def main(filename):
dat = readdat(filename)
print 'Approach 1:'
startt = time.clock()
print ltclumps(*dat)
endt = time.clock()
print 'Wall time /sec:', endt - startt
# this don't work: timeit.repeat('ltclumps(genome, k, l, t)', setup='from __main__ import ltclumps', repeat=3, number=100)
print 'Approach 2:'
startt = time.clock()
print ltclumps2(*dat)
endt = time.clock()
print 'Wall time /sec:', endt - startt
def main(filename):
dat = readdat(filename)
print 'Approach 1:'
startt = time.clock()
print ltclumps(*dat)
endt = time.clock()
print 'Wall time /sec:', endt - startt
# this don't work: timeit.repeat('ltclumps(genome, k, l, t)', setup='from __main__ import ltclumps', repeat=3, number=100)
print 'Approach 2:'
startt = time.clock()
print ltclumps2(*dat)
endt = time.clock()
print 'Wall time /sec:', endt - startt
def main(filename):
dat = readdat(filename)
print pattern_freq(*dat)
def main(filename):
dat = readdat(filename)
print min_skew_prefix_len(*dat)
def main(filename):
dat = readdat(filename)
counts = count_nuc(dat[0])
rosalind_format_output(counts)
def main(filename):
dat = readdat(filename)
with open('ba1k_out.txt', 'w') as fout:
for item in freq_array(*dat):
fout.write(str(item) + ' ')
def main(filename):
dat = readdat(filename)
print hamming_dist(*dat)
def main(filename):
dat = readdat(filename)
with open('ba1h_out.txt', 'w') as fout:
fout.write(approx_pat_posi(*dat))
def main(filename):
dat = readdat(filename)
counts = count_nuc(dat[0])
rosalind_format_output(counts)
def main(filename):
dat = readdat(filename)
print hamming_dist(*dat)
def main(filename):
dat = readdat(filename)
maxfreq_mm(*dat)
def main(filename):
dat = readdat(filename)
with open('ba1k_out.txt', 'w') as fout:
for item in freq_array(*dat):
fout.write(str(item) + ' ')
def main(filename):
dat = readdat(filename)
print pattern_freq(*dat)
def main(filename):
dat = readdat(filename)
with open('ba1h_out.txt', 'w') as fout:
fout.write(approx_pat_posi(*dat))
def main(filename):
dat = readdat(filename)
print rev_comp(dat[0])
