• using R Under development (unstable) (2012-08-11 r60235)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘ggm/DESCRIPTION’ ... OK
• this is package ‘ggm’ version ‘1.99-5’
• 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 whether package ‘ggm’ can be installed ... OK
• checking installed package size ... OK
• checking package directory ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... 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 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 ... OK
• 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 ‘ggm-Ex.R’ failed
  The error most likely occurred in:
  
  > ### Name: AG
  > ### Title: Ancestral graph
  > ### Aliases: AG
  > ### Keywords: graphs ancestral graph directed acyclic graph marginalization
  > ### and conditioning
  >
  > ### ** Examples
  >
  > ##The adjacency matrix of a DAG
  > ex<-matrix(c(0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,
  + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,
  + 1,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,
  + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,
  + 0,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,
  + 0,1,0,0,1,0,0,0,0,0,0,0,0,0,0,0,
  + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,
  + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,
  + 0,0,0,0,0,0,1,1,0,0,0,0,0,0,0,0,
  + 0,0,0,0,0,0,0,1,0,0,0,0,0,0,0,0,
  + 0,0,0,0,1,0,1,0,1,1,0,0,0,0,0,0,
  + 1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,
  + 0,0,0,0,0,0,0,0,0,1,0,1,0,0,0,0,
  + 0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,
  + 1,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,
  + 0,0,0,0,0,0,0,0,0,0,0,1,0,1,0,0),16,16,byrow=TRUE)
  > M <- c(3,5,6,15,16)
  > C <- c(4,7)
  > AG(ex, M, C, plot = TRUE)
  Error in graph[[9]][[3]] : subscript out of bounds
  Calls: AG ... get.edgelist -> %in% -> match -> list.vertex.attributes
  Execution halted