJN6gla2I51X3zfucVmnRB7kwH2uqi1ElWzkg,12291
@@ -50,8 +50,8 @@ pheval/utils/logger.py,sha256=5DZl5uMltUDQorhkvg_B7_ZhFwApAmEkWneFIOKfRGQ,1566
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  pheval/utils/phenopacket_utils.py,sha256=XGnFLarvXezFR0W5frzyGTwEbhcA3zuGJPg1r5YBscg,27326
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  pheval/utils/semsim_utils.py,sha256=s7ZCR2VfPYnOh7ApX6rv66eGoVSm9QJaVYOWBEhlXpo,6151
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  pheval/utils/utils.py,sha256=23bQPL-HmzHnMRJSe4doJdj6rtmFyfO77FOH3wyFZZI,4518
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- pheval-0.6.0.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
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- pheval-0.6.0.dist-info/METADATA,sha256=VGQMH-jfJKhkZgcfxP9FfhA9TcV3ykRa_CLnzlQX0Us,6494
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- pheval-0.6.0.dist-info/WHEEL,sha256=b4K_helf-jlQoXBBETfwnf4B04YC67LOev0jo4fX5m8,88
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- pheval-0.6.0.dist-info/entry_points.txt,sha256=o9gSwDkvT4-lqKy4mlsftd1nzP9WUOXQCfnbqycURd0,81
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- pheval-0.6.0.dist-info/RECORD,,
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+ pheval-0.6.2.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
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+ pheval-0.6.2.dist-info/METADATA,sha256=JoaNkCAumkYxaLgAjBL8_dStiIaRxM18wsBER0TQIeA,6494
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+ pheval-0.6.2.dist-info/WHEEL,sha256=b4K_helf-jlQoXBBETfwnf4B04YC67LOev0jo4fX5m8,88
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+ pheval-0.6.2.dist-info/entry_points.txt,sha256=o9gSwDkvT4-lqKy4mlsftd1nzP9WUOXQCfnbqycURd0,81
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+ pheval-0.6.2.dist-info/RECORD,,
{pheval-0.6.0.dist-info → pheval-0.6.2.dist-info}/WHEEL RENAMED
File without changes