# Harvard:Biophysics 101/2007/Notebook:Michael Wang/2007-2-8

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Jump to navigationJump to searchI thought it might be worth it to try implementing functions... I approached this problem by doing the counts each time a trial is completed. I'm not sure if it would have been faster to do all the trials and then store them before counting. Alternately, I guess you could keep track of consective trials as they happen. Maybe one of the CS concentrators might have an answer.

Code:

#!/usr/bin/env python import random import string #CountRepeats counts the number of sequences in a single trial passed as a string #and then counts the consecutive string occurances and adds them to the appropriate #count matrix def countRepeats(trial, search_char, matrix): for i in range (10): substr = ''.join([search_char for n in range (i+1)]) #create the substring to search for of appropriate length count = 0 pos = trial.find(substr,0) while not pos == -1: count = count + 1 pos = trial.find(substr, pos +1) matrix[i][count]+=1 #add one to the appropriate element in the 2d matrix #DisplayCounts displays the data stored in the matrix and calculates total occurances def displayCounts (character, matrix): print print Title = "Number of trials with n occurances of the given consecutive string of "+character print Title.rjust(80) print "n".rjust(45) print "String".rjust(len(matrix)), for m in range(len(matrix[0])): print repr(m).rjust(6), print "Total*".rjust(8) totals = [0,0,0,0,0,0,0,0,0,0] for i in range(len(matrix)): substr = ''.join([character for n in range (i+1)]) print substr.rjust(len(matrix)), for j in range(len(matrix[i])): print repr(matrix [i][j]).rjust (6), total = 0 for k in range(len(matrix [i])): total+=matrix[i][k]*k print repr(total).rjust(7) totals[i]=total print "*Total refers to total occurances of a particular string" return totals #Initialize a list of 10 zeros zero_list = range(10) for i in range(10): zero_list[i]=0; print zero_list; #there must be a better way to do this.... #ARGH! I originally intended to use zero_string below, but apparently it passes a pointer instead of a value... #Initialize 2d matrix to store data count_of_H_counts = [] count_of_T_counts = [] for j in range (10): count_of_H_counts.append ([0,0,0,0,0,0,0,0,0,0,0]) #wanted to use zero_string here count_of_T_counts.append ([0,0,0,0,0,0,0,0,0,0,0]) #and here #Run Trials for k in range (10000): #This for loop controls the number of trials performed #where each trial is ten tosses random.seed() #populating the trial temp = "" for l in range (10): if random.random()<0.5: temp = temp + "H" else: temp = temp + "T" #call the countRepeats function to process the new temp trial and add to H/T matrix countRepeats(temp, 'H',count_of_H_counts) countRepeats(temp, 'T',count_of_T_counts) #Call displaycounts to display the tables and calculate totals Htotals=displayCounts ('H',count_of_H_counts) Ttotals=displayCounts ('T',count_of_T_counts) #Display the totals print print print "Total Counts" for i in range(len(Htotals)): print repr(i+1).rjust(5),"|",Htotals[i]+Ttotals[i]

Output:

Number of trials with n occurances of the given consecutive string of H n String 0 1 2 3 4 5 6 7 8 9 10 Total* H 5 102 447 1188 2065 2475 2040 1123 465 79 11 49837 HH 1429 2356 2359 1775 1097 613 251 95 14 11 0 22234 HHH 5025 2314 1366 739 339 148 44 14 11 0 0 9809 HHHH 7578 1309 655 274 115 44 14 11 0 0 0 4282 HHHHH 8922 638 256 115 44 14 11 0 0 0 0 1807 HHHHHH 9560 256 115 44 14 11 0 0 0 0 0 729 HHHHHHH 9816 115 44 14 11 0 0 0 0 0 0 289 HHHHHHHH 9931 44 14 11 0 0 0 0 0 0 0 105 HHHHHHHHH 9975 14 11 0 0 0 0 0 0 0 0 36 HHHHHHHHHH 9989 11 0 0 0 0 0 0 0 0 0 11 *Total refers to total occurances of a particular string Number of trials with n occurances of the given consecutive string of T n String 0 1 2 3 4 5 6 7 8 9 10 Total* T 11 79 465 1123 2040 2475 2065 1188 447 102 5 50163 TT 1371 2312 2380 1806 1156 595 239 110 26 5 0 22546 TTT 4929 2355 1444 707 345 141 48 26 5 0 0 9959 TTTT 7556 1348 639 277 101 48 26 5 0 0 0 4292 TTTTT 8941 627 252 101 48 26 5 0 0 0 0 1786 TTTTTT 9568 252 101 48 26 5 0 0 0 0 0 727 TTTTTTT 9820 101 48 26 5 0 0 0 0 0 0 295 TTTTTTTT 9921 48 26 5 0 0 0 0 0 0 0 115 TTTTTTTTT 9969 26 5 0 0 0 0 0 0 0 0 36 TTTTTTTTTT 9995 5 0 0 0 0 0 0 0 0 0 5 *Total refers to total occurances of a particular string Total Counts 1 | 100000 2 | 44780 3 | 19768 4 | 8574 5 | 3593 6 | 1456 7 | 584 8 | 220 9 | 72 10 | 16