• using R Under development (unstable) (2012-02-24 r58481)
• using platform: x86_64-pc-mingw32 (64-bit)
• using session charset: ISO8859-1
• checking for file 'TwoPhaseInd/DESCRIPTION' ... OK
• checking extension type ... Package
• this is package 'TwoPhaseInd' 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 whether package 'TwoPhaseInd' can be installed ... WARNING
  Found the following significant warnings:
  Warning: Rank mismatch in argument 'qy' at (1) (rank-1 and scalar)
  Warning: Rank mismatch in argument 'qty' at (1) (rank-1 and scalar)
  See http://www.r-project.org/nosvn/R.check/r-devel-windows-ix86+x86_64/TwoPhaseInd-00install.html for details.
• checking installed package size ... 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
• loading checks for arch 'i386'
  ** 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
• loading checks for arch 'x64'
  ** 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 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 line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking compiled code ... OK
• checking sizes of PDF files under 'inst/doc' ... OK
• checking installed files from 'inst/doc' ... OK
• checking examples ...
  ** running examples for arch 'i386' ... OK
  ** running examples for arch 'x64' ... OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in 'inst/doc' ... OK
• checking running R code from vignettes ... ERROR
  Errors in running code in vignettes:
  when running code in 'TwoPhaseInd.Rnw'
  ...
  > ls()
  [1] "whiBioMarker"
  
  > spmleNonIndExtra <- spmle(data = whiBioMarker, response = "stroke",
  + treatment = "hrtdisp", BaselineMarker = "papbl", extra = c("age",
  + .... [TRUNCATED]
  Warning in eval(expr, envir, enclos) :
  non-integer #successes in a binomial glm!
  
  ... incomplete output. Crash?