This document is for an in-development version of Galaxy. You can alternatively view this page in the latest release if it exists or view the top of the latest release's documentation.

Source code for galaxy.tool_util.verify.asserts.tabular

import re
from typing import (

from ._util import _assert_number

[docs]def get_first_line(output: str, comment: str) -> str: """ get the first non-comment and non-empty line """ if comment != "": match = re.search(f"^([^{comment}].*)$", output, flags=re.MULTILINE) else: match = re.search("^(.+)$", output, flags=re.MULTILINE) if match is None: return "" else: return match.group(1)
[docs]def assert_has_n_columns( output: str, n: Optional[Union[int, str]] = None, delta: Union[int, str] = 0, min: Optional[Union[int, str]] = None, max: Optional[Union[int, str]] = None, sep: str = "\t", comment: str = "", negate: Union[bool, str] = False, ) -> None: """Asserts the tabular output contains n columns. The optional sep argument specifies the column seperator used to determine the number of columns. The optional comment argument specifies comment characters""" first_line = get_first_line(output, comment) n_columns = len(first_line.split(sep)) _assert_number( n_columns, n, delta, min, max, negate, "{expected} {n}+-{delta} columns in output", "{expected} the number of columns in output to be in [{min}:{max}]", )