• using R version 2.11.1 Patched (2010-07-29 r52657)
• using session charset: ISO8859-1
• checking for file 'adegenet/DESCRIPTION' ... OK
• this is package 'adegenet' version '1.2-6'
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking whether package 'adegenet' can be installed ... OK
• checking package directory ... OK
• checking for portable file names ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level 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 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 ... OK
• checking Rd contents ... OK
• checking data for non-ASCII characters ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking for portable use of $BLAS_LIBS ... OK
• checking examples ... ERROR
  Running examples in 'adegenet-Ex.R' failed.
  The error most likely occurred in:
  
  > ### * haploGen
  >
  > flush(stderr()); flush(stdout())
  >
  > ### Name: haploGen
  > ### Title: Simulation of genealogies of haplotypes
  > ### Aliases: haploGen print.haploGen [.haploGen labels.haploGen
  > ### as.POSIXct.haploGen seqTrack.haploGen haploGen-class
  > ### as.seqTrack.haploGen plotHaploGen sample.haploGen
  > ### coerce,haploGen,graphNEL-method as,haploGen,graphNEL-method
  >
  > ### ** Examples
  >
  > if(require(ape)){
  + ## PERFORM SIMULATIONS
  + x <- haploGen(repro=2)
  + x
  +
  + ## PLOT SPATIAL SPREAD
  + plotHaploGen(x, bg="white")
  + title("Spatial dispersion of the haplotypes")
  +
  + ## PLOT GENEALOGY
  + if(require(graph) & require(Rgraphviz)){
  + g=as(x, "graphNEL")
  + g
  + renderGraph(layoutGraph(g))
  + }
  +
  +
  + ## USE SEQTRACK RECONSTRUCTION
  + x.recons <- seqTrack(x)
  + mean(x.recons$ances==x$ances, na.rm=TRUE) # proportion of correct reconstructions
  +
  + }
  Loading required package: ape
  Error in vector("list", n) : invalid 'length' argument
  Calls: haploGen ... sapply -> lapply -> as.list -> as.list.DNAbin -> vector
  Execution halted