def main():
problem_dataset_dir = os.path.join('Problems', 'Problem2')
solution_dir = os.path.join("Problems", "Problem2Solution")
data_reader = DataReader(problem_dataset_dir)
training_data, testing_data = data_reader.get_data()
codons_table = data_reader.get_rna_codon_table()
for sample in training_data:
dna_string = sample[0][0]
amino_acid = sample[0][1]
output = sample[1]
dna = DNA(dna_string)
dna.set_codon_table(codons_table)
candidates = dna.get_dna_to_amino_acid_candidates(amino_acid)
if set(candidates) != set(output):
raise Exception("Output not matched!\nExpecting: " + str(output) +
"\nFound: " + str(candidates))
print("Passed training data..\n\n")
writer = DataWriter(solution_dir)
usage = Usage()
for sample in testing_data:
usage.start()
dna_string = sample[0][0]
amino_acid = sample[0][1]
dna = DNA(dna_string)
dna.set_codon_table(codons_table)
candidates = dna.get_dna_to_amino_acid_candidates(amino_acid)
usage.end()
writer.write_data((dna_string, amino_acid), candidates,
usage.get_execution_time(), usage.get_memory_usage())
print("DNA:\n" + dna_string)
print("Protein\n" + amino_acid)
print("\n\nOutput")
print("=====")
print(str(len(candidates)))
for substring in candidates:
print(substring)
print("\n\nExecution Time: " + str(usage.get_execution_time()) + " s")
print("Memory Usage: " + str(usage.get_memory_usage()) + " MB")
def main():
problem_dataset_dir = os.path.join('Problems', 'Problem2')
solution_dir = os.path.join("Problems", "Problem2Solution")
data_reader = DataReader(problem_dataset_dir)
training_data, testing_data = data_reader.get_data()
codons_table = data_reader.get_rna_codon_table()
for sample in training_data:
dna_string = sample[0][0]
amino_acid = sample[0][1]
output = sample[1]
dna = DNA(dna_string)
dna.set_codon_table(codons_table)
candidates = dna.get_dna_to_amino_acid_candidates(amino_acid)
if set(candidates) != set(output):
raise Exception("Output not matched!\nExpecting: " + str(output) + "\nFound: " + str(candidates))
print("Passed training data..\n\n")
writer = DataWriter(solution_dir)
usage = Usage()
for sample in testing_data:
usage.start()
dna_string = sample[0][0]
amino_acid = sample[0][1]
dna = DNA(dna_string)
dna.set_codon_table(codons_table)
candidates = dna.get_dna_to_amino_acid_candidates(amino_acid)
usage.end()
writer.write_data((dna_string, amino_acid), candidates, usage.get_execution_time(), usage.get_memory_usage())
print("DNA:\n" + dna_string)
print("Protein\n" + amino_acid)
print("\n\nOutput")
print("=====")
print(str(len(candidates)))
for substring in candidates:
print(substring)
print("\n\nExecution Time: " + str(usage.get_execution_time()) + " s")
print("Memory Usage: " + str(usage.get_memory_usage()) + " MB")
def main():
problem_dataset_dir = os.path.join('Problems', 'Problem1')
solution_dir = os.path.join("Problems", "Problem1Solution")
data_reader = DataReader(problem_dataset_dir)
training_data, testing_data = data_reader.get_data()
codons_table = data_reader.get_rna_codon_table()
for sample in training_data:
rna_string = sample[0]
output = sample[1]
rna = RNA(rna_string)
rna.set_codons_table(codons_table)
amino_acid = rna.to_amino_acid()
if amino_acid != output:
raise Exception("Output not matched!\nExpecting: " + output +
"\nFound: " + amino_acid)
print("Passed training data..\n\n")
writer = DataWriter(solution_dir)
usage = Usage()
for sample in testing_data:
usage.start()
rna_string = sample[0]
rna = RNA(rna_string)
rna.set_codons_table(codons_table)
amino_acid = rna.to_amino_acid()
usage.end()
writer.write_data(rna_string, amino_acid, usage.get_execution_time(),
usage.get_memory_usage())
print("RNA:\n" + rna_string)
print("Protein:\n" + amino_acid)
print("\n\nExecution Time: " + str(usage.get_execution_time()) + " s")
print("Memory Usage: " + str(usage.get_memory_usage()) + " MB")