def main():
print('generate message')
msg_in = '01101100'
print('encode message')
msg_encoded = something_code_4B.encode(msg_in)
print('convert to dna')
dna_encoded = one_bit_3B.bin2dna(msg_encoded)
print('seperate dna')
dna_seperate = pre_print.pre_print(dna_encoded, a)
print('synthesize dna')
dna_mol_syn = printer_5.printer_dna(dna_seperate, a, b, c, d)
print('store dna')
dna_mol_stor = storage_6.store_dna(dna_mol_syn, e, f, b)
print('sequence dna')
reads = NGS_7A.dna_sequencer(dna_mol_stor, b, g, h, a)
print('infer dna sequence')
msg_read = two_bits_3.dna2bin(reads[0]) # here is the "מצקת"
print('convert to binary')
msg_decoded = repeatition_code_2A.decode(msg_read)
mistakes_presentage = mistakes.mistake_presentage(msg_in, msg_decoded)
with open(
'C:\\Users\\user\\Desktop\\zohar\\Alpha\\Study\\DNA-Storage-alpha\\experiments\\results.txt',
'w') as f:
f.write(
f"input: {msg_in} output: {msg_decoded} mistakes_presentage: {mistakes_presentage} % /n"
)
print('done:')
def main(a,b,c,d,g,h,k,j,r):
start = time.time()
msg_in = input.create_input(j)
msg_encoded = hamming_code_2B.encode(msg_in)
dna_encoded = two_bits_3.bin2dna(msg_encoded[0])
dna_seperate = pre_print.pre_print(dna_encoded[0], k)
dna_mol_syn = printer_5.printer_dna(dna_seperate, a, b, c, d)
reads = NGS_7A.dna_sequencer(dna_mol_syn, b, g, h, a, k)
reads_one_str = NGS_7A.api_sequencer(reads, dna_seperate[1], dna_seperate[2],a, dna_seperate[3])
msg_read = two_bits_3.dna2bin(reads_one_str, dna_encoded[1]) # here is the "מצקת"
msg_decoded = hamming_code_2B.decode(msg_read, msg_encoded[1])
mistakes_presentage = mistakes.mistake_presentage(msg_in, msg_decoded)
num_of_oligos_generaly = len(dna_seperate[0]) * a
num_of_nukleotides_generaly = num_of_oligos_generaly * dna_seperate[1]
end = time.time()
time_it_takes = end - start
return [mistakes_presentage, time_it_takes, len(dna_encoded[0]), len(dna_seperate[0]), dna_seperate[1], num_of_oligos_generaly, num_of_nukleotides_generaly]
def main(a, b, c, d, g, h, k, j, r):
msg_in = input.create_input(j)
dna = one_bit_3B.bin2dna(msg_in)
dna_encoded = repeatition_code_4A.encode(dna, r)
dna_seperate = pre_print.pre_print(dna_encoded, k)
dna_mol_syn = printer_5.printer_dna(dna_seperate, a, b, c, d)
reads = NGS_7A.dna_sequencer(dna_mol_syn, b, g, h, a, k)
reads_one_str = NGS_7A.api_sequencer(reads, dna_seperate[1],
dna_seperate[2], a, dna_seperate[3])
msg_decoded = repeatition_code_4A.decode(reads_one_str, r)
msg_read = one_bit_3B.dna2bin(msg_decoded)
mistakes_presentage = mistakes.mistake_presentage(msg_in, msg_read)
num_of_oligos_generaly = len(dna_seperate[0]) * a
num_of_nukleotides_generaly = num_of_oligos_generaly * dna_seperate[1]
end = time.time()
time_it_takes = end - start
return [
mistakes_presentage, time_it_takes,
len(dna_encoded),
len(dna_seperate[0]), dna_seperate[1], num_of_oligos_generaly,
num_of_nukleotides_generaly
]