- using R Under development (unstable) (2012-02-23 r58468)
- using platform: i686-pc-linux-gnu (32-bit)
- using session charset: UTF-8
- checking for file ‘coxme/DESCRIPTION’ ... OK
- this is package ‘coxme’ version ‘2.2-1’
- 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/7s] OK
- checking for unstated dependencies in tests ... OK
- checking tests ... [114s/121s] OK
Running ‘bdstest.R’ [3s/3s]
Comparing ‘bdstest.Rout’ to ‘bdstest.Rout.save’ ...20a21,22
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘lmekin1.R’ [7s/9s]
Comparing ‘lmekin1.Rout’ to ‘lmekin1.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘nest1.R’ [3s/3s]
Comparing ‘nest1.Rout’ to ‘nest1.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘nest2.R’ [3s/3s]
Comparing ‘nest2.Rout’ to ‘nest2.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘refine.R’ [5s/6s]
Comparing ‘refine.Rout’ to ‘refine.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘refine1.R’ [4s/4s]
Comparing ‘refine1.Rout’ to ‘refine1.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘refine2.R’ [7s/7s]
Comparing ‘refine2.Rout’ to ‘refine2.Rout.save’ ...22a23,24
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘refine3.R’ [4s/4s]
Comparing ‘refine3.Rout’ to ‘refine3.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘shrink.R’ [3s/3s]
Comparing ‘shrink.Rout’ to ‘shrink.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘slope1.R’ [22s/24s]
Comparing ‘slope1.Rout’ to ‘slope1.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘slope2.R’ [7s/7s]
Comparing ‘slope2.Rout’ to ‘slope2.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
104c106
< [1] "Mean relative difference: 1.95117e-08"
---
> [1] TRUE
Running ‘slope3.R’ [7s/7s]
Comparing ‘slope3.Rout’ to ‘slope3.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘slope4.R’ [16s/16s]
Comparing ‘slope4.Rout’ to ‘slope4.Rout.save’ ...36a37,38
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘strata1.R’ [3s/3s]
Comparing ‘strata1.Rout’ to ‘strata1.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘test0.R’ [3s/3s]
Comparing ‘test0.Rout’ to ‘test0.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘test1.R’ [3s/3s]
Comparing ‘test1.Rout’ to ‘test1.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘test2.R’ [3s/3s]
Comparing ‘test2.Rout’ to ‘test2.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘test3.R’ [3s/3s]
Comparing ‘test3.Rout’ to ‘test3.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘test4.R’ [3s/3s]
Comparing ‘test4.Rout’ to ‘test4.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
Running ‘twoterm.R’ [4s/4s]
Comparing ‘twoterm.Rout’ to ‘twoterm.Rout.save’ ...17a18,19
> Warning message:
> replacing previous import 'diag' when loading 'Matrix'
94c96
< [1] "Component 2: Mean relative difference: 2.069803e-08"
---
> [1] TRUE
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes in ‘inst/doc’ ... OK
- checking running R code from vignettes ... [64s/64s] OK
- checking re-building of vignette PDFs ... [55s/56s] OK
- checking PDF version of manual ... OK