test-dataset-debug.py

"""TODO: Add a description here."""

from __future__ import absolute_import, division, print_function

import json
import os
import datetime
import pandas as pd
import numpy as np
from pathlib import Path
# from sklearn.utils import shuffle

import datasets


# TODO: Add BibTeX citation
_CITATION = """\
@InProceedings{huggingface:dataset,
title = {A great new dataset},
authors={huggingface, Inc.
},
year={2020}
}
"""

# TODO: Add description of the dataset here
_DESCRIPTION = """TODO: Add description"""

# URLs for production
_METADATA_URL = "https://patentdiag.blob.core.windows.net/patent-data/metadata-2021-02-10.feather"
# _METADATA_URL = "https://patentdiag.blob.core.windows.net/patent-data/metadata-2021-01-21.feather"
_DATA_URL = "https://patentdiag.blob.core.windows.net/patent-data/distilled-2021-01-07.tar"
_DATA_SUBFOLDER_NAME = 'distilled'

# # URLs for debugging
# _METADATA_URL = _DEBUG_METADATA_URL = "https://patentdiag.blob.core.windows.net/patent-data/metadata_debug-2021-02-10.feather"
# _DATA_URL = _DEBUG_DATA_URL = "https://patentdiag.blob.core.windows.net/patent-data/distilled_debug-2021-01-07.tar"
# _DATA_SUBFOLDER_NAME = _DATA_SUBFOLDER_NAME = 'debug_distilled'

RANDOM_STATE = 1729


# Names of features
_FEATURES = [
    "patent_number",
    "decision",
    "title",
    "abstract",
    "claims",
    "background",
    "summary",
    "description",
    "cpc_label",
    "ipc_label",
    "filing_date",
    "patent_issue_date",
    "date_published",
    "examiner_id"
]


def str_to_date(s):
    """A helper function to convert strings to dates"""
    return datetime.datetime.strptime(s, '%Y-%m-%d')


class PatentsConfig(datasets.BuilderConfig):
    """BuilderConfig for Patents"""

    def __init__(
        self,
        ipcr_label: str = None,  # 'G06F',
        cpc_label: str = None,  # 'G06F',
        train_filing_start_date: str = None,
        train_filing_end_date: str = None,
        val_filing_start_date: str = None,
        val_filing_end_date: str = None,
        query_string: str = None,
        val_set_balancer=False,
        uniform_split=False,
        train_only=False,
        **kwargs
    ):
        """
        If train_filing_end_date is None, then a random train-val split will be used. If it is 
        specified, then the specified date range will be used for the split. If train_filing_end_date 
        if specified and val_filing_start_date is not specifed, then val_filing_start_date defaults to 
        train_filing_end_date. 

        Args:
            ipcr_label: International Patent Classification code
            cpc_label: Cooperative Patent Classification code
            train_filing_start_date: Start date for patents in train set (and val set if random split is used)
            train_filing_end_date: End date for patents in train set
            val_filing_start_date: Start date for patents in val set
            val_filing_end_date: End date for patents in val set (and train set if random split is used)
            **kwargs: keyword arguments forwarded to super.
        """
        super().__init__(**kwargs)
        self.ipcr_label = ipcr_label
        self.cpc_label = cpc_label
        self.train_filing_start_date = train_filing_start_date
        self.train_filing_end_date = train_filing_end_date
        self.val_filing_start_date = val_filing_start_date
        self.val_filing_end_date = val_filing_end_date
        self.query_string = query_string
        self.val_set_balancer = val_set_balancer
        self.uniform_split = uniform_split
        self.train_only = train_only


class Patents(datasets.GeneratorBasedBuilder):
    """TODO: Add description"""

    VERSION = datasets.Version("1.0.1")

    # This is an example of a dataset with multiple configurations.
    # If you don't want/need to define several sub-sets in your dataset,
    # just remove the BUILDER_CONFIG_CLASS and the BUILDER_CONFIGS attributes.
    BUILDER_CONFIG_CLASS = PatentsConfig
    # BUILDER_CONFIGS = [
    #     PatentsConfig(name="my_dataset_" + size, description="A small dataset", data_size=size)
    #     for size in ["small", "medium", "large"]
    # ]

    def _info(self):
        return datasets.DatasetInfo(
            # This is the description that will appear on the datasets page.
            description=_DESCRIPTION,
            # This defines the different columns of the dataset and their types
            features=datasets.Features(
                {k: datasets.Value("string") for k in _FEATURES}
            ),
            # If there's a common (input, target) tuple from the features,
            # specify them here. They'll be used if as_supervised=True in
            # builder.as_dataset.
            supervised_keys=("claims", "decision"),
            # TODO: Homepage of the dataset for documentation
            homepage="https://huggingface.co/great-new-dataset",
            citation=_CITATION,
        )

    def _split_generators(self, dl_manager: datasets.DownloadManager):
        """Returns SplitGenerators."""
        print(f'Loading dataset with config: {self.config}')

        # Download metadata
        # NOTE: data_files is a path to a pickled pandas DataFrame
        if self.config.data_files is None:
            print(f'Loading / downloading metadata file: {_METADATA_URL}')
            metadata_file = dl_manager.download_and_extract(_METADATA_URL)
        else:
            print(f'Using metadata file: {self.config.data_files}')
            metadata_file = Path(self.config.data_files)

        # Download data
        # NOTE: data_dir is a path to a directory of json files, with one
        # json file per patent application
        if self.config.data_dir is None:
            print('Loading / downloading data. This is a big file (360GB)!')
            json_dir = Path(dl_manager.download_and_extract(_DATA_URL))
            # NOTE: The extracted path contains a subfolder
            json_dir = json_dir / _DATA_SUBFOLDER_NAME
        else:
            json_dir = Path(self.config.data_dir)

        # Load metadata file
        print(f'Reading metadata file: {metadata_file}')
        df = pd.read_feather(metadata_file)  # pd.read_pickle(metadata_file) #

        # Filter based on ICPR / CPC label
        if self.config.ipcr_label:
            print(f'Filtering by IPCR label: {self.config.ipcr_label}')
            df = df[df['main_ipcr_label'].str.startswith(self.config.ipcr_label)]
        elif self.config.cpc_label:
            print(f'Filtering by CPC label: {self.config.cpc_label}')
            df = df[df['main_cpc_label'].str.startswith(self.config.cpc_label)]

        # Filter metadata based on arbitrary query string
        # TODO(suproteem): remove for production
        if self.config.query_string:
            df = df.query(self.config.query_string)

        # Return only one dataset
        if self.config.train_only:
            if self.config.train_filing_start_date:
                print(f'Filtering by train filing start date: {self.config.train_filing_start_date}')
                df = df[df['filing_date'] >= self.config.train_filing_start_date]
            if self.config.train_filing_end_date:
                print(f'Filtering by train filing end date: {self.config.train_filing_end_date}')
                df = df[df['filing_date'] <= self.config.train_filing_end_date]

            return [
                datasets.SplitGenerator(
                    name=datasets.Split.TRAIN,
                    gen_kwargs=dict(  # kwargs passed to _generate_examples
                        df=df,
                        json_dir=json_dir,
                        split='train',
                    ),
                )
            ]

        # Train-validation split (either uniform or by date)
        if self.config.uniform_split:

            # Assumes that training_start_data < val_end_date
            if self.config.train_filing_start_date:
                df = df[df['filing_date'] >= self.config.train_filing_start_date]
            if self.config.val_filing_end_date:
                df = df[df['filing_date'] <= self.config.val_filing_end_date]
            df = df.sample(frac=1.0, random_state=RANDOM_STATE)
            num_train_samples = int(len(df) * 0.85)
            train_df = df.iloc[0:num_train_samples]
            val_df = df.iloc[num_train_samples:-1]

        else:

            # Does not assume that training_start_data < val_end_date
            if self.config.train_filing_start_date:
                print(f'Filtering by train filing start date: {self.config.train_filing_start_date}')
                tdf = df[df['filing_date'] >= self.config.train_filing_start_date]
                if self.config.train_filing_end_date:
                    print(f'Filtering by train filing end date: {self.config.train_filing_end_date}')
                    train_df = tdf[tdf['filing_date'] <= self.config.train_filing_end_date]

            if self.config.val_filing_start_date:
                print(f'Filtering by val filing start date: {self.config.val_filing_start_date}')
                vdf = df[df['filing_date'] >= self.config.val_filing_start_date]
                if self.config.val_filing_end_date:
                    print(f'Filtering by val filing end date: {self.config.val_filing_end_date}')
                    val_df = vdf[vdf['filing_date'] <= self.config.val_filing_end_date]

        # TODO: Can make this step faster
        if self.config.val_set_balancer:
            rejected_df = val_df[val_df.status == 'REJECTED']
            num_rejected = len(rejected_df)
            accepted_df = val_df[val_df.status == 'ACCEPTED']
            num_accepted = len(accepted_df)
            if num_rejected < num_accepted:
                accepted_df = accepted_df.sample(frac=1.0, random_state=RANDOM_STATE)  # shuffle(accepted_df)
                accepted_df = accepted_df[:num_rejected]
            else:
                rejected_df = rejected_df.sample(frac=1.0, random_state=RANDOM_STATE)  # shuffle(rejected_df)
                rejected_df = rejected_df[:num_accepted]
            val_df = pd.concat([rejected_df, accepted_df])

        return [
            datasets.SplitGenerator(
                name=datasets.Split.TRAIN,
                gen_kwargs=dict(  # kwargs passed to _generate_examples
                    df=train_df,
                    json_dir=json_dir,
                    split='train',
                ),
            ),
            datasets.SplitGenerator(
                name=datasets.Split.VALIDATION,
                gen_kwargs=dict(
                    df=val_df,
                    json_dir=json_dir,
                    split='val',
                ),
            ),
        ]

    def _generate_examples(self, df, json_dir, split):
        """ Yields examples by loading JSON files containing patent applications. """

        # NOTE: df.itertuples() is way faster than df.iterrows()
        for id_, x in enumerate(df.itertuples()):

            # JSON files are named by application number (unique)
            application_number = x.application_number
            filepath = json_dir / (application_number + '.json')
            try:
                with open(filepath, 'r') as f:
                    patent = json.load(f)
            except Exception as e:
                print('------------')
                print(f'ERROR WITH {filepath}\n')
                print(repr(e))
                print()
                yield id_, {k: "error" for k in _FEATURES}

            # Most up-to-date-decision in meta dataframe
            decision = x.decision
            yield id_, {
                "patent_number": application_number,
                "decision": decision,
                "title": patent["title"],
                "abstract": patent["abstract"],
                "claims": patent["claims"],
                "description": patent["full_description"],
                "background": patent["background"],
                "summary": patent["summary"],
                "cpc_label": patent["main_cpc_label"],
                'filing_date': patent['filing_date'],
                'patent_issue_date': patent['patent_issue_date'],
                'date_published': patent['date_published'],
                'examiner_id': patent['examiner_id'],
                "ipc_label": patent["main_ipcr_label"],
                # "all_cpc_labels": patent["cpc_labels"],  # these are lists, ignoring for now
                # 'inventor_list': patent['inventor_list'],  # these are lists, ignoring for now
            }