Update Tuberculosis_Dataset.py
Browse files- Tuberculosis_Dataset.py +21 -22
Tuberculosis_Dataset.py
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@@ -1,6 +1,7 @@
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from datasets import DatasetBuilder, DownloadManager, DatasetInfo, Array3D, BuilderConfig, SplitGenerator, Version, Split
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from datasets.features import Features, Value, Sequence
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import pandas as pd
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import json
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import zipfile
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from PIL import Image
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@@ -17,20 +18,20 @@ Nievas Offidani, M. and Delrieux, C. (2023) “The MultiCaRe Dataset: A Multimod
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class TuberculosisDataset(DatasetBuilder):
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# Define dataset's name
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BUILDER_CONFIGS = [
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BuilderConfig(name="tuberculosis_dataset", version=Version("1.0.0"))
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]
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def _info(self):
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return DatasetInfo(
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description = _DESCRIPTION,
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features=Features({
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"case_id": Value("string"),
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"gender": Value("string"),
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"age": Value("int8"),
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"case_text": Value("string"),
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"keywords": Value("string"),
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"image_arrays": Sequence(Value("uint8")),
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"caption": Value("string"),
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}),
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supervised_keys = None,
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homepage = "https://zenodo.org/api/records/10079370/files-archive",
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@@ -38,22 +39,20 @@ class TuberculosisDataset(DatasetBuilder):
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)
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def _split_generators(self, dl_manager: DownloadManager):
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return {
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"all_data": self._generate_examples(
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cases_csv=dl_manager.download(cases_csv),
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keywords_json=dl_manager.download(keywords_json),
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caption_json=dl_manager.download(caption_json),
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image_filenames_json=dl_manager.download(image_filenames_json),
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images_zip=dl_manager.download_and_extract(images_zip)
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)
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}
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def _generate_examples(self, cases_csv, keywords_json, caption_json, image_filenames_json, images_zip):
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# Load data
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cases_df = pd.read_csv(cases_csv)
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from datasets import DatasetBuilder, DownloadManager, DatasetInfo, Array3D, BuilderConfig, SplitGenerator, Version, Split
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from datasets.features import Features, Value, Sequence
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import pandas as pd
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import datasets
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import json
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import zipfile
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from PIL import Image
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class TuberculosisDataset(DatasetBuilder):
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# Define dataset's name
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BUILDER_CONFIGS = [
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BuilderConfig(name="tuberculosis_dataset", version=datasets.Version("1.0.0"))
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]
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def _info(self):
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return DatasetInfo(
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description = _DESCRIPTION,
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features=Features({
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"case_id": datasets.Value("string"),
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"gender": datasets.Value("string"),
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"age": datasets.Value("int8"),
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"case_text": datasets.Value("string"),
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"keywords": datasets.Value("string"),
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"image_arrays": datasets.Sequence(Value("uint8")),
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"caption": datasets.Value("string"),
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}),
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supervised_keys = None,
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homepage = "https://zenodo.org/api/records/10079370/files-archive",
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)
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def _split_generators(self, dl_manager: DownloadManager):
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urls = {
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"cases_csv": "https://raw.githubusercontent.com/zhankai-ye/tuberculosis_dataset/main/cases.csv",
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"keywords_json": "https://raw.githubusercontent.com/zhankai-ye/tuberculosis_dataset/main/article_metadata.json",
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"caption_json": "https://raw.githubusercontent.com/zhankai-ye/tuberculosis_dataset/main/image_metadata.json",
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"image_filenames_json": "https://raw.githubusercontent.com/zhankai-ye/tuberculosis_dataset/main/image_filenames.json",
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"images_zip": "https://github.com/zhankai-ye/tuberculosis_dataset/raw/main/images/PMC.zip",
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}
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downloaded_files = dl_manager.download_and_extract(urls)
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return [
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datasets.SplitGenerator(name=datasets.Split.TRAIN, gen_kwargs=downloaded_files),
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]
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def _generate_examples(self, cases_csv, keywords_json, caption_json, image_filenames_json, images_zip):
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# Load data
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cases_df = pd.read_csv(cases_csv)
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