- using R version 2.14.1 Patched (2012-02-04 r58267)
- using platform: x86_64-unknown-linux-gnu (64-bit)
- using session charset: UTF-8
- checking for file ‘depmixS4/DESCRIPTION’ ... OK
- this is package ‘depmixS4’ version ‘1.1-0’
- checking package namespace information ... OK
- checking package dependencies ... NOTE
Package suggested but not available for checking: ‘Rdonlp2’
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking whether package ‘depmixS4’ 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 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
em.depmix: warning in matrix(runif(nr * ns, min = 1e-04, max = 0.9999),
nr = nr, nc = ns): partial argument match of 'nr' to 'nrow'
em.depmix: warning in matrix(runif(nr * ns, min = 1e-04, max = 0.9999),
nr = nr, nc = ns): partial argument match of 'nc' to 'ncol'
em.mix: warning in matrix(runif(nr * ns, min = 1e-04, max = 0.9999), nr
= nr, nc = ns): partial argument match of 'nr' to 'nrow'
em.mix: warning in matrix(runif(nr * ns, min = 1e-04, max = 0.9999), nr
= nr, nc = ns): partial argument match of 'nc' to 'ncol'
fb: warning in matrix(res$alpha, nc = ns, byrow = TRUE): partial
argument match of 'nc' to 'ncol'
fb: warning in matrix(res$beta, nc = ns, byrow = TRUE): partial
argument match of 'nc' to 'ncol'
makePriorModel: warning in transInit(~1, data = data.frame(rep(1,
ncases)), nst = nstates, family = multinomial(link = "identity"),
pstart = values): partial argument match of 'nst' to 'nstates'
makePriorModel: warning in transInit(formula, data = data, nst =
nstates, family = multinomial(), pstart = values): partial argument
match of 'nst' to 'nstates'
- 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 examples ... OK
- checking for unstated dependencies in tests ... OK
- checking tests ... OK
Running ‘test1speed.R’
Comparing ‘test1speed.Rout’ to ‘test1speed.Rout.save’ ...8d7
< Rsolnp (version 1.11) initialized.
Running ‘test2getsetpars.R’
Comparing ‘test2getsetpars.Rout’ to ‘test2getsetpars.Rout.save’ ...8d7
< Rsolnp (version 1.11) initialized.
Running ‘test3responses.R’
- 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