• using R version 2.14.2 (2012-02-29)
• using platform: i386-pc-mingw32 (32-bit)
• using session charset: ISO8859-1
• 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 whether package 'coxme' can be installed ... OK
• 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 examples ...
  ** running examples for arch 'i386' ... OK
  ** running examples for arch 'x64' ... OK
• checking for unstated dependencies in tests ... OK
• checking tests ...
  ** running tests for arch 'i386' OK
  Running 'bdstest.R'
  Comparing 'bdstest.Rout' to 'bdstest.Rout.save' ...14,22d13
  <
  < Attaching package: 'Matrix'
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  Running 'lmekin1.R'
  Comparing 'lmekin1.Rout' to 'lmekin1.Rout.save' ...11,19d10
  <
  < Attaching package: 'Matrix'
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  Running 'lmekin2.R'
  Comparing 'lmekin2.Rout' to 'lmekin2.Rout.save' ...11,19d10
  <
  < Attaching package: 'Matrix'
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'nest1.R'
  Comparing 'nest1.Rout' to 'nest1.Rout.save' ...11,19d10
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  < Attaching package: 'Matrix'
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'nest2.R'
  Comparing 'nest2.Rout' to 'nest2.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'refine.R'
  Comparing 'refine.Rout' to 'refine.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'refine1.R'
  Comparing 'refine1.Rout' to 'refine1.Rout.save' ...11,19d10
  <
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  Running 'refine2.R'
  Comparing 'refine2.Rout' to 'refine2.Rout.save' ...16,24d15
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'refine3.R'
  Comparing 'refine3.Rout' to 'refine3.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'shrink.R'
  Comparing 'shrink.Rout' to 'shrink.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'slope1.R'
  Comparing 'slope1.Rout' to 'slope1.Rout.save' ...11,19d10
  <
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  Running 'slope2.R'
  Comparing 'slope2.Rout' to 'slope2.Rout.save' ...11,19d10
  <
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  106c97
  < [1] "Mean relative difference: 1.95117e-08"
  ---
  > [1] TRUE
  Running 'slope3.R'
  Comparing 'slope3.Rout' to 'slope3.Rout.save' ...11,19d10
  <
  < Attaching package: 'Matrix'
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  Running 'slope4.R'
  Comparing 'slope4.Rout' to 'slope4.Rout.save' ...30,38d29
  <
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  Running 'strata1.R'
  Comparing 'strata1.Rout' to 'strata1.Rout.save' ...11,19d10
  <
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  Running 'test0.R'
  Comparing 'test0.Rout' to 'test0.Rout.save' ...11,19d10
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  Running 'test1.R'
  Comparing 'test1.Rout' to 'test1.Rout.save' ...11,19d10
  <
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  Running 'test2.R'
  Comparing 'test2.Rout' to 'test2.Rout.save' ...11,19d10
  <
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  Running 'test3.R'
  Comparing 'test3.Rout' to 'test3.Rout.save' ...11,19d10
  <
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  Running 'test4.R'
  Comparing 'test4.Rout' to 'test4.Rout.save' ...11,19d10
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  Running 'twoterm.R'
  Comparing 'twoterm.Rout' to 'twoterm.Rout.save' ...11,19d10
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  ** running tests for arch 'x64' OK
  Running 'bdstest.R'
  Comparing 'bdstest.Rout' to 'bdstest.Rout.save' ...14,22d13
  <
  < Attaching package: 'Matrix'
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'lmekin1.R'
  Comparing 'lmekin1.Rout' to 'lmekin1.Rout.save' ...11,19d10
  <
  < Attaching package: 'Matrix'
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'lmekin2.R'
  Comparing 'lmekin2.Rout' to 'lmekin2.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'nest1.R'
  Comparing 'nest1.Rout' to 'nest1.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'nest2.R'
  Comparing 'nest2.Rout' to 'nest2.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'refine.R'
  Comparing 'refine.Rout' to 'refine.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'refine1.R'
  Comparing 'refine1.Rout' to 'refine1.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'refine2.R'
  Comparing 'refine2.Rout' to 'refine2.Rout.save' ...16,24d15
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'refine3.R'
  Comparing 'refine3.Rout' to 'refine3.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'shrink.R'
  Comparing 'shrink.Rout' to 'shrink.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'slope1.R'
  Comparing 'slope1.Rout' to 'slope1.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'slope2.R'
  Comparing 'slope2.Rout' to 'slope2.Rout.save' ...11,19d10
  <
  < Attaching package: 'Matrix'
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'slope3.R'
  Comparing 'slope3.Rout' to 'slope3.Rout.save' ...11,19d10
  <
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  Running 'slope4.R'
  Comparing 'slope4.Rout' to 'slope4.Rout.save' ...30,38d29
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'strata1.R'
  Comparing 'strata1.Rout' to 'strata1.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'test0.R'
  Comparing 'test0.Rout' to 'test0.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'test1.R'
  Comparing 'test1.Rout' to 'test1.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'test2.R'
  Comparing 'test2.Rout' to 'test2.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'test3.R'
  Comparing 'test3.Rout' to 'test3.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  Running 'test4.R'
  Comparing 'test4.Rout' to 'test4.Rout.save' ...11,19d10
  <
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  Running 'twoterm.R'
  Comparing 'twoterm.Rout' to 'twoterm.Rout.save' ...11,19d10
  <
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  < replacing previous import 'diag' when loading 'Matrix'
  96c87
  < [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 ... OK
• checking re-building of vignette PDFs ... OK
• checking PDF version of manual ... OK