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"""Yeast Dataset""" |
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from typing import List |
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from functools import partial |
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import datasets |
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import pandas |
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VERSION = datasets.Version("1.0.0") |
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_ENCODING_DICS = { |
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"class": { |
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"MIT": 0, |
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"NUC": 1, |
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"CYT": 2, |
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"ME1": 3, |
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"EXC": 4, |
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"ME2": 5, |
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"ME3": 6, |
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"VAC": 7, |
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"POX": 8, |
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"ERL": 9 |
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} |
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} |
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DESCRIPTION = "Yeast dataset." |
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_HOMEPAGE = "https://archive-beta.ics.uci.edu/dataset/110/yeast" |
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_URLS = ("https://archive-beta.ics.uci.edu/dataset/110/yeast") |
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_CITATION = """ |
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@misc{misc_yeast_110, |
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author = {Nakai,Kenta}, |
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title = {{Yeast}}, |
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year = {1996}, |
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howpublished = {UCI Machine Learning Repository}, |
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note = {{DOI}: \\url{10.24432/C5KG68}} |
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} |
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""" |
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urls_per_split = { |
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"train": "https://huggingface.co/datasets/mstz/yeast/raw/main/yeast.csv" |
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} |
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features_types_per_config = { |
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"yeast": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=10) |
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}, |
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"yeast_0": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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"yeast_1": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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"yeast_2": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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"yeast_3": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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"yeast_4": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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"yeast_5": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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"yeast_6": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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"yeast_7": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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"yeast_8": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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"yeast_9": { |
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"mcg": datasets.Value("float64"), |
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"gvh": datasets.Value("float64"), |
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"alm": datasets.Value("float64"), |
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"mit": datasets.Value("float64"), |
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"erl": datasets.Value("bool"), |
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"pox": datasets.Value("float64"), |
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"vac": datasets.Value("float64"), |
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"nuc": datasets.Value("float64"), |
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"class": datasets.ClassLabel(num_classes=2) |
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}, |
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} |
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features_per_config = {k: datasets.Features(features_types_per_config[k]) for k in features_types_per_config} |
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class YeastConfig(datasets.BuilderConfig): |
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def __init__(self, **kwargs): |
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super(YeastConfig, self).__init__(version=VERSION, **kwargs) |
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self.features = features_per_config[kwargs["name"]] |
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class Yeast(datasets.GeneratorBasedBuilder): |
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DEFAULT_CONFIG = "yeast" |
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BUILDER_CONFIGS = [ |
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YeastConfig(name="yeast", description="Yeast for multiclass classification."), |
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YeastConfig(name="yeast_0", description="Yeast for binary classification."), |
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YeastConfig(name="yeast_1", description="Yeast for binary classification."), |
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YeastConfig(name="yeast_2", description="Yeast for binary classification."), |
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YeastConfig(name="yeast_3", description="Yeast for binary classification."), |
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YeastConfig(name="yeast_4", description="Yeast for binary classification."), |
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YeastConfig(name="yeast_5", description="Yeast for binary classification."), |
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YeastConfig(name="yeast_6", description="Yeast for binary classification."), |
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YeastConfig(name="yeast_7", description="Yeast for binary classification."), |
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YeastConfig(name="yeast_8", description="Yeast for binary classification."), |
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YeastConfig(name="yeast_9", description="Yeast for binary classification."), |
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] |
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def _info(self): |
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info = datasets.DatasetInfo(description=DESCRIPTION, citation=_CITATION, homepage=_HOMEPAGE, |
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features=features_per_config[self.config.name]) |
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return info |
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def _split_generators(self, dl_manager: datasets.DownloadManager) -> List[datasets.SplitGenerator]: |
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downloads = dl_manager.download_and_extract(urls_per_split) |
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return [ |
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datasets.SplitGenerator(name=datasets.Split.TRAIN, gen_kwargs={"filepath": downloads["train"]}), |
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] |
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def _generate_examples(self, filepath: str): |
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data = pandas.read_csv(filepath) |
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data = self.preprocess(data) |
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for row_id, row in data.iterrows(): |
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data_row = dict(row) |
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yield row_id, data_row |
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def preprocess(self, data: pandas.DataFrame) -> pandas.DataFrame: |
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for feature in _ENCODING_DICS: |
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encoding_function = partial(self.encode, feature) |
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data.loc[:, feature] = data[feature].apply(encoding_function) |
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data["erl"] = data["erl"].apply(lambda x: True if x == 1 else False) |
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data = data.astype({"erl": "bool"}) |
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if self.config.name == "yeast_0": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 0 else 0) |
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elif self.config.name == "yeast_1": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 1 else 0) |
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elif self.config.name == "yeast_2": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 2 else 0) |
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elif self.config.name == "yeast_3": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 3 else 0) |
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elif self.config.name == "yeast_4": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 4 else 0) |
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elif self.config.name == "yeast_5": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 5 else 0) |
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elif self.config.name == "yeast_6": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 6 else 0) |
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elif self.config.name == "yeast_7": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 7 else 0) |
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elif self.config.name == "yeast_8": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 8 else 0) |
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elif self.config.name == "yeast_9": |
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data["class"] = data["class"].apply(lambda x: 1 if x == 9 else 0) |
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return data[list(features_types_per_config[self.config.name].keys())] |
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def encode(self, feature, value): |
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if feature in _ENCODING_DICS: |
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return _ENCODING_DICS[feature][value] |
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raise ValueError(f"Unknown feature: {feature}") |
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