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1 '''
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2 python wrapper for cdf plot
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3 '''
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4
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5 import os,sys
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6
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7 filename1 = sys.argv[1]
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8 filename2 = sys.argv[2]
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9 output = sys.argv[3]
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10 c1 = sys.argv[4].strip()
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11 c2 = sys.argv[5].strip()
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12 label1,label2 = sys.argv[6].strip().split(',')
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13 title = sys.argv[8].strip()
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14 log = sys.argv[7]
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15
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16
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17
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18 rf = open('tmp.r','w')
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19
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20 rf.write("options(warn=-1)\n")
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21
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22 rf.write("x1 <- read.table('"+filename1+"')\n")
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23 rf.write("x2 <- read.table('"+filename2+"')\n")
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24
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25
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26 rf.write("mycdf <- function(x1,x2) {\n")
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27 rf.write(" sx1 <- sort(x1)\n")
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28 rf.write(" sy1 <- c(1:length(sx1))/length(sx1)\n")
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29 rf.write(" sx2 <- sort(x2)\n")
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30 rf.write(" sy2 <- c(1:length(sx2))/length(sx2)\n")
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31 rf.write(" mi <- min(c(x1,x2))\n")
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32 rf.write(" ma <- max(c(x1,x2))\n")
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33 rf.write(" sx1 <- c(mi,sx1,ma)\n")
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34 rf.write(" sx2 <- c(mi,sx2,ma)\n")
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35 rf.write(" sy1 <- c(0,sy1,1)\n")
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36 rf.write(" sy2 <- c(0,sy2,1)\n")
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37 rf.write(" pv <- ks.test(x1,x2)$p.value\n")
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38 rf.write(" list(sx1,sy1,sx2,sy2,pv)\n")
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39 rf.write("}\n")
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40
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41 rf.write("list1 <- x1[,"+c1+"]\n")
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42 rf.write("list2 <- x2[,"+c2+"]\n")
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43
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44 rf.write("list1[list1 > 1e10] <- 1e10\n")
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45 rf.write("list2[list2 > 1e10] <- 1e10\n")
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46 rf.write("list1[list1 < -1e10] <- -1e10\n")
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47 rf.write("list2[list2 < -1e10] <- -1e10\n")
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48
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49 rf.write("max(list1)\n")
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50 rf.write("max(list2)\n")
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51 rf.write("min(list1)\n")
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52 rf.write("min(list2)\n")
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53
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54
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55
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56 if log == 'log':
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57 rf.write("list1 <- log2(list1) \n")
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58 rf.write("list2 <- log2(list2) \n")
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59 rf.write("res <- mycdf(list1,list2)\n")
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60
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61 rf.write("pdf('"+output+"')\n")
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62 rf.write("plot(res[[1]],res[[2]],type='l',lty=1,lwd=2,col='red',main=paste('"+title+"',format(res[[5]], digit=2,scientific = T),sep=' , p='),xlab='value',ylab='cumulative frequency')\n")
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63 rf.write("lines(res[[3]],res[[4]],type='l',lty=2,lwd=2,col='blue')\n")
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64 rf.write("legend('bottomright',c('"+label1+"','"+label2+"'),col=c('red','blue'), lty=1:2, lwd=2, bty='n')\n")
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65 rf.write("dev.off()\n")
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66
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67 rf.close()
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68 os.system("R --vanilla < tmp.r")
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69 os.system('rm tmp.r')
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