Module CLI.SearchSQOutput

Classes

class SearchSQOutput (seq: str, closest: str, accuracy: str)

Parameters

seq : str

Name of sequence

closest : str

Name of closest protein family

accuracy : str

Accuracy

Expand source code

class SearchSQOutput:
    seq: str
    closest: str
    accuracy: str

    def __init__(self, seq: str, closest: str, accuracy: str):
        """

        Parameters
        ----------
        seq : str
            Name of sequence
        closest : str
            Name of closest protein family
        accuracy : str
            Accuracy
        """
        self.seq = seq
        self.closest = closest
        self.accuracy = accuracy

    def to_stdout(self):
        print('The closest protein family to ' + self.seq + ' is ' + self.closest + ' with average accuracy: ' + self.accuracy)

    def to_file(self, fname: str, ftype: str, mode: str):
        """

        Parameters
        ----------
        fname : str
            Output filename
        ftype : str
            Output format
        mode : str
            Output mode
        """
        outf: TextIO
        with open(fname, mode) as outf:
            if ftype == "text":
                outf.write('The closest protein family to ' + self.seq + ' is ' + self.closest + ' with average accuracy: ' + self.accuracy + '\n')
            else:
                outf.write(self.seq + ',' + self.closest + ',' + self.accuracy + '\n')

Class variables

var accuracy : str

var closest : str

var seq : str

Methods

def to_file(self, fname: str, ftype: str, mode: str)

Parameters

fname : str

Output filename

ftype : str

Output format

mode : str

Output mode

Expand source code

def to_file(self, fname: str, ftype: str, mode: str):
    """

    Parameters
    ----------
    fname : str
        Output filename
    ftype : str
        Output format
    mode : str
        Output mode
    """
    outf: TextIO
    with open(fname, mode) as outf:
        if ftype == "text":
            outf.write('The closest protein family to ' + self.seq + ' is ' + self.closest + ' with average accuracy: ' + self.accuracy + '\n')
        else:
            outf.write(self.seq + ',' + self.closest + ',' + self.accuracy + '\n')

def to_stdout(self)

Expand source code

def to_stdout(self):
    print('The closest protein family to ' + self.seq + ' is ' + self.closest + ' with average accuracy: ' + self.accuracy)