• using R Under development (unstable) (2012-05-19 r59366)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• using option ‘--no-vignettes’
• checking for file ‘mcmc/DESCRIPTION’ ... OK
• this is package ‘mcmc’ version ‘0.8’
• 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 ‘mcmc’ 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 ... 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’ ... NOTE
  The following files should probably not be installed:
  ‘Makefile’, ‘bfst.tex’, ‘debug.tex’, ‘demo.tex’, ‘metrop.tex’,
  ‘temper.tex’
  
  Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
  or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
• checking examples ... [2s/2s] OK
• checking for unstated dependencies in tests ... OK
• checking tests ... [35s/36s] OK
  Running ‘circle.R’ [1s/1s]
  Comparing ‘circle.Rout’ to ‘circle.Rout.save’ ... OK
  Running ‘initseq.R’ [2s/2s]
  Comparing ‘initseq.Rout’ to ‘initseq.Rout.save’ ...40c40,41
  < Iso 0.0-10
  ---
  > Iso 0.0-8
  > Note: This package now has a NAMESPACE.
  Running ‘logit.R’ [1s/1s]
  Comparing ‘logit.Rout’ to ‘logit.Rout.save’ ...67c67
  < [1] 8.235190e-06 5.499507e-06 6.082246e-06
  ---
  > [1] 8.242296e-06 5.499507e-06 6.082246e-06
  Running ‘logitbat.R’ [1s/1s]
  Comparing ‘logitbat.Rout’ to ‘logitbat.Rout.save’ ... OK
  Running ‘logitfun.R’ [1s/1s]
  Comparing ‘logitfun.Rout’ to ‘logitfun.Rout.save’ ... OK
  Running ‘logitfunarg.R’ [1s/1s]
  Comparing ‘logitfunarg.Rout’ to ‘logitfunarg.Rout.save’ ... OK
  Running ‘logitidx.R’ [1s/1s]
  Comparing ‘logitidx.Rout’ to ‘logitidx.Rout.save’ ... OK
  Running ‘logitlogidx.R’ [1s/1s]
  Comparing ‘logitlogidx.Rout’ to ‘logitlogidx.Rout.save’ ... OK
  Running ‘logitmat.R’ [1s/1s]
  Comparing ‘logitmat.Rout’ to ‘logitmat.Rout.save’ ... OK
  Running ‘logitnegidx.R’ [1s/1s]
  Comparing ‘logitnegidx.Rout’ to ‘logitnegidx.Rout.save’ ... OK
  Running ‘logitsub.R’ [1s/1s]
  Comparing ‘logitsub.Rout’ to ‘logitsub.Rout.save’ ... OK
  Running ‘logitsubbat.R’ [1s/1s]
  Comparing ‘logitsubbat.Rout’ to ‘logitsubbat.Rout.save’ ... OK
  Running ‘logitvec.R’ [1s/1s]
  Comparing ‘logitvec.Rout’ to ‘logitvec.Rout.save’ ... OK
  Running ‘saveseed.R’ [1s/1s]
  Comparing ‘saveseed.Rout’ to ‘saveseed.Rout.save’ ... OK
  Running ‘temp-par-witch.R’ [5s/5s]
  Comparing ‘temp-par-witch.Rout’ to ‘temp-par-witch.Rout.save’ ... OK
  Running ‘temp-par.R’ [4s/4s]
  Comparing ‘temp-par.Rout’ to ‘temp-par.Rout.save’ ...19c19
  < -2.0371 -0.6337 0.2394 0.6685 1.9599
  ---
  > -2.0371 -0.6337 0.2394 0.6686 1.9599
  32,34c32,34
  < Null deviance: 134.602 on 99 degrees of freedom
  < Residual deviance: 86.439 on 96 degrees of freedom
  < AIC: 94.439
  ---
  > Null deviance: 134.60 on 99 degrees of freedom
  > Residual deviance: 86.44 on 96 degrees of freedom
  > AIC: 94.44
  Running ‘temp-ser-witch.R’ [8s/8s]
  Comparing ‘temp-ser-witch.Rout’ to ‘temp-ser-witch.Rout.save’ ... OK
  Running ‘temp-ser.R’ [6s/6s]
  Comparing ‘temp-ser.Rout’ to ‘temp-ser.Rout.save’ ...19c19
  < -2.0371 -0.6337 0.2394 0.6685 1.9599
  ---
  > -2.0371 -0.6337 0.2394 0.6686 1.9599
  32,34c32,34
  < Null deviance: 134.602 on 99 degrees of freedom
  < Residual deviance: 86.439 on 96 degrees of freedom
  < AIC: 94.439
  ---
  > Null deviance: 134.60 on 99 degrees of freedom
  > Residual deviance: 86.44 on 96 degrees of freedom
  > AIC: 94.44
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... SKIPPED
• checking re-building of vignettes ... SKIPPED
• checking PDF version of manual ... OK
  NOTE: There was 1 note.
  See
  ‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/mcmc.Rcheck/00check.log’
  for details.