def test_read_cancer_sheet_custom_fields_no_header(tsv_sheet_cancer_no_header): with pytest.raises(io_tsv.TSVSheetException) as e_info: io_tsv.read_cancer_tsv_sheet(tsv_sheet_cancer_no_header) expected = ( 'Unexpected column seen in header row of body: inssStage, lohChr1p, ' 'mycnCn, ncbiTaxon, ngsLibraryNice, patientStatus, shimada4Class, ' 'testSampleNice, timeToDeathDays, timeToEventDays') assert expected == str(e_info.value)
def test_read_cancer_sheet_no_header(tsv_sheet_cancer_no_header): sheet = io_tsv.read_cancer_tsv_sheet(tsv_sheet_cancer_no_header) assert EXPECTED_CANCER_SHEET_JSON_NO_HEADER == json.dumps(sheet.json_data, indent=' ')