* using log directory 'd:/Rcompile/CRANpkg/local/2.15/bayesSurv.Rcheck'
* using R version 2.15.0 (2012-03-30)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* checking for file 'bayesSurv/DESCRIPTION' ... OK
* this is package 'bayesSurv' version '0.6-2'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... NOTE
As from R 2.14.0 all packages need a namespace.
One will be generated on installation, but it is better to handcraft a
NAMESPACE file: R CMD build will produce a suitable starting point.
CRAN requires a NAMESPACE file for all submissions.
* checking whether package 'bayesSurv' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 12.1Mb
  sub-directories of 1Mb or more:
    data   4.8Mb
    doc    3.9Mb
    libs   2.9Mb
* 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
* 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 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
File 'bayesSurv/R/zzz.R':
  .First.lib calls:
    require(survival)
    require(coda)
    require(smoothSurv)

Package startup functions should not change the search path.
See section 'Good practice' in ?.onAttach.

files2coda: warning in read.table(file = paste(dir, "/", files[i], sep
  = ""), header = header, nrow = 1): partial argument match of 'nrow'
  to 'nrows'
* 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 ... NOTE
File 'd:/Rcompile/CRANpkg/lib/2.15/bayesSurv/libs/i386/bayesSurv.dll':
  Found '_ZSt4cerr', possibly from 'std::cerr' (C++)
    Objects: 'AK_BLAS_LAPACK.o', 'ARS2.o', 'GMRF.o', 'GMRF_Gspline.o',
      'GMRF_Gspline_Util.o', 'Gspline.o', 'Gspline_update_Intcpt.o',
      'Gspline_update_Scale.o', 'Gspline_update_a.o',
      'Gspline_update_gamma.o', 'Gspline_update_lambda.o',
      'Gspline_update_sigma.o', 'MHblocks.o', 'MHproposal.o',
      'Mvtdist3.o', 'arrays2Mat.o', 'bayesBisurvreg.o',
      'bayesDensity.o', 'bayesGspline.o', 'bayesHistogram.o',
      'bayessurvreg1.o', 'bayessurvreg2.o', 'bblocks.o',
      'birthDeath.o', 'cholesky.o', 'classBetaGamma.o',
      'classBetaGammaExtend.o', 'classCovMatrix.o',
      'classCovMatrixExtend.o', 'classRandomEff.o',
      'classRandomEff_rhoNorm.o', 'covMatrix.o', 'in_output.o',
      'in_output_GS.o', 'logLikelihood.o', 'marginal_bayesGspline.o',
      'miscellaneous.o', 'moodyRing.o', 'mvtdist.o', 'openFile.o',
      'predictMisc.o', 'predictive.o', 'predictive_GS.o', 'qrdecomp.o',
      'quantile.o', 'random.o', 'regresResidual_GS.o', 'rhoNorm.o',
      'sampledKendallTau.o', 'splitCombine.o', 'structRandomEff32.o',
      'updateAlloc.o', 'updateCovMatRandom.o', 'updateData.o',
      'updateRandom.o', 'updateRegres.o', 'update_Alloc_GS.o',
      'update_Data_GS.o'
  Found '_ZSt4cout', possibly from 'std::cout' (C++)
    Objects: 'MHblocks.o', 'bblocks.o', 'covMatrix.o'
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
    Object: 'arms.o'
File 'd:/Rcompile/CRANpkg/lib/2.15/bayesSurv/libs/x64/bayesSurv.dll':
  Found '_ZSt4cerr', possibly from 'std::cerr' (C++)
    Objects: 'AK_BLAS_LAPACK.o', 'ARS2.o', 'GMRF.o', 'GMRF_Gspline.o',
      'GMRF_Gspline_Util.o', 'Gspline.o', 'Gspline_update_Intcpt.o',
      'Gspline_update_Scale.o', 'Gspline_update_a.o',
      'Gspline_update_gamma.o', 'Gspline_update_lambda.o',
      'Gspline_update_sigma.o', 'MHblocks.o', 'MHproposal.o',
      'Mvtdist3.o', 'arrays2Mat.o', 'bayesBisurvreg.o',
      'bayesDensity.o', 'bayesGspline.o', 'bayesHistogram.o',
      'bayessurvreg1.o', 'bayessurvreg2.o', 'bblocks.o',
      'birthDeath.o', 'cholesky.o', 'classBetaGamma.o',
      'classBetaGammaExtend.o', 'classCovMatrix.o',
      'classCovMatrixExtend.o', 'classRandomEff.o',
      'classRandomEff_rhoNorm.o', 'covMatrix.o', 'in_output.o',
      'in_output_GS.o', 'logLikelihood.o', 'marginal_bayesGspline.o',
      'miscellaneous.o', 'moodyRing.o', 'mvtdist.o', 'openFile.o',
      'predictMisc.o', 'predictive.o', 'predictive_GS.o', 'qrdecomp.o',
      'quantile.o', 'random.o', 'regresResidual_GS.o', 'rhoNorm.o',
      'sampledKendallTau.o', 'splitCombine.o', 'structRandomEff32.o',
      'updateAlloc.o', 'updateCovMatRandom.o', 'updateData.o',
      'updateRandom.o', 'updateRegres.o', 'update_Alloc_GS.o',
      'update_Data_GS.o'
  Found '_ZSt4cout', possibly from 'std::cout' (C++)
    Objects: 'MHblocks.o', 'bblocks.o', 'covMatrix.o'
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
    Object: 'arms.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' ... NOTE
  'qpdf' made some significant size reductions:
     compacted 'ex-tandmobCS.pdf' from 580Kb to 280Kb
     compacted 'ex-tandmobPA.pdf' from 2365Kb to 705Kb
  consider running tools::compactPDF() on these files
* checking installed files from 'inst/doc' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking PDF version of manual ... OK
NOTE: There were 5 notes.
See
  'd:/Rcompile/CRANpkg/local/2.15/bayesSurv.Rcheck/00check.log'
for details.