deriva-ml 1.14.31__tar.gz → 1.14.32__tar.gz

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Files changed (110) hide show
  1. {deriva_ml-1.14.31/src/deriva_ml.egg-info → deriva_ml-1.14.32}/PKG-INFO +2 -1
  2. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/pyproject.toml +2 -1
  3. {deriva_ml-1.14.31 → deriva_ml-1.14.32/src/deriva_ml.egg-info}/PKG-INFO +2 -1
  4. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml.egg-info/requires.txt +1 -0
  5. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/execution/test_execution.py +2 -10
  6. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/test_utils.py +1 -1
  7. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/uv.lock +15 -13
  8. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/.github/release-drafter.yml +0 -0
  9. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/.github/workflows/publish-docs.yml +0 -0
  10. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/.github/workflows/release.yml +0 -0
  11. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/.gitignore +0 -0
  12. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/LICENSE +0 -0
  13. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/README.md +0 -0
  14. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/.DS_Store +0 -0
  15. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/Notebooks/DerivaML Create Notes.ipynb +0 -0
  16. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/Notebooks/DerivaML Dataset.ipynb +0 -0
  17. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/Notebooks/DerivaML Execution.ipynb +0 -0
  18. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/Notebooks/DerivaML Features.ipynb +0 -0
  19. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/Notebooks/DerivaML Ingest.ipynb +0 -0
  20. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/Notebooks/DerivaML Vocabulary.ipynb +0 -0
  21. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/assets/ERD.png +0 -0
  22. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/assets/Launcher.png +0 -0
  23. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/assets/copy_minid.png +0 -0
  24. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/assets/deriva-logo.png +0 -0
  25. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/assets/deriva-ml.pdf +0 -0
  26. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/assets/sharing-at-home.pdf +0 -0
  27. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/dataset.md +0 -0
  28. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/dataset_aux_classes.md +0 -0
  29. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/dataset_bag.md +0 -0
  30. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/deriva_definitions.md +0 -0
  31. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/deriva_ml_base.md +0 -0
  32. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/deriva_model.md +0 -0
  33. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/execution.md +0 -0
  34. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/execution_configuration.md +0 -0
  35. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/feature.md +0 -0
  36. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/code-docs/upload.md +0 -0
  37. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/index.md +0 -0
  38. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/release-notes.md +0 -0
  39. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/user-guide/datasets.md +0 -0
  40. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/user-guide/deriva_ml_structure.md +0 -0
  41. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/user-guide/execution-configuration.md +0 -0
  42. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/user-guide/file-assets.md +0 -0
  43. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/user-guide/identifiers.md +0 -0
  44. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/user-guide/install.md +0 -0
  45. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/user-guide/notebooks.md +0 -0
  46. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/docs/user-guide/overview.md +0 -0
  47. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/mkdocs.yml +0 -0
  48. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/release.sh +0 -0
  49. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/setup.cfg +0 -0
  50. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/__init__.py +0 -0
  51. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/core/__init__.py +0 -0
  52. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/core/base.py +0 -0
  53. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/core/constants.py +0 -0
  54. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/core/definitions.py +0 -0
  55. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/core/enums.py +0 -0
  56. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/core/ermrest.py +0 -0
  57. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/core/exceptions.py +0 -0
  58. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/core/filespec.py +0 -0
  59. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/dataset/__init__.py +0 -0
  60. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/dataset/aux_classes.py +0 -0
  61. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/dataset/dataset.py +0 -0
  62. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/dataset/dataset_bag.py +0 -0
  63. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/dataset/history.py +0 -0
  64. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/dataset/upload.py +0 -0
  65. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/demo_catalog.py +0 -0
  66. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/execution/__init__.py +0 -0
  67. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/execution/environment.py +0 -0
  68. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/execution/execution.py +0 -0
  69. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/execution/execution_configuration.py +0 -0
  70. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/execution/workflow.py +0 -0
  71. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/feature.py +0 -0
  72. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/model/__init__.py +0 -0
  73. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/model/catalog.py +0 -0
  74. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/model/database.py +0 -0
  75. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/model/sql_mapper.py +0 -0
  76. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/run_notebook.py +0 -0
  77. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/schema/__init__.py +0 -0
  78. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/schema/annotations.py +0 -0
  79. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/schema/check_schema.py +0 -0
  80. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/schema/create_schema.py +0 -0
  81. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/schema/deriva-ml-reference.json +0 -0
  82. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/schema/policy.json +0 -0
  83. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml/schema/table_comments_utils.py +0 -0
  84. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml.egg-info/SOURCES.txt +0 -0
  85. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml.egg-info/dependency_links.txt +0 -0
  86. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml.egg-info/entry_points.txt +0 -0
  87. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/src/deriva_ml.egg-info/top_level.txt +0 -0
  88. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/__init__.py +0 -0
  89. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/conftest.py +0 -0
  90. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/core/__init__.py +0 -0
  91. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/core/test_basic_tables.py +0 -0
  92. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/core/test_file.py +0 -0
  93. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/core/test_vocabulary.py +0 -0
  94. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/dataset/__init__.py +0 -0
  95. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/dataset/demo-catalog-schema.json +0 -0
  96. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/dataset/deriva-ml-reference.json +0 -0
  97. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/dataset/eye-ai-catalog-schema.json +0 -0
  98. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/dataset/test_dataset_export.py +0 -0
  99. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/dataset/test_dataset_version.py +0 -0
  100. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/dataset/test_datasets.py +0 -0
  101. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/dataset/test_download.py +0 -0
  102. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/execution/__init__.py +0 -0
  103. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/execution/workflow-test.ipynb +0 -0
  104. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/execution/workflow-test.py +0 -0
  105. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/feature/test_features.py +0 -0
  106. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/model/__init__.py +0 -0
  107. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/model/test_database.py +0 -0
  108. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/model/test_models.py +0 -0
  109. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/test-files/execution-parameters.json +0 -0
  110. {deriva_ml-1.14.31 → deriva_ml-1.14.32}/tests/test-files/notebook-parameters.json +0 -0
@@ -1,11 +1,12 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: deriva-ml
3
- Version: 1.14.31
3
+ Version: 1.14.32
4
4
  Summary: Utilities to simplify use of Dervia and Pandas to create reproducable ML pipelines
5
5
  Author-email: ISRD <isrd-dev@isi.edu>
6
6
  Requires-Python: >=3.10
7
7
  Description-Content-Type: text/markdown
8
8
  License-File: LICENSE
9
+ Requires-Dist: bump-my-version
9
10
  Requires-Dist: deriva~=1.7.10
10
11
  Requires-Dist: deepdiff
11
12
  Requires-Dist: pandas
@@ -8,6 +8,7 @@ description = "Utilities to simplify use of Dervia and Pandas to create reproduc
8
8
  readme = "README.md"
9
9
  requires-python = ">=3.10"
10
10
  dependencies = [
11
+ "bump-my-version",
11
12
  "deriva~=1.7.10",
12
13
  "deepdiff",
13
14
  "pandas",
@@ -89,8 +90,8 @@ keywords = ["deriva-ml"]
89
90
 
90
91
  [dependency-groups]
91
92
  dev = [
92
- "bump-my-version",
93
93
  "icecream>=2.1.4",
94
+ "ipykernel",
94
95
  "jupyter>=1.1.1",
95
96
  "mkdocs-jupyter",
96
97
  "mkdocstrings[python]",
@@ -1,11 +1,12 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: deriva-ml
3
- Version: 1.14.31
3
+ Version: 1.14.32
4
4
  Summary: Utilities to simplify use of Dervia and Pandas to create reproducable ML pipelines
5
5
  Author-email: ISRD <isrd-dev@isi.edu>
6
6
  Requires-Python: >=3.10
7
7
  Description-Content-Type: text/markdown
8
8
  License-File: LICENSE
9
+ Requires-Dist: bump-my-version
9
10
  Requires-Dist: deriva~=1.7.10
10
11
  Requires-Dist: deepdiff
11
12
  Requires-Dist: pandas
@@ -1,3 +1,4 @@
1
+ bump-my-version
1
2
  deriva~=1.7.10
2
3
  deepdiff
3
4
  pandas
@@ -2,7 +2,6 @@
2
2
  Tests for the execution module.
3
3
  """
4
4
 
5
- import json
6
5
  import subprocess
7
6
  from tempfile import TemporaryDirectory
8
7
 
@@ -61,7 +60,7 @@ class TestWorkflow:
61
60
  new_workflow = result.stdout.strip()
62
61
  assert new_workflow == workflow_rid
63
62
 
64
- def test_workflow_creation_notebook(self, test_ml, tmp_path):
63
+ def test_workflow_creation_notebook(self, test_ml):
65
64
  ml_instance = test_ml
66
65
  ml_instance.add_term(vc.asset_type, "Test Model", description="Model for our Test workflow")
67
66
  ml_instance.add_term(vc.workflow_type, "Test Workflow", description="A ML Workflow that uses Deriva ML API")
@@ -69,10 +68,6 @@ class TestWorkflow:
69
68
  workflows = list(workflow_table.entities().fetch())
70
69
  assert 0 == len(workflows)
71
70
 
72
- config_file = tmp_path / "config.json"
73
- with config_file.open("w") as fp:
74
- json.dump({"host": ml_instance.catalog.deriva_server.server, "catalog_id": ml_instance.catalog_id}, fp)
75
-
76
71
  print("Running notebook...")
77
72
  result = subprocess.run(
78
73
  [
@@ -87,14 +82,11 @@ class TestWorkflow:
87
82
  capture_output=True,
88
83
  text=True,
89
84
  )
90
- print(result)
91
85
  workflows = list(workflow_table.entities().fetch())
92
86
  assert 1 == len(workflows)
93
87
  workflow_rid = workflows[0]["RID"]
94
88
  workflow_url = workflows[0]["URL"]
95
-
96
- print(workflow_url)
97
- print(workflow_rid)
89
+ assert workflow_url.endswith("workflow-test.ipynb")
98
90
 
99
91
 
100
92
  class TestExecution:
@@ -42,7 +42,7 @@ class MLCatalog:
42
42
  pb = self.catalog.getPathBuilder()
43
43
  ml_path = pb.schemas["deriva-ml"]
44
44
  domain_path = pb.schemas[self.domain_schema]
45
- for t in ["Dataset_Execution", "Dataset_Version", "Dataset_Dataset"]:
45
+ for t in ["Dataset_Execution", "Dataset_Version", "Dataset_Dataset", "Workflow", "Workflow_Execution"]:
46
46
  try:
47
47
  ml_path.tables[t].path.delete()
48
48
  except DataPathException:
@@ -22,13 +22,13 @@ name = "aiohttp"
22
22
  version = "3.12.15"
23
23
  source = { registry = "https://pypi.org/simple" }
24
24
  dependencies = [
25
- { name = "aiohappyeyeballs", marker = "python_full_version >= '3.12'" },
26
- { name = "aiosignal", marker = "python_full_version >= '3.12'" },
27
- { name = "attrs", marker = "python_full_version >= '3.12'" },
28
- { name = "frozenlist", marker = "python_full_version >= '3.12'" },
29
- { name = "multidict", marker = "python_full_version >= '3.12'" },
30
- { name = "propcache", marker = "python_full_version >= '3.12'" },
31
- { name = "yarl", marker = "python_full_version >= '3.12'" },
25
+ { name = "aiohappyeyeballs", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
26
+ { name = "aiosignal", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
27
+ { name = "attrs", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
28
+ { name = "frozenlist", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
29
+ { name = "multidict", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
30
+ { name = "propcache", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
31
+ { name = "yarl", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
32
32
  ]
33
33
  sdist = { url = "https://files.pythonhosted.org/packages/9b/e7/d92a237d8802ca88483906c388f7c201bbe96cd80a165ffd0ac2f6a8d59f/aiohttp-3.12.15.tar.gz", hash = "sha256:4fc61385e9c98d72fcdf47e6dd81833f47b2f77c114c29cd64a361be57a763a2", size = 7823716, upload-time = "2025-07-29T05:52:32.215Z" }
34
34
  wheels = [
@@ -107,7 +107,7 @@ name = "aiosignal"
107
107
  version = "1.4.0"
108
108
  source = { registry = "https://pypi.org/simple" }
109
109
  dependencies = [
110
- { name = "frozenlist", marker = "python_full_version >= '3.12'" },
110
+ { name = "frozenlist", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
111
111
  { name = "typing-extensions", marker = "python_full_version == '3.12.*'" },
112
112
  ]
113
113
  sdist = { url = "https://files.pythonhosted.org/packages/61/62/06741b579156360248d1ec624842ad0edf697050bbaf7c3e46394e106ad1/aiosignal-1.4.0.tar.gz", hash = "sha256:f47eecd9468083c2029cc99945502cb7708b082c232f9aca65da147157b251c7", size = 25007, upload-time = "2025-07-03T22:54:43.528Z" }
@@ -775,6 +775,7 @@ wheels = [
775
775
  name = "deriva-ml"
776
776
  source = { editable = "." }
777
777
  dependencies = [
778
+ { name = "bump-my-version" },
778
779
  { name = "deepdiff" },
779
780
  { name = "deriva" },
780
781
  { name = "nbstripout" },
@@ -790,8 +791,8 @@ dependencies = [
790
791
 
791
792
  [package.dev-dependencies]
792
793
  dev = [
793
- { name = "bump-my-version" },
794
794
  { name = "icecream" },
795
+ { name = "ipykernel" },
795
796
  { name = "jupyter" },
796
797
  { name = "mkdocs-jupyter" },
797
798
  { name = "mkdocs-material" },
@@ -806,6 +807,7 @@ lint = [
806
807
 
807
808
  [package.metadata]
808
809
  requires-dist = [
810
+ { name = "bump-my-version" },
809
811
  { name = "deepdiff" },
810
812
  { name = "deriva", specifier = "~=1.7.10" },
811
813
  { name = "nbstripout" },
@@ -821,8 +823,8 @@ requires-dist = [
821
823
 
822
824
  [package.metadata.requires-dev]
823
825
  dev = [
824
- { name = "bump-my-version" },
825
826
  { name = "icecream", specifier = ">=2.1.4" },
827
+ { name = "ipykernel" },
826
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  { name = "jupyter", specifier = ">=1.1.1" },
827
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  { name = "mkdocs-jupyter" },
828
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  { name = "mkdocs-material" },
@@ -3605,9 +3607,9 @@ name = "yarl"
3605
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  version = "1.20.1"
3606
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  source = { registry = "https://pypi.org/simple" }
3607
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  dependencies = [
3608
- { name = "idna", marker = "python_full_version >= '3.12'" },
3609
- { name = "multidict", marker = "python_full_version >= '3.12'" },
3610
- { name = "propcache", marker = "python_full_version >= '3.12'" },
3610
+ { name = "idna", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
3611
+ { name = "multidict", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
3612
+ { name = "propcache", marker = "python_full_version >= '3.12' and python_full_version < '3.14'" },
3611
3613
  ]
3612
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  sdist = { url = "https://files.pythonhosted.org/packages/3c/fb/efaa23fa4e45537b827620f04cf8f3cd658b76642205162e072703a5b963/yarl-1.20.1.tar.gz", hash = "sha256:d017a4997ee50c91fd5466cef416231bb82177b93b029906cefc542ce14c35ac", size = 186428, upload-time = "2025-06-10T00:46:09.923Z" }
3613
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  wheels = [
File without changes
File without changes
File without changes
File without changes
File without changes
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