• using R Under development (unstable) (2012-05-22 r59405)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘dlm/DESCRIPTION’ ... OK
• this is package ‘dlm’ version ‘1.1-2’
• 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 ‘dlm’ can be installed ... [9s/14s] 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
  dlmFilter: warning in matrix(0, nr = nrow(y), nc = length(mod$m0)):
  partial argument match of 'nr' to 'nrow'
  dlmFilter: warning in matrix(0, nr = nrow(y), nc = length(mod$m0)):
  partial argument match of 'nc' to 'ncol'
  dlmFilter: warning in matrix(0, nr = nrow(y), nc = ncol(y)): partial
  argument match of 'nr' to 'nrow'
  dlmFilter: warning in matrix(0, nr = nrow(y), nc = ncol(y)): partial
  argument match of 'nc' to 'ncol'
  dlmModARMA: warning in matrix(c(1, rep(0, r - 1)), nr = 1): partial
  argument match of 'nr' to 'nrow'
  dlmModARMA: warning in matrix(R, nr = 1): partial argument match of
  'nr' to 'nrow'
  dlmModPoly: warning in matrix(c(1, rep(0, order - 1)), nr = 1): partial
  argument match of 'nr' to 'nrow'
  dlmModReg: warning in matrix(1:ncol(X), nr = 1): partial argument match
  of 'nr' to 'nrow'
  dlmModSeas: warning in matrix(c(1, rep(0, p - 1)), nr = 1): partial
  argument match of 'nr' to 'nrow'
  dlmRandom: warning in matrix(0, nr = nobs + 1, nc = p): partial
  argument match of 'nr' to 'nrow'
  dlmRandom: warning in matrix(0, nr = nobs + 1, nc = p): partial
  argument match of 'nc' to 'ncol'
  dlmRandom: warning in matrix(0, nr = nobs, nc = m): partial argument
  match of 'nr' to 'nrow'
  dlmRandom: warning in matrix(0, nr = nobs, nc = m): partial argument
  match of 'nc' to 'ncol'
  dlmRandom: warning in matrix(0, nr = nobs, nc = m * p * tvFF + m * m *
  tvV + p * p * tvGG + p * p * tvW): partial argument match of 'nr' to
  'nrow'
  dlmRandom: warning in matrix(0, nr = nobs, nc = m * p * tvFF + m * m *
  tvV + p * p * tvGG + p * p * tvW): partial argument match of 'nc' to
  'ncol'
  ergMean: warning in matrix(colMeans(x), nr = 1): partial argument match
  of 'nr' to 'nrow'
• 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 compilation flags in Makevars ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking compiled code ... WARNING
  File ‘/data/gannet/tmp/ripley/R/packages/tests-devel/dlm.Rcheck/dlm/libs/dlm.so’:
  Found ‘exit’, possibly from ‘exit’ (C)
  Object: ‘arms-R.o’
  Found ‘printf’, possibly from ‘printf’ (C)
  Object: ‘dlm.o’
  Found ‘putchar’, possibly from ‘putchar’ (C)
  Object: ‘dlm.o’
  Found ‘puts’, possibly from ‘printf’ (C), ‘puts’ (C)
  Object: ‘dlm.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’ ... OK
• checking examples ... OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... [52s/74s] OK
• checking re-building of vignette PDFs ... [52s/90s] OK
• checking PDF version of manual ... OK
  WARNING: There was 1 warning.
  NOTE: There was 1 note.
  See
  ‘/data/gannet/tmp/ripley/R/packages/tests-devel/dlm.Rcheck/00check.log’
  for details.