• using R version 3.0.1 Patched (2013-05-16 r62757)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘diffusionMap/DESCRIPTION’ ... OK
• this is package ‘diffusionMap’ version ‘1.0-0’
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘diffusionMap’ can be installed ... OK
• checking installed package size ... OK
• checking package directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking R files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking for unstated dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... OK
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... NOTE
  S3 methods shown with full name in documentation object 'plot.dmap':
  ‘plot.dmap’
  
  S3 methods shown with full name in documentation object 'print.dmap':
  ‘print.dmap’
  
  The \usage entries for S3 methods should use the \method markup and not
  their full name.
  See the chapter ‘Writing R documentation files’ in the ‘Writing R
  Extensions’ manual.
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking examples ... ERROR
  Running examples in ‘diffusionMap-Ex.R’ failed
  The error most likely occurred in:
  
  > ### Name: adapreg
  > ### Title: Adaptive Regression
  > ### Aliases: adapreg
  > ### Keywords: multivariate nonparametric
  >
  > ### ** Examples
  >
  >
  > ## trig function on circle
  > t=seq(-pi,pi,.01)
  > x=cbind(cos(t),sin(t))
  > y = cos(3*t) + rnorm(length(t),0,.1)
  > tcol = topo.colors(32)
  > colvec = floor((y-min(y))/(max(y)-min(y))*32); colvec[colvec==0] = 1
  > scatterplot3d(x[,1],x[,2],y,color=tcol[colvec],pch=20,main="Cosine function supported on circle",angle=55,cex.main=2,col.axis="gray",cex.symbols=2,cex.lab=2,xlab=expression("x"[1]),ylab=expression("x"[2]),zlab="y")
  >
  > D = as.matrix(dist(x))
  > # do 10-fold cross-validation to optimize (epsilon, m):
  > AR = adapreg(D,y)
  [1] "Doing 10-fold cross-validation"
  [1] "Finding optimal model for epsilon= 0.0438"
  [1] "Performing eigendecomposition"
  [1] "Computing Diffusion Coordinates"
  [1] "Elapsed time: 0.259 seconds"
  Warning in optimize(adapreg.m, lower = 0, upper = epsilonCompute(D, runif(1, :
  NA/Inf replaced by maximum positive value
  [1] "Finding optimal model for epsilon= 0.0709"
  [1] "Performing eigendecomposition"
  At line 409 of file dsaupd.f
  Fortran runtime error: Actual string length is shorter than the declared one for dummy argument 'bmat' (0/1)