• using R Under development (unstable) (2012-02-27 r58511)
• using platform: x86_64-pc-mingw32 (64-bit)
• using session charset: ISO8859-1
• checking for file 'analogue/DESCRIPTION' ... OK
• checking extension type ... Package
• this is package 'analogue' version '0.8-0'
• 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 'analogue' 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 ... NOTE
  Found .Internal calls in the following functions:
  'ColSums' 'RowSums' 'bootstrap.mat' 'crossval.wa' 'predict.wa'
  with calls to .Internal functions
  'colSums' 'rowSums' 'sample'
  
  Packages should not call .Internal(): it is not part of the API, for
  use only by R itself and subject to change without notice.
• 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 ... NOTE
  File 'd:/Rcompile/CRANpkg/lib/2.15/analogue/libs/i386/analogue.dll':
  Found 'abort', possibly from 'abort' (C)
  File 'd:/Rcompile/CRANpkg/lib/2.15/analogue/libs/x64/analogue.dll':
  Found 'abort', possibly from 'abort' (C)
  
  Compiled code should not call functions which might terminate R nor
  write to stdout/stderr instead of to the console. The detected symbols
  are linked into the code but might come from libraries and not actually
  be called.
  
  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 are already in R: 'jss.bst'
  Please remove them from your package.
  The following files should probably not be installed:
  'Z.cls'
  
  Consider the use of a .Rinstignore file: see 'Writing R Extensions',
  or move the vignette sources from 'inst/doc' to 'vignettes'.
• checking examples ...
  ** running examples for arch 'i386' ... OK
  ** checking differences from 'analogue-Ex_i386.Rout' to 'analogue-Ex.Rout.save' ...
  2c2
  < This is vegan 2.0-3
  ---
  > This is vegan 2.0-1
  965c965
  < V3.128 29.0 26.067 -2.93333 26.591 -2.40882 0.52035 2.4628 6.319
  ---
  > V3.128 29.0 26.067 -2.93333 26.591 -2.40882 0.52035 2.4628 6.320
  3476c3476
  < V22.219 1
  ---
  > V22.219 2
  3887c3887
  < V22.219 1
  ---
  > V22.219 2
  4766c4766
  < 2.019e+00 9.173e-01 2.934e-15 -3.815e+00
  ---
  > 2.019e+00 9.173e-01 2.228e-14 -3.815e+00
  5390c5390
  < V22.219 1
  ---
  > V22.219 2
  5624c5624
  < Iteration 5: d.sq: 4366.4974
  ---
  > Iteration 5: d.sq: 4366.4975
  5848c5848
  < Iteration 1: d.sq: 4853.7912
  ---
  > Iteration 1: d.sq: 4853.7911
  5867c5867
  < Iteration 5: d.sq: 4366.4974
  ---
  > Iteration 5: d.sq: 4366.4975
  OK
  ** running examples for arch 'x64' ... OK
  ** checking differences from 'analogue-Ex_x64.Rout' to 'analogue-Ex.Rout.save' ...
  2c2
  < This is vegan 2.0-3
  ---
  > This is vegan 2.0-1
  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 3 notes.
  See
  'd:/Rcompile/CRANpkg/local/2.15/analogue.Rcheck/00check.log'
  for details.