phylogenetics/tools/gblocks.py
def _qual_arg(user_value,
              python_arg_name,
              gblock_arg_name,
              allowable):
    """
    Construct and sanity check a qualitative argument to
    send to gblocks.

    user_value: value to try to send to gblocks
    python_arg_name: name of python argument (for error string)
    gblock_arg_name: name of argument in gblocks
    allowable: dictionary of allowable values mapping python to
               whatever should be jammed into gblocks
    """

    if user_value in allowable.keys():
        return "-{}={}".format(gblock_arg_name,allowable[user_value])
    else:
        err = "\n\n{} '{}' not recognized\n".format(python_arg_name,
                                                user_value)
        err += "must be one of:\n"

        allowed = list(allowable)
        allowed.sort()
        for a in allowed:
            err += "    {}\n".format(a)

        raise ValueError(err)

    Construct and sanity check a qualitative argument to
    send to gblocks.

    user_value: value to try to send to gblocks
    python_arg_name: name of python argument (for error string)
    gblock_arg_name: name of argument in gblocks
    allowable: dictionary of allowable values mapping python to
               whatever should be jammed into gblocks
    
Construct and sanity check a qualitative argument to
send to gblocks.

value to try to send to gblocks
python_arg_name: name of python argument (for error string)
gblock_arg_name: name of argument in gblocks
allowable: dictionary of allowable values mapping python to
whatever should be jammed into gblocks
Construct and sanity check a qualitative argument to send to gblocks . value to try to send to gblocks python_arg_name : name of python argument ( for error string ) gblock_arg_name : name of argument in gblocks allowable : dictionary of allowable values mapping python to whatever should be jammed into gblocks
def _qual_arg(user_value,
              python_arg_name,
              gblock_arg_name,
              allowable):
    if user_value in allowable.keys():
        return "-{}={}".format(gblock_arg_name,allowable[user_value])
    else:
        err = "\n\n{} '{}' not recognized\n".format(python_arg_name,
                                                user_value)
        err += "must be one of:\n"
        allowed = list(allowable)
        allowed.sort()
        for a in allowed:
            err += "    {}\n".format(a)
        raise ValueError(err)
def _qual_arg ( user_value , python_arg_name , gblock_arg_name , allowable ) : if user_value in allowable . keys ( ) : return "-{}={}" . format ( gblock_arg_name , allowable [ user_value ] ) else : err = "\n\n{} '{}' not recognized\n" . format ( python_arg_name , user_value ) err += "must be one of:\n" allowed = list ( allowable ) allowed . sort ( ) for a in allowed : err += "    {}\n" . format ( a ) raise ValueError ( err )
Construct and sanity check a qualitative argument to
send to gblocks.
Construct and sanity check a qualitative argument to send to gblocks .
"""
    Construct and sanity check a qualitative argument to
    send to gblocks.

    user_value: value to try to send to gblocks
    python_arg_name: name of python argument (for error string)
    gblock_arg_name: name of argument in gblocks
    allowable: dictionary of allowable values mapping python to
               whatever should be jammed into gblocks
    """
user_value
python_arg_name
gblock_arg_name
allowable