R version 2.6.1 (2007-11-26)
Copyright (C) 2007 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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> library(dtw);
Loading required package: proxy

Attaching package: 'proxy'


	The following object(s) are masked from package:stats :

	 as.dist,
	 dist 

> 
> ### Synthetic example: check indexes, distance
> ldist<-matrix(1,nrow=6,ncol=6);  # Matrix of ones
> ldist[2,]<-0; ldist[,5]<-0;      # Mark a clear path of zeroes
> ldist[2,5]<-.01;		 # Forcely cut the corner
> 
> ds<-dtw(ldist);			 # DTW with user-supplied local cost matrix
> ds$distance			 # 2
[1] 2
> ds$index1			 # 1 2 2 2 2 3 4 5 6 6
 [1] 1 2 2 2 2 3 4 5 6 6
> ds$index2			 # 1 1 2 3 4 5 5 5 5 6
 [1] 1 1 2 3 4 5 5 5 5 6
> 
> da<-dtw(ldist,step=asymmetric);	 # Also compute the asymmetric
> da$distance			 # 2
[1] 2
> da$index1			 # 1 2 3 4 5 6
[1] 1 2 3 4 5 6
> da$index2			 # 1 3 5 5 5 6
[1] 1 3 5 5 5 6
> 
> da<-dtw(ldist,step=asymmetricP0);	 # The strange aP0 alignment
> da$distance			 # 1
[1] 1
> da$index1			 # 1 2 2 2 2 3 4 5 6 6
 [1] 1 2 2 2 2 3 4 5 6 6
> da$index2			 # 1 1 2 3 4 5 5 5 5 6
 [1] 1 1 2 3 4 5 5 5 5 6
> 
> ds<- dtw:::globalCostMatrix(ldist)
> dsn<- dtw:::globalCostMatrix(ldist,native=FALSE)
Warning message:
In dtw:::globalCostMatrix(ldist, native = FALSE) :
  Native dtw implementation not available: using (slow) interpreted fallback
> stopifnot(all.equal(ds,dsn))		 # TRUE
> 
> 
> ###  Sine/cosine example: verify native output
> ### there may be a random chance of failing due to rounding errors
> idx<-seq(0,6.28,len=100);
> query<-sin(idx)+runif(100)/10;	
> template<-cos(idx)
> ldist<-outer(query,template,FUN=function(x,y){(x-y)^2})
> ds<- dtw:::globalCostMatrix(ldist)
> dsn<- dtw:::globalCostMatrix(ldist,native=FALSE)
Warning message:
In dtw:::globalCostMatrix(ldist, native = FALSE) :
  Native dtw implementation not available: using (slow) interpreted fallback
> all.equal(ds,dsn)		# TRUE
[1] TRUE
> 
> ### Use proxy::dist
> query <- cbind(1:10,1)
> ref <- cbind(11:15,2)
> cxdist <- proxy::dist(query,ref,method="Manhattan")
> d1 <- dtw(query,ref,dist.method="Manhattan")$distance
> d2 <- dtw(cxdist)$distance
> stopifnot(d1==d2)
> 
> 
> ### See if DTW is registered in proxy::dist
> lambda <- dist(query,ref,method="DTW")
> stopifnot(sum(lambda)==470)
> 
>