ddi-fw 0.0.150__tar.gz → 0.0.151__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (108) hide show
  1. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/PKG-INFO +1 -1
  2. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/pyproject.toml +1 -1
  3. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/pipeline/pipeline.py +16 -10
  4. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw.egg-info/PKG-INFO +1 -1
  5. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/README.md +0 -0
  6. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/setup.cfg +0 -0
  7. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/__init__.py +0 -0
  8. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/core.py +0 -0
  9. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/dataset_splitter.py +0 -0
  10. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/db_utils.py +0 -0
  11. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/base.py +0 -0
  12. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/data/event.db +0 -0
  13. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/debug.log +0 -0
  14. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/test_indexes.txt +0 -0
  15. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_0.txt +0 -0
  16. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_1.txt +0 -0
  17. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_2.txt +0 -0
  18. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_3.txt +0 -0
  19. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_4.txt +0 -0
  20. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/train_indexes.txt +0 -0
  21. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_0.txt +0 -0
  22. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_1.txt +0 -0
  23. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_2.txt +0 -0
  24. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_3.txt +0 -0
  25. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_4.txt +0 -0
  26. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/test_indexes.txt +0 -0
  27. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_0.txt +0 -0
  28. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_1.txt +0 -0
  29. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_2.txt +0 -0
  30. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_3.txt +0 -0
  31. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_4.txt +0 -0
  32. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_indexes.txt +0 -0
  33. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_0.txt +0 -0
  34. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_1.txt +0 -0
  35. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_2.txt +0 -0
  36. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_3.txt +0 -0
  37. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_4.txt +0 -0
  38. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl/readme.md +0 -0
  39. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/base.py +0 -0
  40. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/data/event.db +0 -0
  41. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/test_indexes.txt +0 -0
  42. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_0.txt +0 -0
  43. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_1.txt +0 -0
  44. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_2.txt +0 -0
  45. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_3.txt +0 -0
  46. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_4.txt +0 -0
  47. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_indexes.txt +0 -0
  48. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_0.txt +0 -0
  49. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_1.txt +0 -0
  50. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_2.txt +0 -0
  51. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_3.txt +0 -0
  52. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_4.txt +0 -0
  53. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/embedding_generator.py +0 -0
  54. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/feature_vector_generation.py +0 -0
  55. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/idf_helper.py +0 -0
  56. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/__init__.py +0 -0
  57. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/base.py +0 -0
  58. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/df_extraction_cleanxiaoyu50.csv +0 -0
  59. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/drug_information_del_noDDIxiaoyu50.csv +0 -0
  60. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/test_indexes.txt +0 -0
  61. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_0.txt +0 -0
  62. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_1.txt +0 -0
  63. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_2.txt +0 -0
  64. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_3.txt +0 -0
  65. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_4.txt +0 -0
  66. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_indexes.txt +0 -0
  67. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_0.txt +0 -0
  68. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_1.txt +0 -0
  69. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_2.txt +0 -0
  70. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_3.txt +0 -0
  71. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_4.txt +0 -0
  72. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/mdf_sa_ddi/mdf-sa-ddi.zip +0 -0
  73. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/datasets/setup_._py +0 -0
  74. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/drugbank/__init__.py +0 -0
  75. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/drugbank/drugbank.xsd +0 -0
  76. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/drugbank/drugbank_parser.py +0 -0
  77. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/drugbank/drugbank_processor.py +0 -0
  78. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/drugbank/drugbank_processor_org.py +0 -0
  79. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/drugbank/event_extractor.py +0 -0
  80. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/langchain/__init__.py +0 -0
  81. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/langchain/embeddings.py +0 -0
  82. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/langchain/sentence_splitter.py +0 -0
  83. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/langchain/storage.py +0 -0
  84. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/ml/__init__.py +0 -0
  85. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/ml/evaluation_helper.py +0 -0
  86. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/ml/ml_helper.py +0 -0
  87. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/ml/model_wrapper.py +0 -0
  88. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/ml/pytorch_wrapper.py +0 -0
  89. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/ml/tensorflow_wrapper.py +0 -0
  90. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/ner/__init__.py +0 -0
  91. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/ner/mmlrestclient.py +0 -0
  92. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/ner/ner.py +0 -0
  93. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/pipeline/__init__.py +0 -0
  94. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/pipeline/multi_modal_combination_strategy.py +0 -0
  95. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/pipeline/multi_pipeline.py +0 -0
  96. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/pipeline/ner_pipeline.py +0 -0
  97. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/utils/__init__.py +0 -0
  98. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/utils/enums.py +0 -0
  99. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/utils/json_helper.py +0 -0
  100. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/utils/kaggle.py +0 -0
  101. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/utils/package_helper.py +0 -0
  102. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/utils/py7zr_helper.py +0 -0
  103. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/utils/utils.py +0 -0
  104. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw/utils/zip_helper.py +0 -0
  105. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw.egg-info/SOURCES.txt +0 -0
  106. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw.egg-info/dependency_links.txt +0 -0
  107. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw.egg-info/requires.txt +0 -0
  108. {ddi_fw-0.0.150 → ddi_fw-0.0.151}/src/ddi_fw.egg-info/top_level.txt +0 -0
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: ddi_fw
3
- Version: 0.0.150
3
+ Version: 0.0.151
4
4
  Summary: Do not use :)
5
5
  Author-email: Kıvanç Bayraktar <bayraktarkivanc@gmail.com>
6
6
  Maintainer-email: Kıvanç Bayraktar <bayraktarkivanc@gmail.com>
@@ -5,7 +5,7 @@ build-backend = "setuptools.build_meta"
5
5
 
6
6
  [project]
7
7
  name = "ddi_fw"
8
- version = "0.0.150"
8
+ version = "0.0.151"
9
9
  description = "Do not use :)"
10
10
  readme = "README.md"
11
11
  authors = [
@@ -35,18 +35,20 @@ class Pipeline(BaseModel):
35
35
  model: Optional[Any] = None
36
36
  multi_modal: Optional[Any] = None
37
37
  use_mlflow: bool = True
38
- _items:List=[]
39
- _train_idx_arr:List|None=[]
40
- _val_idx_arr:List|None=[]
41
-
38
+ _items: List = []
39
+ _train_idx_arr: List | None = []
40
+ _val_idx_arr: List | None = []
41
+
42
42
  @property
43
43
  def items(self) -> List:
44
44
  return self._items
45
+
45
46
  @property
46
- def train_idx_arr(self) -> List|None:
47
+ def train_idx_arr(self) -> List | None:
47
48
  return self._train_idx_arr
49
+
48
50
  @property
49
- def val_idx_arr(self) -> List|None:
51
+ def val_idx_arr(self) -> List | None:
50
52
  return self._val_idx_arr
51
53
 
52
54
  class Config:
@@ -125,12 +127,15 @@ class Pipeline(BaseModel):
125
127
  print(
126
128
  f"Embeddings of {column} are calculated from {vector_db_collection_name}")
127
129
 
130
+ # if metadatas == None or embeddings == None:
131
+ if 'embeddings' not in dictionary or 'metadatas' not in dictionary or not dictionary['embeddings'] or not dictionary['metadatas']:
132
+ raise ValueError(
133
+ "The collection does not contain embeddings or metadatas.")
134
+
128
135
  # Populate the embedding dictionary with embeddings from the vector database
129
136
  metadatas = dictionary["metadatas"]
130
137
  embeddings = dictionary["embeddings"]
131
- if metadatas == None or embeddings == None:
132
- raise ValueError(
133
- "The collection does not contain embeddings or metadatas.")
138
+
134
139
  for metadata, embedding in zip(metadatas, embeddings):
135
140
  embedding_dict[metadata["type"]
136
141
  ][metadata["id"]].append(embedding)
@@ -184,7 +189,8 @@ class Pipeline(BaseModel):
184
189
  if issubclass(self.dataset_type, TextDatasetMixin):
185
190
  key, value = next(iter(embedding_dict.items()))
186
191
  embedding_size = value[next(iter(value))][0].shape[0]
187
- pooling_strategy = self.embedding_pooling_strategy_type() if self.embedding_pooling_strategy_type else None
192
+ pooling_strategy = self.embedding_pooling_strategy_type(
193
+ ) if self.embedding_pooling_strategy_type else None
188
194
 
189
195
  dataset = self.dataset_type(
190
196
  embedding_dict=embedding_dict,
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: ddi_fw
3
- Version: 0.0.150
3
+ Version: 0.0.151
4
4
  Summary: Do not use :)
5
5
  Author-email: Kıvanç Bayraktar <bayraktarkivanc@gmail.com>
6
6
  Maintainer-email: Kıvanç Bayraktar <bayraktarkivanc@gmail.com>
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