R version 2.12.0 (2010-10-15) Copyright (C) 2010 The R Foundation for Statistical Computing ISBN 3-900051-07-0 Platform: i486-pc-linux-gnu (32-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. 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,17 + ,NA + ,NA) + ,dim=c(6 + ,289) + ,dimnames=list(c('TimeRFC' + ,'TotSize' + ,'CompRV' + ,'CompBlog' + ,'Q1_1' + ,'Q1_9') + ,1:289)) > y <- array(NA,dim=c(6,289),dimnames=list(c('TimeRFC','TotSize','CompRV','CompBlog','Q1_1','Q1_9'),1:289)) > for (i in 1:dim(x)[1]) + { + for (j in 1:dim(x)[2]) + { + y[i,j] <- as.numeric(x[i,j]) + } + } > par4 = 'yes' > par3 = '2' > par2 = 'equal' > par1 = '1' > library(party) Loading required package: survival Loading required package: splines Loading required package: grid Loading required package: modeltools Loading required package: stats4 Loading required package: coin Loading required package: mvtnorm Loading required package: zoo Loading required package: sandwich Loading required package: strucchange Loading required package: vcd Loading required package: MASS Loading required package: colorspace > library(Hmisc) Attaching package: 'Hmisc' The following object(s) are masked from 'package:survival': untangle.specials The following object(s) are masked from 'package:base': format.pval, round.POSIXt, trunc.POSIXt, units > par1 <- as.numeric(par1) > par3 <- as.numeric(par3) > x <- data.frame(t(y)) > is.data.frame(x) [1] TRUE > x <- x[!is.na(x[,par1]),] > k <- length(x[1,]) > n <- length(x[,1]) > colnames(x)[par1] [1] "TimeRFC" > x[,par1] [1] 210907 120982 176508 179321 123185 52746 385534 33170 101645 149061 [11] 165446 237213 173326 133131 258873 180083 324799 230964 236785 135473 [21] 202925 215147 344297 153935 132943 174724 174415 225548 223632 124817 [31] 221698 210767 170266 260561 84853 294424 101011 215641 325107 7176 [41] 167542 106408 96560 265769 269651 149112 175824 152871 111665 116408 [51] 362301 78800 183167 277965 150629 168809 24188 329267 65029 101097 [61] 218946 244052 341570 103597 233328 256462 206161 311473 235800 177939 [71] 207176 196553 174184 143246 187559 187681 119016 182192 73566 194979 [81] 167488 143756 275541 243199 182999 135649 152299 120221 346485 145790 [91] 193339 80953 122774 130585 112611 286468 241066 148446 204713 182079 [101] 140344 220516 243060 162765 182613 232138 265318 85574 310839 225060 [111] 232317 144966 43287 155754 164709 201940 235454 220801 99466 92661 [121] 133328 61361 125930 100750 224549 82316 102010 101523 243511 22938 [131] 41566 152474 61857 99923 132487 317394 21054 209641 22648 31414 [141] 46698 131698 91735 244749 184510 79863 128423 97839 38214 151101 [151] 272458 172494 108043 328107 250579 351067 158015 98866 85439 229242 [161] 351619 84207 120445 324598 131069 204271 165543 141722 116048 250047 [171] 299775 195838 173260 254488 104389 136084 199476 92499 224330 135781 [181] 74408 81240 14688 181633 271856 7199 46660 17547 133368 95227 [191] 152601 98146 79619 59194 139942 118612 72880 65475 99643 71965 [201] 77272 49289 135131 108446 89746 44296 77648 181528 134019 124064 [211] 92630 121848 52915 81872 58981 53515 60812 56375 65490 80949 [221] 76302 104011 98104 67989 30989 135458 73504 63123 61254 74914 [231] 31774 81437 87186 50090 65745 56653 158399 46455 73624 38395 [241] 91899 139526 52164 51567 70551 84856 102538 86678 85709 34662 [251] 150580 99611 19349 99373 86230 30837 31706 89806 62088 40151 [261] 27634 76990 37460 54157 49862 84337 64175 59382 119308 76702 [271] 103425 70344 43410 104838 62215 69304 53117 19764 86680 84105 [281] 77945 89113 91005 40248 64187 50857 56613 62792 72535 > if (par2 == 'kmeans') { + cl <- kmeans(x[,par1], par3) + print(cl) + clm <- matrix(cbind(cl$centers,1:par3),ncol=2) + clm <- clm[sort.list(clm[,1]),] + for (i in 1:par3) { + cl$cluster[cl$cluster==clm[i,2]] <- paste('C',i,sep='') + } + cl$cluster <- as.factor(cl$cluster) + print(cl$cluster) + x[,par1] <- cl$cluster + } > if (par2 == 'quantiles') { + x[,par1] <- cut2(x[,par1],g=par3) + } > if (par2 == 'hclust') { + hc <- hclust(dist(x[,par1])^2, 'cen') + print(hc) + memb <- cutree(hc, k = par3) + dum <- c(mean(x[memb==1,par1])) + for (i in 2:par3) { + dum <- c(dum, mean(x[memb==i,par1])) + } + hcm <- matrix(cbind(dum,1:par3),ncol=2) + hcm <- hcm[sort.list(hcm[,1]),] + for (i in 1:par3) { + memb[memb==hcm[i,2]] <- paste('C',i,sep='') + } + memb <- as.factor(memb) + print(memb) + x[,par1] <- memb + } > if (par2=='equal') { + ed <- cut(as.numeric(x[,par1]),par3,labels=paste('C',1:par3,sep='')) + x[,par1] <- as.factor(ed) + } > table(x[,par1]) C1 C2 221 68 > colnames(x) [1] "TimeRFC" "TotSize" "CompRV" "CompBlog" "Q1_1" "Q1_9" > colnames(x)[par1] [1] "TimeRFC" > x[,par1] [1] C2 C1 C1 C1 C1 C1 C2 C1 C1 C1 C1 C2 C1 C1 C2 C1 C2 C2 C2 C1 C2 C2 C2 C1 C1 [26] C1 C1 C2 C2 C1 C2 C2 C1 C2 C1 C2 C1 C2 C2 C1 C1 C1 C1 C2 C2 C1 C1 C1 C1 C1 [51] C2 C1 C1 C2 C1 C1 C1 C2 C1 C1 C2 C2 C2 C1 C2 C2 C2 C2 C2 C1 C2 C2 C1 C1 C1 [76] C1 C1 C1 C1 C1 C1 C1 C2 C2 C1 C1 C1 C1 C2 C1 C1 C1 C1 C1 C1 C2 C2 C1 C2 C1 [101] C1 C2 C2 C1 C1 C2 C2 C1 C2 C2 C2 C1 C1 C1 C1 C2 C2 C2 C1 C1 C1 C1 C1 C1 C2 [126] C1 C1 C1 C2 C1 C1 C1 C1 C1 C1 C2 C1 C2 C1 C1 C1 C1 C1 C2 C1 C1 C1 C1 C1 C1 [151] C2 C1 C1 C2 C2 C2 C1 C1 C1 C2 C2 C1 C1 C2 C1 C2 C1 C1 C1 C2 C2 C1 C1 C2 C1 [176] C1 C2 C1 C2 C1 C1 C1 C1 C1 C2 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 [201] C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 [226] C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 [251] C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 [276] C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 C1 Levels: C1 C2 > if (par2 == 'none') { + m <- ctree(as.formula(paste(colnames(x)[par1],' ~ .',sep='')),data = x) + } > > #Note: the /var/www/rcomp/createtable file can be downloaded at http://www.wessa.net/cretab > load(file="/var/www/rcomp/createtable") > > if (par2 != 'none') { + m <- ctree(as.formula(paste('as.factor(',colnames(x)[par1],') ~ .',sep='')),data = x) + if (par4=='yes') { + a<-table.start() + a<-table.row.start(a) + a<-table.element(a,'10-Fold Cross Validation',3+2*par3,TRUE) + a<-table.row.end(a) + a<-table.row.start(a) + a<-table.element(a,'',1,TRUE) + a<-table.element(a,'Prediction (training)',par3+1,TRUE) + a<-table.element(a,'Prediction (testing)',par3+1,TRUE) + a<-table.row.end(a) + a<-table.row.start(a) + a<-table.element(a,'Actual',1,TRUE) + for (jjj in 1:par3) a<-table.element(a,paste('C',jjj,sep=''),1,TRUE) + a<-table.element(a,'CV',1,TRUE) + for (jjj in 1:par3) a<-table.element(a,paste('C',jjj,sep=''),1,TRUE) + a<-table.element(a,'CV',1,TRUE) + a<-table.row.end(a) + for (i in 1:10) { + ind <- sample(2, nrow(x), replace=T, prob=c(0.9,0.1)) + m.ct <- ctree(as.formula(paste('as.factor(',colnames(x)[par1],') ~ .',sep='')),data =x[ind==1,]) + if (i==1) { + m.ct.i.pred <- predict(m.ct, newdata=x[ind==1,]) + m.ct.i.actu <- x[ind==1,par1] + m.ct.x.pred <- predict(m.ct, newdata=x[ind==2,]) + m.ct.x.actu <- x[ind==2,par1] + } else { + m.ct.i.pred <- c(m.ct.i.pred,predict(m.ct, newdata=x[ind==1,])) + m.ct.i.actu <- c(m.ct.i.actu,x[ind==1,par1]) + m.ct.x.pred <- c(m.ct.x.pred,predict(m.ct, newdata=x[ind==2,])) + m.ct.x.actu <- c(m.ct.x.actu,x[ind==2,par1]) + } + } + print(m.ct.i.tab <- table(m.ct.i.actu,m.ct.i.pred)) + numer <- 0 + for (i in 1:par3) { + print(m.ct.i.tab[i,i] / sum(m.ct.i.tab[i,])) + numer <- numer + m.ct.i.tab[i,i] + } + print(m.ct.i.cp <- numer / sum(m.ct.i.tab)) + print(m.ct.x.tab <- table(m.ct.x.actu,m.ct.x.pred)) + numer <- 0 + for (i in 1:par3) { + print(m.ct.x.tab[i,i] / sum(m.ct.x.tab[i,])) + numer <- numer + m.ct.x.tab[i,i] + } + print(m.ct.x.cp <- numer / sum(m.ct.x.tab)) + for (i in 1:par3) { + a<-table.row.start(a) + a<-table.element(a,paste('C',i,sep=''),1,TRUE) + for (jjj in 1:par3) a<-table.element(a,m.ct.i.tab[i,jjj]) + a<-table.element(a,round(m.ct.i.tab[i,i]/sum(m.ct.i.tab[i,]),4)) + for (jjj in 1:par3) a<-table.element(a,m.ct.x.tab[i,jjj]) + a<-table.element(a,round(m.ct.x.tab[i,i]/sum(m.ct.x.tab[i,]),4)) + a<-table.row.end(a) + } + a<-table.row.start(a) + a<-table.element(a,'Overall',1,TRUE) + for (jjj in 1:par3) a<-table.element(a,'-') + a<-table.element(a,round(m.ct.i.cp,4)) + for (jjj in 1:par3) a<-table.element(a,'-') + a<-table.element(a,round(m.ct.x.cp,4)) + a<-table.row.end(a) + a<-table.end(a) + table.save(a,file="/var/www/rcomp/tmp/1lhxh1324658275.tab") + } + } m.ct.i.pred m.ct.i.actu 1 2 1 1794 208 2 100 519 [1] 0.8961039 [1] 0.8384491 [1] 0.8824876 m.ct.x.pred m.ct.x.actu 1 2 1 185 23 2 10 51 [1] 0.889423 [1] 0.8360656 [1] 0.8773234 > m Conditional inference tree with 4 terminal nodes Response: as.factor(TimeRFC) Inputs: TotSize, CompRV, CompBlog, Q1_1, Q1_9 Number of observations: 289 1) CompBlog <= 74; criterion = 1, statistic = 131.63 2) TotSize <= 83209; criterion = 1, statistic = 21.033 3) CompBlog <= 66; criterion = 0.993, statistic = 10.192 4)* weights = 180 3) CompBlog > 66 5)* weights = 8 2) TotSize > 83209 6)* weights = 21 1) CompBlog > 74 7)* weights = 80 > postscript(file="/var/www/rcomp/tmp/2xw2g1324658275.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556) > plot(m) > dev.off() null device 1 > postscript(file="/var/www/rcomp/tmp/3dn701324658275.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556) > plot(x[,par1] ~ as.factor(where(m)),main='Response by Terminal Node',xlab='Terminal Node',ylab='Response') > dev.off() null device 1 > if (par2 == 'none') { + forec <- predict(m) + result <- as.data.frame(cbind(x[,par1],forec,x[,par1]-forec)) + colnames(result) <- c('Actuals','Forecasts','Residuals') + print(result) + } > if (par2 != 'none') { + print(cbind(as.factor(x[,par1]),predict(m))) + myt <- table(as.factor(x[,par1]),predict(m)) + print(myt) + } [,1] [,2] [1,] 2 2 [2,] 1 1 [3,] 1 1 [4,] 1 2 [5,] 1 1 [6,] 1 1 [7,] 2 2 [8,] 1 1 [9,] 1 1 [10,] 1 1 [11,] 1 1 [12,] 2 2 [13,] 1 2 [14,] 1 1 [15,] 2 2 [16,] 1 1 [17,] 2 2 [18,] 2 2 [19,] 2 2 [20,] 1 2 [21,] 2 2 [22,] 2 2 [23,] 2 2 [24,] 1 1 [25,] 1 2 [26,] 1 2 [27,] 1 1 [28,] 2 2 [29,] 2 2 [30,] 1 1 [31,] 2 2 [32,] 2 2 [33,] 1 1 [34,] 2 2 [35,] 1 1 [36,] 2 2 [37,] 1 1 [38,] 2 1 [39,] 2 2 [40,] 1 1 [41,] 1 1 [42,] 1 1 [43,] 1 1 [44,] 2 2 [45,] 2 2 [46,] 1 1 [47,] 1 1 [48,] 1 1 [49,] 1 1 [50,] 1 1 [51,] 2 2 [52,] 1 1 [53,] 1 2 [54,] 2 2 [55,] 1 2 [56,] 1 2 [57,] 1 1 [58,] 2 2 [59,] 1 1 [60,] 1 1 [61,] 2 2 [62,] 2 2 [63,] 2 2 [64,] 1 1 [65,] 2 2 [66,] 2 2 [67,] 2 2 [68,] 2 2 [69,] 2 2 [70,] 1 1 [71,] 2 1 [72,] 2 1 [73,] 1 1 [74,] 1 1 [75,] 1 2 [76,] 1 2 [77,] 1 2 [78,] 1 2 [79,] 1 1 [80,] 1 1 [81,] 1 1 [82,] 1 2 [83,] 2 2 [84,] 2 2 [85,] 1 1 [86,] 1 2 [87,] 1 1 [88,] 1 1 [89,] 2 2 [90,] 1 1 [91,] 1 2 [92,] 1 1 [93,] 1 1 [94,] 1 1 [95,] 1 1 [96,] 2 1 [97,] 2 2 [98,] 1 2 [99,] 2 1 [100,] 1 2 [101,] 1 1 [102,] 2 2 [103,] 2 1 [104,] 1 1 [105,] 1 2 [106,] 2 2 [107,] 2 2 [108,] 1 1 [109,] 2 2 [110,] 2 2 [111,] 2 2 [112,] 1 1 [113,] 1 1 [114,] 1 1 [115,] 1 2 [116,] 2 2 [117,] 2 2 [118,] 2 1 [119,] 1 1 [120,] 1 1 [121,] 1 1 [122,] 1 1 [123,] 1 1 [124,] 1 2 [125,] 2 1 [126,] 1 1 [127,] 1 1 [128,] 1 1 [129,] 2 2 [130,] 1 1 [131,] 1 1 [132,] 1 2 [133,] 1 1 [134,] 1 1 [135,] 1 1 [136,] 2 2 [137,] 1 1 [138,] 2 1 [139,] 1 1 [140,] 1 1 [141,] 1 1 [142,] 1 1 [143,] 1 1 [144,] 2 2 [145,] 1 1 [146,] 1 1 [147,] 1 1 [148,] 1 1 [149,] 1 1 [150,] 1 1 [151,] 2 2 [152,] 1 1 [153,] 1 1 [154,] 2 2 [155,] 2 2 [156,] 2 2 [157,] 1 1 [158,] 1 1 [159,] 1 1 [160,] 2 1 [161,] 2 2 [162,] 1 1 [163,] 1 1 [164,] 2 2 [165,] 1 1 [166,] 2 2 [167,] 1 1 [168,] 1 1 [169,] 1 1 [170,] 2 1 [171,] 2 2 [172,] 1 2 [173,] 1 1 [174,] 2 2 [175,] 1 2 [176,] 1 1 [177,] 2 2 [178,] 1 1 [179,] 2 2 [180,] 1 1 [181,] 1 1 [182,] 1 1 [183,] 1 1 [184,] 1 1 [185,] 2 2 [186,] 1 1 [187,] 1 1 [188,] 1 1 [189,] 1 1 [190,] 1 1 [191,] 1 1 [192,] 1 1 [193,] 1 1 [194,] 1 1 [195,] 1 1 [196,] 1 1 [197,] 1 1 [198,] 1 1 [199,] 1 1 [200,] 1 1 [201,] 1 1 [202,] 1 1 [203,] 1 1 [204,] 1 1 [205,] 1 1 [206,] 1 1 [207,] 1 1 [208,] 1 1 [209,] 1 1 [210,] 1 1 [211,] 1 1 [212,] 1 1 [213,] 1 1 [214,] 1 1 [215,] 1 1 [216,] 1 1 [217,] 1 1 [218,] 1 1 [219,] 1 1 [220,] 1 1 [221,] 1 1 [222,] 1 1 [223,] 1 1 [224,] 1 1 [225,] 1 1 [226,] 1 1 [227,] 1 1 [228,] 1 1 [229,] 1 1 [230,] 1 1 [231,] 1 1 [232,] 1 1 [233,] 1 1 [234,] 1 1 [235,] 1 1 [236,] 1 1 [237,] 1 1 [238,] 1 1 [239,] 1 1 [240,] 1 1 [241,] 1 1 [242,] 1 1 [243,] 1 1 [244,] 1 1 [245,] 1 1 [246,] 1 1 [247,] 1 1 [248,] 1 1 [249,] 1 1 [250,] 1 1 [251,] 1 1 [252,] 1 1 [253,] 1 1 [254,] 1 1 [255,] 1 1 [256,] 1 1 [257,] 1 1 [258,] 1 1 [259,] 1 1 [260,] 1 1 [261,] 1 1 [262,] 1 1 [263,] 1 1 [264,] 1 1 [265,] 1 1 [266,] 1 1 [267,] 1 1 [268,] 1 1 [269,] 1 1 [270,] 1 1 [271,] 1 1 [272,] 1 1 [273,] 1 1 [274,] 1 1 [275,] 1 1 [276,] 1 1 [277,] 1 1 [278,] 1 1 [279,] 1 1 [280,] 1 1 [281,] 1 1 [282,] 1 1 [283,] 1 1 [284,] 1 1 [285,] 1 1 [286,] 1 1 [287,] 1 1 [288,] 1 1 [289,] 1 1 C1 C2 C1 198 23 C2 11 57 > postscript(file="/var/www/rcomp/tmp/4xvj11324658275.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556) > if(par2=='none') { + op <- par(mfrow=c(2,2)) + plot(density(result$Actuals),main='Kernel Density Plot of Actuals') + plot(density(result$Residuals),main='Kernel Density Plot of Residuals') + plot(result$Forecasts,result$Actuals,main='Actuals versus Predictions',xlab='Predictions',ylab='Actuals') + plot(density(result$Forecasts),main='Kernel Density Plot of Predictions') + par(op) + } > if(par2!='none') { + plot(myt,main='Confusion Matrix',xlab='Actual',ylab='Predicted') + } > dev.off() null device 1 > if (par2 == 'none') { + detcoef <- cor(result$Forecasts,result$Actuals) + a<-table.start() + a<-table.row.start(a) + a<-table.element(a,'Goodness of Fit',2,TRUE) + a<-table.row.end(a) + a<-table.row.start(a) + a<-table.element(a,'Correlation',1,TRUE) + a<-table.element(a,round(detcoef,4)) + a<-table.row.end(a) + a<-table.row.start(a) + a<-table.element(a,'R-squared',1,TRUE) + a<-table.element(a,round(detcoef*detcoef,4)) + a<-table.row.end(a) + a<-table.row.start(a) + a<-table.element(a,'RMSE',1,TRUE) + a<-table.element(a,round(sqrt(mean((result$Residuals)^2)),4)) + a<-table.row.end(a) + a<-table.end(a) + table.save(a,file="/var/www/rcomp/tmp/5roy71324658275.tab") + a<-table.start() + a<-table.row.start(a) + a<-table.element(a,'Actuals, Predictions, and Residuals',4,TRUE) + a<-table.row.end(a) + a<-table.row.start(a) + a<-table.element(a,'#',header=TRUE) + a<-table.element(a,'Actuals',header=TRUE) + a<-table.element(a,'Forecasts',header=TRUE) + a<-table.element(a,'Residuals',header=TRUE) + a<-table.row.end(a) + for (i in 1:length(result$Actuals)) { + a<-table.row.start(a) + a<-table.element(a,i,header=TRUE) + a<-table.element(a,result$Actuals[i]) + a<-table.element(a,result$Forecasts[i]) + a<-table.element(a,result$Residuals[i]) + a<-table.row.end(a) + } + a<-table.end(a) + table.save(a,file="/var/www/rcomp/tmp/6d2oi1324658275.tab") + } > if (par2 != 'none') { + a<-table.start() + a<-table.row.start(a) + a<-table.element(a,'Confusion Matrix (predicted in columns / actuals in rows)',par3+1,TRUE) + a<-table.row.end(a) + a<-table.row.start(a) + a<-table.element(a,'',1,TRUE) + for (i in 1:par3) { + a<-table.element(a,paste('C',i,sep=''),1,TRUE) + } + a<-table.row.end(a) + for (i in 1:par3) { + a<-table.row.start(a) + a<-table.element(a,paste('C',i,sep=''),1,TRUE) + for (j in 1:par3) { + a<-table.element(a,myt[i,j]) + } + a<-table.row.end(a) + } + a<-table.end(a) + table.save(a,file="/var/www/rcomp/tmp/765xf1324658275.tab") + } > > try(system("convert tmp/2xw2g1324658275.ps tmp/2xw2g1324658275.png",intern=TRUE)) character(0) > try(system("convert tmp/3dn701324658275.ps tmp/3dn701324658275.png",intern=TRUE)) character(0) > try(system("convert tmp/4xvj11324658275.ps tmp/4xvj11324658275.png",intern=TRUE)) character(0) > > > proc.time() user system elapsed 3.040 0.130 3.157