• using R Under development (unstable) (2012-02-06 r58287)
• using platform: i686-pc-linux-gnu (32-bit)
• using session charset: UTF-8
• checking for file ‘glmnet/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘glmnet’ version ‘1.7.1’
• 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 ‘glmnet’ 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 ... NOTE
  plotCoef: warning in axis(3, at = atdf, label = prettydf, tcl = NA):
  partial argument match of 'label' to 'labels'
• 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 line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking for portable compilation flags in Makevars ... 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 ... [216s/216s] OK
• checking for unstated dependencies in vignettes ... NOTE
  ‘library’ or ‘require’ call not declared from: ‘survival’
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... [2s/2s] WARNING
  Errors in running code in vignettes:
  when running code in ‘Coxnet.rnw’
  ...
  Warning: replacing previous import ‘head’ when loading ‘utils’
  Warning: replacing previous import ‘tail’ when loading ‘utils’
  Loaded glmnet 1.7.1
  
  
  > library("survival")
  
  When sourcing ‘Coxnet.R’:
  Error: there is no package called ‘survival’
  Execution halted
  
• checking re-building of vignette PDFs ... [4s/4s] OK
• checking PDF version of manual ... OK
  WARNING: There was 1 warning.
  NOTE: There were 2 notes.
  See
  ‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/glmnet.Rcheck/00check.log’
  for details.