File processing workflows

Lightweight transforms can process files of datasets without schemas. To process files of a dataset without a schema, list the files via my_input.filesystem().ls().

The statement .filesystem().ls() is available for datasets without schemas, but the .path(), .pandas(), .polars(), .arrow(), and .filesystem().files() statements are only available on datasets with schemas.

Code example: file processing

The following code shows an example lightweight transform that processes files of a dataset without a schema.

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from transforms.api import incremental, Input, Output, transform


@incremental()
@transform.using(my_input=Input("my-input"), my_output=Output('my-output'))
def my_incremental_transform(my_input, my_output):
    fs = my_input.filesystem()
    files = [f.path for f in fs.ls()]
    polars_dataframes = []

    for file_path in files:
        # Access the file
        with fs.open(file_path, "rb") as f:
            # <do something with the file>
            # append some data as a dataframe to polars_dataframes

    # Union all the DFs into one
    combined_df = union_polars_dataframes(polars_dataframes)
    out.write_table(combined_df)

The following code shows an example to parse Excel files:

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from transforms.api import transform, Input, Output
import tempfile
import shutil
import polars as pl
import pandas as pd


@transform(
    my_output=Output("/path/tabular_output_dataset"),
    my_input=Input("/path/input_dataset_without_schema"),
)
def compute(my_input, my_output):
    # Parse each file
    # Open the Excel file at the provided path, using the provided filesystem
    def read_excel_to_polars(fs, file_path):
        with fs.open(file_path, "rb") as f:
            with tempfile.TemporaryFile() as tmp:
                # Copy paste the file from the source dataset to the local filesystem
                shutil.copyfileobj(f, tmp)
                tmp.flush()  # shutil.copyfileobj does not flush

                # read the excel file (the file is now seekable)
                pandas_df = pd.read_excel(tmp)
                # Convert eventual integer columns to string columns
                pandas_df = pandas_df.astype(str)
                # Convert the pandas dataframe to a polars dataframe
                return pl.from_pandas(pandas_df)

    fs = my_input.filesystem()
    # List all files in the input dataset
    files = [f.path for f in fs.ls()]

    polars_dataframes = []

    for curr_file_as_row in files:
        # print(curr_file_as_row)
        polars_dataframes.append(read_excel_to_polars(fs, curr_file_as_row))

    def union_polars_dataframes(dfs):
        return pl.concat(dfs)

    # Union all the DFs into one
    combined_df = union_polars_dataframes(polars_dataframes)

    my_output.write_table(combined_df)