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import pytest
from quality_control.parsing import FileType, parse_errors
@pytest.mark.slow
@pytest.mark.parametrize(
"filepath,filetype,seek_pos",
(("tests/test_data/average_crlf.tsv", FileType.AVERAGE, 0),
("tests/test_data/average_error_at_end_200MB.tsv", FileType.AVERAGE,
205500004 # Skip first 500K lines
),
("tests/test_data/average.tsv", FileType.AVERAGE, 0),
("tests/test_data/standarderror_1_error_at_end.tsv",
FileType.STANDARD_ERROR, 0),
("tests/test_data/standarderror.tsv", FileType.STANDARD_ERROR, 0),
("tests/test_data/duplicated_headers_no_data_errors.tsv",
FileType.AVERAGE),
))
def test_parse_errors(filepath, filetype, strains, seek_pos):
"""
Check that only errors are returned, and that certain properties hold for
said errors.
"""
for error in parse_errors(filepath, filetype, strains, seek_pos):
assert isinstance(error, dict)
assert "filepath" in error
assert "filetype" in error
assert "position" in error
assert "error" in error and isinstance(error["error"], str)
assert "message" in error
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