<filename>mavetools/validators/validate.py<gh_stars>1-10
from mavetools.validators import dataset_validators


def validate_all(countfile=None, scorefile=None, scorejson=None):
    """
    By calling other helper functions, this function runs all of the validation code
    """
    validate_dataset(countfile, scorefile, scorejson)


def validate_dataset(countfile=None, scorefile=None, scorejson=None):
    """
    This function calls all of the validation functions within
    mavetools/mavetools/validators/dataset_validation.py

    Returns
    -------

    """

    # how to incorporate word limit validator?

    if scorefile is not None:
        # open scorefile
        open(scorefile)
        # this one returns header
        scoreheader = dataset_validators.read_header_from_io(file=scorefile)

        # if the header was returned, do these ones
        dataset_validators.validate_has_hgvs_in_header(header=scoreheader)
        dataset_validators.validate_at_least_one_additional_column(header=scoreheader)
        dataset_validators.validate_header_contains_no_null_columns(header=scoreheader)

        dataset_validators.validate_scoreset_score_data_input(file=scorefile)

        if scorejson is not None:
            # open scorejson
            open(scorejson)
            dataset_validators.validate_scoreset_json(dict_=scorejson)

    if countfile is not None:
        # open countfile
        open(countfile)
        countheader = dataset_validators.read_header_from_io(file=countfile)

        # if the header was returned, do these ones
        dataset_validators.validate_has_hgvs_in_header(header=countheader)
        dataset_validators.validate_at_least_one_additional_column(header=countheader)
        dataset_validators.validate_header_contains_no_null_columns(header=countheader)

        dataset_validators.validate_scoreset_count_data_input(file=countfile)

    if scorefile is not None and countfile is not None:
        dataset_validators.validate_datasets_define_same_variants(
            scores=scorefile, counts=countfile
        )

<filename>mavetools/validators/validate.py<gh_stars>1-10
from mavetools.validators import dataset_validators


def validate_all(countfile=None, scorefile=None, scorejson=None):
    """
    By calling other helper functions, this function runs all of the validation code
    """
    validate_dataset(countfile, scorefile, scorejson)


def validate_dataset(countfile=None, scorefile=None, scorejson=None):
    """
    This function calls all of the validation functions within
    mavetools/mavetools/validators/dataset_validation.py

    Returns
    -------

    """

    # how to incorporate word limit validator?

    if scorefile is not None:
        # open scorefile
        open(scorefile)
        # this one returns header
        scoreheader = dataset_validators.read_header_from_io(file=scorefile)

        # if the header was returned, do these ones
        dataset_validators.validate_has_hgvs_in_header(header=scoreheader)
        dataset_validators.validate_at_least_one_additional_column(header=scoreheader)
        dataset_validators.validate_header_contains_no_null_columns(header=scoreheader)

        dataset_validators.validate_scoreset_score_data_input(file=scorefile)

        if scorejson is not None:
            # open scorejson
            open(scorejson)
            dataset_validators.validate_scoreset_json(dict_=scorejson)

    if countfile is not None:
        # open countfile
        open(countfile)
        countheader = dataset_validators.read_header_from_io(file=countfile)

        # if the header was returned, do these ones
        dataset_validators.validate_has_hgvs_in_header(header=countheader)
        dataset_validators.validate_at_least_one_additional_column(header=countheader)
        dataset_validators.validate_header_contains_no_null_columns(header=countheader)

        dataset_validators.validate_scoreset_count_data_input(file=countfile)

    if scorefile is not None and countfile is not None:
        dataset_validators.validate_datasets_define_same_variants(
            scores=scorefile, counts=countfile
        )

By calling other helper functions, this function runs all of the validation code This function calls all of the validation functions within     mavetools/mavetools/validators/dataset_validation.py      Returns     ------- # how to incorporate word limit validator? # open scorefile # this one returns header # if the header was returned, do these ones # open scorejson # open countfile # if the header was returned, do these ones