R version 3.2.2 (2015-08-14) -- "Fire Safety"
Copyright (C) 2015 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

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+ ,dim=c(16
+ ,51)
+ ,dimnames=list(c('1'
+ ,'2'
+ ,'3'
+ ,'4'
+ ,'5'
+ ,'6'
+ ,'7'
+ ,'8'
+ ,'9'
+ ,'10'
+ ,'11'
+ ,'12'
+ ,'13'
+ ,'14'
+ ,'15'
+ ,'16')
+ ,1:51))
>  y <- array(NA,dim=c(16,51),dimnames=list(c('1','2','3','4','5','6','7','8','9','10','11','12','13','14','15','16'),1:51))
>  for (i in 1:dim(x)[1])
+  {
+  	for (j in 1:dim(x)[2])
+  	{
+  		y[i,j] <- as.numeric(x[i,j])
+  	}
+  }
> par4 = 'FALSE'
> par3 = 'FALSE'
> par2 = '20'
> par1 = 'ward'
> ylab = 'height'
> xlab = 'cases'
> main = 'Dendrogram'
> par4 <- 'FALSE'
> par3 <- 'FALSE'
> par2 <- '20'
> par1 <- 'ward'
> #'GNU S' R Code compiled by R2WASP v. 1.2.291 ()
> #Author: root
> #To cite this work: Wessa, P., (2012), Hierarchical Clustering (v1.0.3) in Free Statistics Software (v$_version), Office for Research Development and Education, URL http://www.wessa.net/rwasp_hierarchicalclustering.wasp/
> #Source of accompanying publication: Office for Research, Development, and Education
> #
> par3 <- as.logical(par3)
> par4 <- as.logical(par4)
> if (par3 == 'TRUE'){
+ dum = xlab
+ xlab = ylab
+ ylab = dum
+ }
> x <- t(y)
> hc <- hclust(dist(x),method=par1)
The "ward" method has been renamed to "ward.D"; note new "ward.D2"
> d <- as.dendrogram(hc)
> str(d)
--[dendrogram w/ 2 branches and 51 members at h = 13.8]
  |--[dendrogram w/ 2 branches and 13 members at h = 3.25]
  |  |--[dendrogram w/ 2 branches and 7 members at h = 1.39]
  |  |  |--[dendrogram w/ 2 branches and 4 members at h = 0.951]
  |  |  |  |--[dendrogram w/ 2 branches and 2 members at h = 0.529]
  |  |  |  |  |--leaf "5" 
  |  |  |  |  `--leaf "6" 
  |  |  |  `--[dendrogram w/ 2 branches and 2 members at h = 0.838]
  |  |  |     |--leaf "7" 
  |  |  |     `--leaf "11" 
  |  |  `--[dendrogram w/ 2 branches and 3 members at h = 1.01]
  |  |     |--leaf "12" 
  |  |     `--[dendrogram w/ 2 branches and 2 members at h = 0.789]
  |  |        |--leaf "10" 
  |  |        `--leaf "13" 
  |  `--[dendrogram w/ 2 branches and 6 members at h = 1.96]
  |     |--[dendrogram w/ 2 branches and 2 members at h = 1.26]
  |     |  |--leaf "8" 
  |     |  `--leaf "49" 
  |     `--[dendrogram w/ 2 branches and 4 members at h = 1.88]
  |        |--leaf "9" 
  |        `--[dendrogram w/ 2 branches and 3 members at h = 1.1]
  |           |--leaf "51" 
  |           `--[dendrogram w/ 2 branches and 2 members at h = 0.5]
  |              |--leaf "48" 
  |              `--leaf "50" 
  `--[dendrogram w/ 2 branches and 38 members at h = 9.19]
     |--[dendrogram w/ 2 branches and 16 members at h = 2.69]
     |  |--[dendrogram w/ 2 branches and 10 members at h = 1.34]
     |  |  |--[dendrogram w/ 2 branches and 2 members at h = 0.624]
     |  |  |  |--leaf "17" 
     |  |  |  `--leaf "18" 
     |  |  `--[dendrogram w/ 2 branches and 8 members at h = 1.04]
     |  |     |--[dendrogram w/ 2 branches and 3 members at h = 0.829]
     |  |     |  |--leaf "23" 
     |  |     |  `--[dendrogram w/ 2 branches and 2 members at h = 0.473]
     |  |     |     |--leaf "15" 
     |  |     |     `--leaf "20" 
     |  |     `--[dendrogram w/ 2 branches and 5 members at h = 0.976]
     |  |        |--[dendrogram w/ 2 branches and 2 members at h = 0.634]
     |  |        |  |--leaf "22" 
     |  |        |  `--leaf "24" 
     |  |        `--[dendrogram w/ 2 branches and 3 members at h = 0.763]
     |  |           |--leaf "21" 
     |  |           `--[dendrogram w/ 2 branches and 2 members at h = 0.473]
     |  |              |--leaf "16" 
     |  |              `--leaf "31" 
     |  `--[dendrogram w/ 2 branches and 6 members at h = 1.51]
     |     |--[dendrogram w/ 2 branches and 2 members at h = 0.684]
     |     |  |--leaf "25" 
     |     |  `--leaf "26" 
     |     `--[dendrogram w/ 2 branches and 4 members at h = 1]
     |        |--leaf "30" 
     |        `--[dendrogram w/ 2 branches and 3 members at h = 0.582]
     |           |--leaf "29" 
     |           `--[dendrogram w/ 2 branches and 2 members at h = 0.33]
     |              |--leaf "27" 
     |              `--leaf "28" 
     `--[dendrogram w/ 2 branches and 22 members at h = 3.95]
        |--[dendrogram w/ 2 branches and 10 members at h = 2.38]
        |  |--[dendrogram w/ 2 branches and 6 members at h = 0.983]
        |  |  |--[dendrogram w/ 2 branches and 3 members at h = 0.673]
        |  |  |  |--leaf "42" 
        |  |  |  `--[dendrogram w/ 2 branches and 2 members at h = 0.66]
        |  |  |     |--leaf "43" 
        |  |  |     `--leaf "47" 
        |  |  `--[dendrogram w/ 2 branches and 3 members at h = 0.745]
        |  |     |--leaf "44" 
        |  |     `--[dendrogram w/ 2 branches and 2 members at h = 0]
        |  |        |--leaf "45" 
        |  |        `--leaf "46" 
        |  `--[dendrogram w/ 2 branches and 4 members at h = 1.01]
        |     |--leaf "41" 
        |     `--[dendrogram w/ 2 branches and 3 members at h = 0.693]
        |        |--leaf "40" 
        |        `--[dendrogram w/ 2 branches and 2 members at h = 0.33]
        |           |--leaf "38" 
        |           `--leaf "39" 
        `--[dendrogram w/ 2 branches and 12 members at h = 2.48]
           |--[dendrogram w/ 2 branches and 7 members at h = 1.23]
           |  |--[dendrogram w/ 2 branches and 3 members at h = 0.528]
           |  |  |--leaf "37" 
           |  |  `--[dendrogram w/ 2 branches and 2 members at h = 0.414]
           |  |     |--leaf "35" 
           |  |     `--leaf "36" 
           |  `--[dendrogram w/ 2 branches and 4 members at h = 1.03]
           |     |--leaf "1" 
           |     `--[dendrogram w/ 2 branches and 3 members at h = 0.591]
           |        |--leaf "32" 
           |        `--[dendrogram w/ 2 branches and 2 members at h = 0.33]
           |           |--leaf "33" 
           |           `--leaf "34" 
           `--[dendrogram w/ 2 branches and 5 members at h = 1.44]
              |--[dendrogram w/ 2 branches and 2 members at h = 0.981]
              |  |--leaf "2" 
              |  `--leaf "4" 
              `--[dendrogram w/ 2 branches and 3 members at h = 1.29]
                 |--leaf "3" 
                 `--[dendrogram w/ 2 branches and 2 members at h = 0.803]
                    |--leaf "14" 
                    `--leaf "19" 
> mysub <- paste('Method: ',par1)
> postscript(file="/var/wessaorg/rcomp/tmp/18phu1447953977.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556) 
> if (par4 == 'TRUE'){
+ plot(d,main=main,ylab=ylab,xlab=xlab,horiz=par3, nodePar=list(pch = c(1,NA), cex=0.8, lab.cex = 0.8),type='t',center=T, sub=mysub)
+ } else {
+ plot(d,main=main,ylab=ylab,xlab=xlab,horiz=par3, nodePar=list(pch = c(1,NA), cex=0.8, lab.cex = 0.8), sub=mysub)
+ }
> dev.off()
null device 
          1 
> if (par2 != 'ALL'){
+ if (par3 == 'TRUE'){
+ ylab = 'cluster'
+ } else {
+ xlab = 'cluster'
+ }
+ par2 <- as.numeric(par2)
+ memb <- cutree(hc, k = par2)
+ cent <- NULL
+ for(k in 1:par2){
+ cent <- rbind(cent, colMeans(x[memb == k, , drop = FALSE]))
+ }
+ hc1 <- hclust(dist(cent),method=par1, members = table(memb))
+ de <- as.dendrogram(hc1)
+ postscript(file="/var/wessaorg/rcomp/tmp/2uz9q1447953977.ps",horizontal=F,onefile=F,pagecentre=F,paper="special",width=8.3333333333333,height=5.5555555555556) 
+ if (par4 == 'TRUE'){
+ plot(de,main=main,ylab=ylab,xlab=xlab,horiz=par3, nodePar=list(pch = c(1,NA), cex=0.8, lab.cex = 0.8),type='t',center=T, sub=mysub)
+ } else {
+ plot(de,main=main,ylab=ylab,xlab=xlab,horiz=par3, nodePar=list(pch = c(1,NA), cex=0.8, lab.cex = 0.8), sub=mysub)
+ }
+ dev.off()
+ str(de)
+ }
The "ward" method has been renamed to "ward.D"; note new "ward.D2"
--[dendrogram w/ 2 branches and 20 members at h = 6.81]
  |--[dendrogram w/ 2 branches and 7 members at h = 2.27]
  |  |--[dendrogram w/ 2 branches and 3 members at h = 1.2]
  |  |  |--leaf 19 
  |  |  `--[dendrogram w/ 2 branches and 2 members at h = 0.915]
  |  |     |--leaf 18 
  |  |     `--leaf 20 
  |  `--[dendrogram w/ 2 branches and 4 members at h = 1.56]
  |     |--leaf 6 
  |     `--[dendrogram w/ 2 branches and 3 members at h = 1.33]
  |        |--leaf 5 
  |        `--[dendrogram w/ 2 branches and 2 members at h = 0.711]
  |           |--leaf 4 
  |           `--leaf 7 
  `--[dendrogram w/ 2 branches and 13 members at h = 3.41]
     |--[dendrogram w/ 2 branches and 6 members at h = 1.24]
     |  |--[dendrogram w/ 2 branches and 2 members at h = 0.82]
     |  |  |--leaf 12 
     |  |  `--leaf 13 
     |  `--[dendrogram w/ 2 branches and 4 members at h = 1.01]
     |     |--leaf 1 
     |     `--[dendrogram w/ 2 branches and 3 members at h = 0.78]
     |        |--leaf 11 
     |        `--[dendrogram w/ 2 branches and 2 members at h = 0.508]
     |           |--leaf 9 
     |           `--leaf 10 
     `--[dendrogram w/ 2 branches and 7 members at h = 1.46]
        |--[dendrogram w/ 2 branches and 3 members at h = 1.19]
        |  |--leaf 3 
        |  `--[dendrogram w/ 2 branches and 2 members at h = 0.818]
        |     |--leaf 16 
        |     `--leaf 17 
        `--[dendrogram w/ 2 branches and 4 members at h = 1.21]
           |--leaf 2 
           `--[dendrogram w/ 2 branches and 3 members at h = 0.857]
              |--leaf 8 
              `--[dendrogram w/ 2 branches and 2 members at h = 0.581]
                 |--leaf 14 
                 `--leaf 15 
> 
> #Note: the /var/wessaorg/rcomp/createtable file can be downloaded at http://www.wessa.net/cretab
> load(file="/var/wessaorg/rcomp/createtable")
> 
> a<-table.start()
> a<-table.row.start(a)
> a<-table.element(a,'Summary of Dendrogram',2,TRUE)
> a<-table.row.end(a)
> a<-table.row.start(a)
> a<-table.element(a,'Label',header=TRUE)
> a<-table.element(a,'Height',header=TRUE)
> a<-table.row.end(a)
> num <- length(x[,1])-1
> for (i in 1:num)
+ {
+ a<-table.row.start(a)
+ a<-table.element(a,hc$labels[i])
+ a<-table.element(a,hc$height[i])
+ a<-table.row.end(a)
+ }
> a<-table.end(a)
> table.save(a,file="/var/wessaorg/rcomp/tmp/3ludb1447953977.tab") 
> if (par2 != 'ALL'){
+ a<-table.start()
+ a<-table.row.start(a)
+ a<-table.element(a,'Summary of Cut Dendrogram',2,TRUE)
+ a<-table.row.end(a)
+ a<-table.row.start(a)
+ a<-table.element(a,'Label',header=TRUE)
+ a<-table.element(a,'Height',header=TRUE)
+ a<-table.row.end(a)
+ num <- par2-1
+ for (i in 1:num)
+ {
+ a<-table.row.start(a)
+ a<-table.element(a,i)
+ a<-table.element(a,hc1$height[i])
+ a<-table.row.end(a)
+ }
+ a<-table.end(a)
+ table.save(a,file="/var/wessaorg/rcomp/tmp/4alff1447953977.tab") 
+ }
> 
> try(system("convert tmp/18phu1447953977.ps tmp/18phu1447953977.png",intern=TRUE))
character(0)
> try(system("convert tmp/2uz9q1447953977.ps tmp/2uz9q1447953977.png",intern=TRUE))
character(0)
> 
> 
> proc.time()
   user  system elapsed 
  1.105   0.186   1.295