import unittest
import importlib
import re
import user_code

class TestTask(unittest.TestCase):
    def test_returns_list(self):
        importlib.reload(user_code)
        sequence = "AAAATCGAAA"
        motif = "ATCG"
        result = user_code.find_motif_positions(sequence, motif)
        _dynamic_test(
            self,
            isinstance(result, list),
            "Function returns a list.",
            f"Expected a list, got: {type(result)}",
        )

    def test_correct_indices(self):
        importlib.reload(user_code)
        sequence = "AAAATCGAAA"
        motif = "ATCG"
        result = user_code.find_motif_positions(sequence, motif)
        expected = [4]
        _dynamic_test(
            self,
            result == expected,
            "Correct motif positions returned.",
            f"Expected {expected}, got: {result}",
        )

    def test_no_motif(self):
        importlib.reload(user_code)
        sequence = "AAA"
        motif = "ATCG"
        result = user_code.find_motif_positions(sequence, motif)
        expected = []
        _dynamic_test(
            self,
            result == expected,
            "Returns empty list when motif not found.",
            f"Expected {expected}, got: {result}",
        )

    def test_multiple_occurrences(self):
        importlib.reload(user_code)
        sequence = "ATCGATCGATCG"
        motif = "ATCG"
        result = user_code.find_motif_positions(sequence, motif)
        expected = [1, 5, 9]
        _dynamic_test(
            self,
            result == expected,
            "Handles multiple motif occurrences.",
            f"Expected {expected}, got: {result}",
        )

    def test_empty_motif(self):
        importlib.reload(user_code)
        sequence = "ATCG"
        motif = ""
        result = user_code.find_motif_positions(sequence, motif)
        expected = []
        _dynamic_test(
            self,
            result == expected,
            "Returns empty list for empty motif.",
            f"Expected {expected}, got: {result}",
        )

def _dynamic_test(test_case, condition, success_message, failure_message):
    if condition:
        test_case._testMethodName = success_message
        test_case.assertTrue(True, success_message)
    else:
        test_case._testMethodName = failure_message
        test_case.fail(failure_message)

def normalize_text(text):
    text = text.lower()
    text = re.sub(r"\\s{2,}", " ", text)
    text = re.sub(r"\\s*([,:?])\\s*", r"\\1 ", text)
    return text.strip()

if __name__ == "__main__":
    unittest.main()


test_main.py

A beginner-friendly course introducing Python programming through real-world bioinformatics problems. Learn to handle biological data formats, analyze DNA sequences, process next-generation sequencing data, and build reproducible analysis pipelines—all with engaging, hands-on tasks and clear explanations.

Dive into sequence analysis techniques, including alignment basics and motif searching, to uncover biological insights from DNA and protein sequences.

Learn how to process next-generation sequencing (NGS) data, including read quality analysis and coverage calculations, using Python.

Explore gene expression analysis using RNA-seq data and learn how to build reproducible bioinformatics workflows with Python.

Challenge: Find Conserved Motifs

Solution

Challenge: Find Conserved Motifs

Solution