• using R Under development (unstable) (2012-08-14 r60253)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘amap/DESCRIPTION’ ... OK
• this is package ‘amap’ version ‘0.8-7’
• 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 for hidden files and directories ... OK
• checking whether package ‘amap’ 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 loading without being on the library search path ... 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
  .First.lib: warning in .packages(all = TRUE): partial argument match of
  'all' to 'all.available'
  .onLoad: warning in .packages(all = TRUE): partial argument match of
  'all' to 'all.available'
  biplot.acp: warning in axis(1, label = TRUE, tick = TRUE): partial
  argument match of 'label' to 'labels'
  biplot.acp: warning in axis(2, label = TRUE, tick = TRUE): partial
  argument match of 'label' to 'labels'
  plot.acp: warning in axis(1, label = TRUE, tick = TRUE): partial
  argument match of 'label' to 'labels'
  plot.acp: warning in axis(2, label = TRUE, tick = TRUE): 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 ... NOTE
  S3 methods shown with full name in documentation object 'acp':
  ‘print.acp’
  
  S3 methods shown with full name in documentation object 'plot.acp':
  ‘plot.acp’ ‘biplot.acp’
  
  The \usage entries for S3 methods should use the \method markup and not
  their full name.
  See the chapter ‘Writing R documentation files’ in the ‘Writing R
  Extensions’ manual.
• 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 compilation flags in Makevars ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking compiled code ... NOTE
  File ‘/data/blackswan/ripley/R/packages/tests-devel/amap.Rcheck/amap/libs/amap.so’:
  Found ‘puts’, possibly from ‘printf’ (C), ‘puts’ (C)
  Objects: ‘acprob.o’, ‘hclust.o’
  
  Compiled code should not call functions which might terminate R nor
  write to stdout/stderr instead of to the console.
  
  See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... NOTE
  The following files should probably not be installed:
  ‘amap_sdd.tex’, ‘amap_srs.tex’
  
  Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
  or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
• checking examples ... OK
• 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
  NOTE: There were 4 notes.
  See
  ‘/data/blackswan/ripley/R/packages/tests-devel/amap.Rcheck/00check.log’
  for details.