* using log directory 'd:/Rcompile/CRANpkg/local/3.2/frailtyEM.Rcheck'
* using R version 3.2.5 (2016-04-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* checking for file 'frailtyEM/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'frailtyEM' version '0.5.2'
* package encoding: UTF-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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'frailtyEM' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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
** 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 use of S3 registration ... 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 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 use of S3 registration ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: 'Rcpp'
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
em_fit: possible error in findInterval(Y[, 2], tev, left.open = FALSE,
  rightmost.closed = FALSE): unused argument (left.open = FALSE)
emfrail: possible error in findInterval(time, etime, left.open = TRUE):
  unused argument (left.open = TRUE)
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... OK
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... ERROR
Running examples in 'frailtyEM-Ex.R' failed
The error most likely occurred in:

> ### Name: emfrail
> ### Title: Fitting shared frailty models with the EM algorithm
> ### Aliases: emfrail
> 
> ### ** Examples
> 
> dat <- survival::rats
> 
> 
> m1 <- emfrail(.data =  dat,
+               .formula = Surv(time, status) ~  rx + sex + cluster(litter))
Error in findInterval(time, etime, left.open = TRUE) : 
  unused argument (left.open = TRUE)
Calls: emfrail -> findInterval
Execution halted
** running examples for arch 'x64' ... ERROR
Running examples in 'frailtyEM-Ex.R' failed
The error most likely occurred in:

> ### Name: emfrail
> ### Title: Fitting shared frailty models with the EM algorithm
> ### Aliases: emfrail
> 
> ### ** Examples
> 
> dat <- survival::rats
> 
> 
> m1 <- emfrail(.data =  dat,
+               .formula = Surv(time, status) ~  rx + sex + cluster(litter))
Error in findInterval(time, etime, left.open = TRUE) : 
  unused argument (left.open = TRUE)
Calls: emfrail -> findInterval
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... [2s] ERROR
Errors in running code in vignettes:
when running code in 'frailtyEM_manual.Rnw'
  ...
Loading required package: survival

> bladder2$rx <- as.factor(bladder2$rx)

> m1 <- emfrail(.data = bladder2, .formula = Surv(start, 
+     stop, event) ~ rx + number + size + cluster(id))

  When sourcing 'frailtyEM_manual.R':
Error: unused argument (left.open = TRUE)
Execution halted

* checking re-building of vignette outputs ... NOTE
Error in re-building vignettes:
  ...
Loading required package: survival

Error: processing vignette 'frailtyEM_manual.Rnw' failed with diagnostics:
 chunk 3 (label = bladder2) 
Error in findInterval(time, etime, left.open = TRUE) : 
  unused argument (left.open = TRUE)
Execution halted

* checking PDF version of manual ... OK
* DONE
Status: 3 ERRORs, 3 NOTEs