ddi-fw 0.0.224__tar.gz → 0.0.226__tar.gz

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Files changed (112) hide show
  1. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/PKG-INFO +1 -1
  2. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/pyproject.toml +1 -1
  3. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ml/ml_helper.py +8 -3
  4. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ml/tensorflow_wrapper.py +11 -1
  5. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw.egg-info/PKG-INFO +1 -1
  6. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/README.md +0 -0
  7. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/setup.cfg +0 -0
  8. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/__init__.py +0 -0
  9. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/core.py +0 -0
  10. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/dataset_splitter.py +0 -0
  11. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/db_utils.py +0 -0
  12. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/base.py +0 -0
  13. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/data/event.db +0 -0
  14. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/debug.log +0 -0
  15. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/test_indexes.txt +0 -0
  16. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_0.txt +0 -0
  17. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_1.txt +0 -0
  18. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_2.txt +0 -0
  19. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_3.txt +0 -0
  20. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_4.txt +0 -0
  21. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/train_indexes.txt +0 -0
  22. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_0.txt +0 -0
  23. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_1.txt +0 -0
  24. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_2.txt +0 -0
  25. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_3.txt +0 -0
  26. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_4.txt +0 -0
  27. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/test_indexes.txt +0 -0
  28. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_0.txt +0 -0
  29. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_1.txt +0 -0
  30. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_2.txt +0 -0
  31. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_3.txt +0 -0
  32. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_4.txt +0 -0
  33. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_indexes.txt +0 -0
  34. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_0.txt +0 -0
  35. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_1.txt +0 -0
  36. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_2.txt +0 -0
  37. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_3.txt +0 -0
  38. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_4.txt +0 -0
  39. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl/readme.md +0 -0
  40. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/base.py +0 -0
  41. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/data/event.db +0 -0
  42. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/test_indexes.txt +0 -0
  43. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_0.txt +0 -0
  44. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_1.txt +0 -0
  45. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_2.txt +0 -0
  46. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_3.txt +0 -0
  47. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_4.txt +0 -0
  48. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_indexes.txt +0 -0
  49. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_0.txt +0 -0
  50. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_1.txt +0 -0
  51. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_2.txt +0 -0
  52. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_3.txt +0 -0
  53. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_4.txt +0 -0
  54. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/__init__.py +0 -0
  55. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/base.py +0 -0
  56. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/df_extraction_cleanxiaoyu50.csv +0 -0
  57. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/drug_information_del_noDDIxiaoyu50.csv +0 -0
  58. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/test_indexes.txt +0 -0
  59. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_0.txt +0 -0
  60. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_1.txt +0 -0
  61. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_2.txt +0 -0
  62. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_3.txt +0 -0
  63. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_4.txt +0 -0
  64. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_indexes.txt +0 -0
  65. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_0.txt +0 -0
  66. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_1.txt +0 -0
  67. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_2.txt +0 -0
  68. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_3.txt +0 -0
  69. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_4.txt +0 -0
  70. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/mdf_sa_ddi/mdf-sa-ddi.zip +0 -0
  71. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/datasets/setup_._py +0 -0
  72. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/drugbank/__init__.py +0 -0
  73. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/drugbank/drugbank.xsd +0 -0
  74. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/drugbank/drugbank_parser.py +0 -0
  75. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/drugbank/drugbank_processor.py +0 -0
  76. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/drugbank/drugbank_processor_org.py +0 -0
  77. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/drugbank/event_extractor.py +0 -0
  78. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/langchain/__init__.py +0 -0
  79. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/langchain/embeddings.py +0 -0
  80. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/langchain/sentence_splitter.py +0 -0
  81. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/langchain/storage.py +0 -0
  82. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ml/__init__.py +0 -0
  83. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ml/evaluation_helper.py +0 -0
  84. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ml/model_wrapper.py +0 -0
  85. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ml/pytorch_wrapper.py +0 -0
  86. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ml/tracking_service.py +0 -0
  87. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ner/__init__.py +0 -0
  88. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ner/mmlrestclient.py +0 -0
  89. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/ner/ner.py +0 -0
  90. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/pipeline/__init__.py +0 -0
  91. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/pipeline/multi_modal_combination_strategy.py +0 -0
  92. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/pipeline/multi_pipeline.py +0 -0
  93. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/pipeline/multi_pipeline_org.py +0 -0
  94. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/pipeline/ner_pipeline.py +0 -0
  95. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/pipeline/pipeline.py +0 -0
  96. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/__init__.py +0 -0
  97. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/categorical_data_encoding_checker.py +0 -0
  98. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/enums.py +0 -0
  99. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/json_helper.py +0 -0
  100. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/kaggle.py +0 -0
  101. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/numpy_utils.py +0 -0
  102. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/package_helper.py +0 -0
  103. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/py7zr_helper.py +0 -0
  104. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/utils.py +0 -0
  105. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/utils/zip_helper.py +0 -0
  106. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/vectorization/__init__.py +0 -0
  107. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/vectorization/feature_vector_generation.py +0 -0
  108. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw/vectorization/idf_helper.py +0 -0
  109. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw.egg-info/SOURCES.txt +0 -0
  110. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw.egg-info/dependency_links.txt +0 -0
  111. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/src/ddi_fw.egg-info/requires.txt +0 -0
  112. {ddi_fw-0.0.224 → ddi_fw-0.0.226}/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: 0.0.224
3
+ Version: 0.0.226
4
4
  Summary: Do not use :)
5
5
  Author-email: Kıvanç Bayraktar <bayraktarkivanc@gmail.com>
6
6
  Maintainer-email: Kıvanç Bayraktar <bayraktarkivanc@gmail.com>
@@ -6,7 +6,7 @@ build-backend = "setuptools.build_meta"
6
6
 
7
7
  [project]
8
8
  name = "ddi_fw"
9
- version = "0.0.224"
9
+ version = "0.0.226"
10
10
  description = "Do not use :)"
11
11
  readme = "README.md"
12
12
  authors = [
@@ -119,13 +119,15 @@ class MultiModalRunner:
119
119
 
120
120
  def _f():
121
121
  self.__predict(single_results)
122
+ if combinations:
123
+ self.evaluate_combinations(single_results, combinations)
122
124
 
123
125
  if self.tracking_service:
124
126
  self.tracking_service.run(run_name=self.prefix, description="***", func = _f , nested_run=False)
125
127
  else:
126
128
  self.__predict(single_results)
127
- if combinations:
128
- self.evaluate_combinations(single_results, combinations)
129
+ if combinations:
130
+ self.evaluate_combinations(single_results, combinations)
129
131
  # TODO: sum'a gerek yok
130
132
  return self.result
131
133
 
@@ -138,7 +140,10 @@ class MultiModalRunner:
138
140
  single_results, combination, combination_descriptor, artifact_uri
139
141
  )
140
142
 
141
- self.tracking_service.run(run_name=combination_descriptor, description="***", nested_run=True, func=evaluate_combination)
143
+ self.tracking_service.run(run_name=combination_descriptor,
144
+ description="***",
145
+ nested_run=True,
146
+ func=evaluate_combination)
142
147
 
143
148
  # with mlflow.start_run(run_name=combination_descriptor, description="***", nested=True) as combination_run:
144
149
  # self.__evaluate_combinations(
@@ -102,9 +102,18 @@ class TFModelWrapper(ModelWrapper):
102
102
  history = model.fit(
103
103
  train_dataset,
104
104
  epochs=self.epochs,
105
- # validation_data=val_dataset,
105
+ validation_data=val_dataset,
106
106
  callbacks=callbacks
107
107
  )
108
+
109
+ # Check if early stopping was applied
110
+ if early_stopping.stopped_epoch > 0:
111
+ print(f"Early stopping was applied at epoch {early_stopping.stopped_epoch}.")
112
+ else:
113
+ print("Early stopping was not applied.")
114
+ if self.tracking_service:
115
+ self.tracking_service.log_param("early_stopping_applied", early_stopping.stopped_epoch > 0)
116
+ self.tracking_service.log_param("early_stopping_epoch", early_stopping.stopped_epoch)
108
117
  # ex
109
118
  # history = model.fit(
110
119
  # X_train, y_train,
@@ -174,6 +183,7 @@ class TFModelWrapper(ModelWrapper):
174
183
  if models_val_acc == {}:
175
184
  return model, None
176
185
  best_model_key = max(models_val_acc, key=lambda k: models_val_acc[k])
186
+ print("best model key: ", best_model_key)
177
187
  # best_model_key = max(models_val_acc, key=models_val_acc.get)
178
188
  best_model = models[best_model_key]
179
189
  return best_model, best_model_key
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: ddi_fw
3
- Version: 0.0.224
3
+ Version: 0.0.226
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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