test_P1_to_P4.py

import os
#set current working directory to file location
abspath = os.path.abspath(__file__)
dname = os.path.dirname(abspath)
os.chdir(dname)
import time
import P1
import P2
import P3
import P4

#RunCode
start1 = time.time()
a = P1.ParseSeqFile('sequencefile.txt')
end1 = time.time()
print('*******************\nParseSeqFile: \n*******************\n\n',a, '\n\n')
labels = []
for tuples in a:
    labels.append(tuples[0])
start2 =time.time()
b = P2.AlignByDP(a)
end2 = time.time()
print('*******************\nAlignByDP: \n*******************\n\n')
print(b,'\n\n')
start3 =time.time()
c = P3.ComputeDistMatrix(b)
end3 = time.time()
print('*******************\nComputeDistMatrix: \n*******************\n\n')
for line in c:
    lines = []
    for element in line:
        lines.append('%010.8f' % element)
    print(lines)
start4 =time.time()
d = P4.Cluster(c, labels)
end4 = time.time()

print('\n*******************\nCluster: \n*******************\n\n',d)
print('\n')

print('|+++++++++++++++|\n| Test Analysis |\n|+++++++++++++++|\n')
print('|#','#'*21,'#|')
print('|# Total time: %7.3f s #|\n|# P1 %16.3f s #|\n|# P2 %16.3f s #|\n|# P3 %16.3f s #|\n|# P4 %16.3f s #|\n|# DNA Sequences %5i   #|\n|# Paars %13i   #|' %((end4-start1),(end1-start1),(end2-start2),(end3-start3),(end4-start4), len(a), ((len(a)*(len(a)-1))/2)))
print('|#','#'*21,'#|\n\n')