argParseFromDoc

A simple python package for creating/updating argparse ArgumentParser(s) given a documented function.

Content

• Installation
• Supported features
• Assumptions
• Usage

Installation

• Option 1. Cloning this repository:

git clone https://github.com/rsanchezgarc/argParseFromDoc.git
cd argParseFromDoc
pip install .

• Option 2. Installing with pip

pip install git+https://github.com/rsanchezgarc/argParseFromDoc

Supported features

• Argument types:
  • int, str, float and bool
  • (Homogeneous) Lists of any of the previous types (defined astyping.List[primitive_type])
  • Files (defined astyping.TextIO and typing.BinaryIO)
• Ignoring/selecting a subset of the arguments of the function
  • Use myarg:typing.Optional[VALID_TYPE]=None to set it as not required parameter or args_optional=["myarg"]
• Creating a new parser or adding new arguments to it. You can use also parser groups
• Several docsctring formats (see docstring_parser )
• Support for methods assuming first argument in definition is self

Assumptions

• Positional arguments. Functions can have positional arguments, but the parser will treat them as if they were keyword/optional (always --argname VALUE)
• If no default value is provided for an argument in the typing hint, argument will be considered as required (parser.add_argument(..., required=True)). The same applies to default=None except if the name of the argument is included in args_optional or it is declared as typing.Optional.
• E.g get_parser_from_function(..., args_optional=[name1, name2...])
• Boolean arguments:
  • Boolean arguments must be provided with default value.
  • If a boolean argument defaults to False (name:bool=False), the parser sets the argument name=True if --name flag provided.
  • If a boolean argument defaults to True (name:bool=True), the parser sets the argument name=False if --NOT_name flag provided. Please notice that the name of the argument in the argument parser has been changed from name to --NOT_name to reflect that but the argument is stored using the original name, so no further changes are required
• Multiple arguments can be provided if using typing.List. For example: def fun(several_strings: List[str]):
• Setting deafult values for typing.TextIO and typing.BinaryIO is not advisable, as they should be opened files. If you are only employing the function for the argument parser, you could default it to string values pointing files, but again, this is not encouraged. Instead, if you want to set a default filename, use type str. The main purpose of typing.TextIO and typing.BinaryIO in the parser is to allow pipes. For example:

  #These two commands are equivalent
  python count_lines --inputFile /etc/passwd 
  cat /etc/passwd | python count_lines --inputFile -
  
  

• Methods, including __init__, are supported providing self is always using in as the first argument in the definition
• When defining functions, *arg and **kwargs are ignored for the parser. No other * or ** argument is supported.

Usage

You only need to document the type and possible default values for the arguments of your functions with typing and the description of each within the docstring. Examples of documented functions are:

def add(a: int, b: int):
    '''
    @param a: first number
    @param b: second number
    '''
    return a + b
    
def printYourAge(age: int, name: str = "Unknown"):
    '''
    @param age: your age
    @param name: your name
    '''
    return a + b
    
def addList(several_nums: List[int], b: int=1):
    '''
    @param several_nums: first number
    @param b: second number
    '''
    return [a + b for a in several_nums]

Then, obtaining an ArgumentParser for any of these functions (say add) is as easy as:

if __name__ == "__main__":
    from argParseFromDoc import get_parser_from_function
    parser = get_parser_from_function(add)
    args = parser.parse_args()
    print(add(**vars(args)))

Or you can directly use the AutoArgumentParser classs

if __name__ == "__main__":
    from argParseFromDoc import AutoArgumentParser
    parser = AutoArgumentParser()
    parser.add_args_from_function(add)

If you want to add to a previously instantiated parser the arguements of the function, you just need to provide the original parser (or group) to the get_parser_from_function function.

if __name__ == "__main__":
    from argParseFromDoc import get_parser_from_function
    #standard ArgumentParser
    from argparse import ArgumentParser
    parser = ArgumentParser(prog="Add_example")
    parser.add_argument("--other_type_of_argument", type=str, default="Not provided")
    #####################################################
    # ### If you prefer a group instead of a whole parser
    # group = parser.add_argument_group()
    # get_parser_from_function(add, parser=group)
    #####################################################
    #provide the original parser to get_parser_from_function that will add the new options to the parser
    get_parser_from_function(add, parser=parser)
    args = parser.parse_args()
    print(add(**vars(args)))

Finally, if your function has some arguments that you do not want to include to the parser, you can use the args_to_ignore option or if you want to use only a subset, use the args_to_include option.

def manyArgsFun(a: int, b: int, c: int = 1, d: int = 2, e: str = "oneStr"):
    '''

    :param a: a
    :param b: b
    :param c: c
    :param d: d
    :param e: e
    :return:
    '''
    print(e)
    return sum([a, b, c, d])


if __name__ == "__main__":
    from argParseFromDoc import get_parser_from_function
    # parser = get_parser_from_function(manyArgsFun, args_to_ignore=["c", "d", "e"])
    parser = get_parser_from_function(manyArgsFun, args_to_include=["a", "b"])
    args = parser.parse_args()
    print(manyArgsFun(**vars(args)))

Some additional examples can be found in examples folder or in tests/test_argParseFromDoc.py