pheval 0.5.3__py3-none-any.whl → 0.5.4__py3-none-any.whl

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Files changed (6) hide show
  1. pheval/post_processing/post_processing.py +4 -12
  2. {pheval-0.5.3.dist-info → pheval-0.5.4.dist-info}/METADATA +1 -1
  3. {pheval-0.5.3.dist-info → pheval-0.5.4.dist-info}/RECORD +6 -6
  4. {pheval-0.5.3.dist-info → pheval-0.5.4.dist-info}/LICENSE +0 -0
  5. {pheval-0.5.3.dist-info → pheval-0.5.4.dist-info}/WHEEL +0 -0
  6. {pheval-0.5.3.dist-info → pheval-0.5.4.dist-info}/entry_points.txt +0 -0
pheval/post_processing/post_processing.py CHANGED
@@ -151,6 +151,10 @@ def create_empty_pheval_result(
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  """
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  if result_type in executed_results:
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  return
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+ logger.info(
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+ f"Writing classified results for {len(all_files(phenopacket_dir))} "
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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)
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  classify_method, write_method = _get_result_type(result_type, phenopacket_truth_set)
@@ -180,10 +184,6 @@ def generate_gene_result(
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  phenopacket_dir (Path): Path to the Phenopacket directory
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  """
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  output_file = output_dir.joinpath(f"pheval_gene_results/{result_path.stem}-gene_result.parquet")
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- logger.info(
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- f"Writing classified results for {len(all_files(phenopacket_dir))} "
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- f"phenopackets to {output_dir.joinpath('pheval_gene_results')}"
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- )
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  create_empty_pheval_result(
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  phenopacket_dir, output_dir.joinpath("pheval_gene_results"), ResultType.GENE
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  )
@@ -214,10 +214,6 @@ def generate_variant_result(
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  output_file = output_dir.joinpath(
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  f"pheval_variant_results/{result_path.stem}-variant_result.parquet"
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  )
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- logger.info(
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- f"Writing classified results for {len(all_files(phenopacket_dir))} "
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- f"phenopackets to {output_dir.joinpath('pheval_variant_results')}"
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- )
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  create_empty_pheval_result(
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  phenopacket_dir, output_dir.joinpath("pheval_variant_results"), ResultType.VARIANT
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  )
@@ -250,10 +246,6 @@ def generate_disease_result(
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  output_file = output_dir.joinpath(
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  f"pheval_disease_results/{result_path.stem}-disease_result.parquet"
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  )
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- logger.info(
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- f"Writing classified results for {len(all_files(phenopacket_dir))} "
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- f"phenopackets to {output_dir.joinpath('pheval_disease_results')}"
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- )
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  create_empty_pheval_result(
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  phenopacket_dir, output_dir.joinpath("pheval_disease_results"), ResultType.DISEASE
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  )
{pheval-0.5.3.dist-info → pheval-0.5.4.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: 0.5.3
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+ Version: 0.5.4
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  Summary:
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  Author: Yasemin Bridges
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  Author-email: y.bridges@qmul.ac.uk
{pheval-0.5.3.dist-info → pheval-0.5.4.dist-info}/RECORD RENAMED
@@ -18,7 +18,7 @@ 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/phenopacket_truth_set.py,sha256=EvpfS0NJpcipI1muCtB0PBUghXtktln9vF5PUk57wSM,9412
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- pheval/post_processing/post_processing.py,sha256=_9hvNsUKaQc79EA5SrIjWPxSCnx92mhQtlKV20hth5w,9600
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+ pheval/post_processing/post_processing.py,sha256=Dz_aACNUUG4lw4bCjcIoDRvsZkuemJS4UWnrw_I6qIM,9218
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  pheval/post_processing/validate_result_format.py,sha256=rRlVVIT5ZtdD_Qi0tQVqRSghCrxEDZCKImtw1ygcbtA,2927
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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
@@ -46,8 +46,8 @@ 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=9V6vCT8l1g4O2-ZATYqsVyd7AYZdWGd-Ksy7_oIC3eE,2343
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- pheval-0.5.3.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
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- pheval-0.5.3.dist-info/METADATA,sha256=aoc8FlOraZ8P8ue52XXrsuStu-E7N3-0CpTcCH9LArc,6494
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- pheval-0.5.3.dist-info/WHEEL,sha256=fGIA9gx4Qxk2KDKeNJCbOEwSrmLtjWCwzBz351GyrPQ,88
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- pheval-0.5.3.dist-info/entry_points.txt,sha256=o9gSwDkvT4-lqKy4mlsftd1nzP9WUOXQCfnbqycURd0,81
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- pheval-0.5.3.dist-info/RECORD,,
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+ pheval-0.5.4.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
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+ pheval-0.5.4.dist-info/METADATA,sha256=ICKZja5aFzysmPtQHVLfMb6D5J43nRsPPUeYNLDcoKI,6494
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+ pheval-0.5.4.dist-info/WHEEL,sha256=fGIA9gx4Qxk2KDKeNJCbOEwSrmLtjWCwzBz351GyrPQ,88
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+ pheval-0.5.4.dist-info/entry_points.txt,sha256=o9gSwDkvT4-lqKy4mlsftd1nzP9WUOXQCfnbqycURd0,81
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+ pheval-0.5.4.dist-info/RECORD,,
{pheval-0.5.3.dist-info → pheval-0.5.4.dist-info}/WHEEL RENAMED
File without changes