ddi-fw 0.0.194__tar.gz → 0.0.195__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.
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/PKG-INFO +1 -1
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/pyproject.toml +1 -1
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/base.py +20 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw.egg-info/PKG-INFO +1 -1
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/README.md +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/setup.cfg +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/__init__.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/core.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/dataset_splitter.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/db_utils.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/data/event.db +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/debug.log +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/test_indexes.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_0.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_1.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_2.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_3.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/train_fold_4.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/train_indexes.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_0.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_1.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_2.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_3.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes/validation_fold_4.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/test_indexes.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_0.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_1.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_2.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_3.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_fold_4.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/train_indexes.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_0.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_1.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_2.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_3.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_4.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/readme.md +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/base.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/data/event.db +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/test_indexes.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_0.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_1.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_2.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_3.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_fold_4.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_indexes.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_0.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_1.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_2.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_3.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_4.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/__init__.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/base.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/df_extraction_cleanxiaoyu50.csv +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/drug_information_del_noDDIxiaoyu50.csv +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/test_indexes.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_0.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_1.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_2.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_3.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_fold_4.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/train_indexes.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_0.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_1.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_2.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_3.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_4.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/mdf-sa-ddi.zip +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/setup_._py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/drugbank/__init__.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/drugbank/drugbank.xsd +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/drugbank/drugbank_parser.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/drugbank/drugbank_processor.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/drugbank/drugbank_processor_org.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/drugbank/event_extractor.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/langchain/__init__.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/langchain/embeddings.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/langchain/sentence_splitter.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/langchain/storage.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/ml/__init__.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/ml/evaluation_helper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/ml/ml_helper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/ml/model_wrapper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/ml/pytorch_wrapper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/ml/tensorflow_wrapper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/ner/__init__.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/ner/mmlrestclient.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/ner/ner.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/pipeline/__init__.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/pipeline/multi_modal_combination_strategy.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/pipeline/multi_pipeline.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/pipeline/ner_pipeline.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/pipeline/pipeline.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/__init__.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/categorical_data_encoding_checker.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/enums.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/json_helper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/kaggle.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/numpy_utils.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/package_helper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/py7zr_helper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/utils.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/utils/zip_helper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/vectorization/__init__.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/vectorization/feature_vector_generation.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/vectorization/idf_helper.py +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw.egg-info/SOURCES.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw.egg-info/dependency_links.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw.egg-info/requires.txt +0 -0
- {ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw.egg-info/top_level.txt +0 -0
@@ -62,6 +62,26 @@ class DDIMDLDataset(TextDatasetMixin):
|
|
62
62
|
def __init__(self, **kwargs):
|
63
63
|
|
64
64
|
super().__init__(**kwargs)
|
65
|
+
|
66
|
+
columns = kwargs['columns']
|
67
|
+
if columns:
|
68
|
+
chemical_property_columns = []
|
69
|
+
embedding_columns = []
|
70
|
+
ner_columns = []
|
71
|
+
for column in columns:
|
72
|
+
if column in LIST_OF_CHEMICAL_PROPERTY_COLUMNS:
|
73
|
+
chemical_property_columns.append(column)
|
74
|
+
elif column in LIST_OF_EMBEDDING_COLUMNS:
|
75
|
+
embedding_columns.append(column)
|
76
|
+
elif column in LIST_OF_NER_COLUMNS:
|
77
|
+
ner_columns.append(column)
|
78
|
+
else:
|
79
|
+
raise Exception(f"{column} is not related this dataset")
|
80
|
+
|
81
|
+
self.chemical_property_columns = chemical_property_columns
|
82
|
+
self.embedding_columns = embedding_columns
|
83
|
+
self.ner_columns = ner_columns
|
84
|
+
|
65
85
|
self.class_column = 'event_category'
|
66
86
|
_db_path = HERE.joinpath('data/event.db')
|
67
87
|
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_0.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_1.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_2.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_3.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl/indexes_old/validation_fold_4.txt
RENAMED
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/train_indexes.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_0.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_1.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_2.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_3.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/ddi_mdl_text/indexes/validation_fold_4.txt
RENAMED
File without changes
|
File without changes
|
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/df_extraction_cleanxiaoyu50.csv
RENAMED
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_0.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_1.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_2.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_3.txt
RENAMED
File without changes
|
{ddi_fw-0.0.194 → ddi_fw-0.0.195}/src/ddi_fw/datasets/mdf_sa_ddi/indexes/validation_fold_4.txt
RENAMED
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|
File without changes
|