• using R version 2.15.0 Patched (2012-05-19 r59366)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘coxme/DESCRIPTION’ ... OK
• this is package ‘coxme’ version ‘2.2-3’
• 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 whether package ‘coxme’ 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 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 ... [6s/6s] OK
• checking for unstated dependencies in tests ... OK
• checking tests ... [116s/117s] OK
  Running ‘bdstest.R’ [4s/4s]
  Comparing ‘bdstest.Rout’ to ‘bdstest.Rout.save’ ... OK
  Running ‘lmekin1.R’ [7s/7s]
  Comparing ‘lmekin1.Rout’ to ‘lmekin1.Rout.save’ ... OK
  Running ‘lmekin2.R’ [4s/4s]
  Comparing ‘lmekin2.Rout’ to ‘lmekin2.Rout.save’ ... OK
  Running ‘nest1.R’ [4s/4s]
  Comparing ‘nest1.Rout’ to ‘nest1.Rout.save’ ... OK
  Running ‘nest2.R’ [4s/4s]
  Comparing ‘nest2.Rout’ to ‘nest2.Rout.save’ ... OK
  Running ‘refine.R’ [4s/4s]
  Comparing ‘refine.Rout’ to ‘refine.Rout.save’ ... OK
  Running ‘refine1.R’ [4s/4s]
  Comparing ‘refine1.Rout’ to ‘refine1.Rout.save’ ... OK
  Running ‘refine2.R’ [4s/4s]
  Comparing ‘refine2.Rout’ to ‘refine2.Rout.save’ ... OK
  Running ‘refine3.R’ [4s/4s]
  Comparing ‘refine3.Rout’ to ‘refine3.Rout.save’ ... OK
  Running ‘shrink.R’ [4s/4s]
  Comparing ‘shrink.Rout’ to ‘shrink.Rout.save’ ... OK
  Running ‘slope1.R’ [18s/18s]
  Comparing ‘slope1.Rout’ to ‘slope1.Rout.save’ ... OK
  Running ‘slope2.R’ [7s/7s]
  Comparing ‘slope2.Rout’ to ‘slope2.Rout.save’ ... OK
  Running ‘slope3.R’ [7s/7s]
  Comparing ‘slope3.Rout’ to ‘slope3.Rout.save’ ... OK
  Running ‘slope4.R’ [14s/14s]
  Comparing ‘slope4.Rout’ to ‘slope4.Rout.save’ ... OK
  Running ‘strata1.R’ [4s/4s]
  Comparing ‘strata1.Rout’ to ‘strata1.Rout.save’ ... OK
  Running ‘test0.R’ [4s/4s]
  Comparing ‘test0.Rout’ to ‘test0.Rout.save’ ... OK
  Running ‘test1.R’ [4s/4s]
  Comparing ‘test1.Rout’ to ‘test1.Rout.save’ ... OK
  Running ‘test2.R’ [4s/4s]
  Comparing ‘test2.Rout’ to ‘test2.Rout.save’ ... OK
  Running ‘test3.R’ [4s/4s]
  Comparing ‘test3.Rout’ to ‘test3.Rout.save’ ... OK
  Running ‘test4.R’ [4s/4s]
  Comparing ‘test4.Rout’ to ‘test4.Rout.save’ ... OK
  Running ‘twoterm.R’ [4s/4s]
  Comparing ‘twoterm.Rout’ to ‘twoterm.Rout.save’ ...87c87
  < [1] TRUE
  ---
  > [1] "Component 2: Mean relative difference: 2.069803e-08"
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... [119s/119s] OK
• checking re-building of vignette PDFs ... [97s/99s] OK
• checking PDF version of manual ... OK