- using R version 2.15.0 (2012-03-30)
- using platform: i686-pc-linux-gnu (32-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 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 ... [33s/33s] OK
Running ‘circle.R’ [0s/0s]
Comparing ‘circle.Rout’ to ‘circle.Rout.save’ ... OK
Running ‘initseq.R’ [3s/3s]
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’ ... OK
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’ [0s/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’ ...50c50
< [1] 0.6516291 0.3924419 0.3464789 0.2084433 0.1928375 0.5874317
---
> [1] 0.6335878 0.4974359 0.3245383 0.6022099 0.6129870 0.5913706
54,59c54,59
< [1,] NA 0.6650943 0.4607843 NA NA NA
< [2,] 0.6346154 NA 0.5396825 0.2983871 NA NA
< [3,] 0.4795918 0.5714286 NA 0.4148936 0.1030928 NA
< [4,] NA 0.1980198 0.3193277 NA 0.2621359 0.3137255
< [5,] NA NA 0.1870504 0.2608696 NA 0.2615385
< [6,] NA NA NA 0.3333333 0.3173653 NA
---
> [1,] NA 0.7050691 0.5497382 NA NA NA
> [2,] 0.7522936 NA 0.5547445 0.6287879 NA NA
> [3,] 0.5794393 0.5865385 NA 0.5308642 0.5476190 NA
> [4,] NA 0.6666667 0.5505618 NA 0.8271605 0.6836735
> [5,] NA NA 0.5438596 0.8925620 NA 0.8373984
> [6,] NA NA NA 0.8390805 0.9022989 NA
75c75
< [1] 0.5492308 0.4800000 0.5569231 0.7692308 0.9246154 0.7707692
---
> [1] 0.54923077 0.40923077 0.39538462 0.09692308 0.12923077 0.60000000
77c77
< [1] 0.03584574 0.05019272 0.05510132 0.04774849 0.02586413 0.05737443
---
> [1] 0.03482043 0.04817350 0.05463694 0.02855536 0.02113093 0.05130821
88,93c88,93
< [1,] 0.5033010 0.01344527
< [2,] 0.5122330 0.02468881
< [3,] 0.4968932 0.03692207
< [4,] 0.5283495 0.04713313
< [5,] 0.4582524 0.04742925
< [6,] 0.4192233 0.05931187
---
> [1,] 0.5231068 0.01389634
> [2,] 0.5361165 0.02213288
> [3,] 0.4904854 0.03961204
> [4,] 0.5652427 0.04909165
> [5,] 0.4056311 0.05106757
> [6,] 0.2450485 0.05108284
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’ [5s/5s]
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-release/Work/PKGS/mcmc.Rcheck/00check.log’
for details.