pheval 0.6.0__tar.gz → 0.6.1__tar.gz

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Files changed (56) hide show
  1. {pheval-0.6.0 → pheval-0.6.1}/PKG-INFO +1 -1
  2. {pheval-0.6.0 → pheval-0.6.1}/pyproject.toml +1 -1
  3. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/post_processing/post_processing.py +1 -1
  4. {pheval-0.6.0 → pheval-0.6.1}/LICENSE +0 -0
  5. {pheval-0.6.0 → pheval-0.6.1}/README.md +0 -0
  6. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/__init__.py +0 -0
  7. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/__init__.py +0 -0
  8. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/benchmark.py +0 -0
  9. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/benchmark_db_manager.py +0 -0
  10. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/benchmark_output_type.py +0 -0
  11. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/binary_classification_curves.py +0 -0
  12. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/binary_classification_stats.py +0 -0
  13. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/generate_plots.py +0 -0
  14. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/generate_rank_comparisons.py +0 -0
  15. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/rank_stats.py +0 -0
  16. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/analyse/run_data_parser.py +0 -0
  17. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/cli.py +0 -0
  18. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/cli_pheval.py +0 -0
  19. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/cli_pheval_utils.py +0 -0
  20. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/config_parser.py +0 -0
  21. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/implementations/__init__.py +0 -0
  22. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/implementations/pheval_class_resolver.py +0 -0
  23. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/infra/__init__.py +0 -0
  24. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/infra/exomiserdb.py +0 -0
  25. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/post_processing/__init__.py +0 -0
  26. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/post_processing/mondo_mapping.py +0 -0
  27. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/post_processing/phenopacket_truth_set.py +0 -0
  28. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/post_processing/validate_result_format.py +0 -0
  29. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/prepare/__init__.py +0 -0
  30. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/prepare/create_noisy_phenopackets.py +0 -0
  31. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/prepare/create_spiked_vcf.py +0 -0
  32. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/prepare/custom_exceptions.py +0 -0
  33. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/prepare/prepare_corpus.py +0 -0
  34. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/prepare/update_phenopacket.py +0 -0
  35. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/alternate_ouputs/CADA_results.txt +0 -0
  36. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/alternate_ouputs/DeepPVP_results.txt +0 -0
  37. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/alternate_ouputs/OVA_results.txt +0 -0
  38. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/alternate_ouputs/Phen2Gene_results.json +0 -0
  39. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/alternate_ouputs/Phenolyzer_results.txt +0 -0
  40. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/alternate_ouputs/lirical_results.tsv +0 -0
  41. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/alternate_ouputs/svanna_results.tsv +0 -0
  42. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/hgnc_complete_set.txt +0 -0
  43. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/metadata.json +0 -0
  44. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/resources/mondo.sssom.tsv +0 -0
  45. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/run_metadata.py +0 -0
  46. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/runners/__init__.py +0 -0
  47. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/runners/runner.py +0 -0
  48. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/__init__.py +0 -0
  49. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/docs_gen.py +0 -0
  50. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/docs_gen.sh +0 -0
  51. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/exomiser.py +0 -0
  52. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/file_utils.py +0 -0
  53. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/logger.py +0 -0
  54. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/phenopacket_utils.py +0 -0
  55. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/semsim_utils.py +0 -0
  56. {pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/utils.py +0 -0
{pheval-0.6.0 → pheval-0.6.1}/PKG-INFO 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: 0.6.1
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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 → pheval-0.6.1}/pyproject.toml RENAMED
@@ -1,6 +1,6 @@
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  [tool.poetry]
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  name = "pheval"
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- version = "0.6.0"
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+ version = "0.6.1"
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  description = ""
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  authors = ["Yasemin Bridges <y.bridges@qmul.ac.uk>",
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  "Julius Jacobsen <j.jacobsen@qmul.ac.uk>",
{pheval-0.6.0 → pheval-0.6.1}/src/pheval/post_processing/post_processing.py RENAMED
@@ -178,7 +178,7 @@ 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 → pheval-0.6.1}/LICENSE RENAMED
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{pheval-0.6.0 → pheval-0.6.1}/README.md RENAMED
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{pheval-0.6.0 → pheval-0.6.1}/src/pheval/__init__.py RENAMED
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{pheval-0.6.0 → pheval-0.6.1}/src/pheval/cli.py RENAMED
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{pheval-0.6.0 → pheval-0.6.1}/src/pheval/cli_pheval.py RENAMED
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{pheval-0.6.0 → pheval-0.6.1}/src/pheval/utils/utils.py RENAMED
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