* using log directory 'd:/Rcompile/CRANpkg/local/3.2/EthSEQ.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 'EthSEQ/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'EthSEQ' version '2.0.1'
* 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 'EthSEQ' 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
* 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 ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... ERROR
Running examples in 'EthSEQ-Ex.R' failed
The error most likely occurred in:

> ### Name: ethseq.Analysis
> ### Title: Ethnicity analysis from whole-exome sequencing data
> ### Aliases: ethseq.Analysis
> 
> ### ** Examples
> 
> 
> out.dir = file.path(tempdir(),"EthSEQ_Analysis/")
> 
> ## Run the analysis
> ethseq.Analysis(
+   target.vcf = system.file("extdata", "Samples_SS2_10000SNPs.vcf",
+ 	package="EthSEQ"),
+   out.dir = out.dir,
+   model.gds = system.file("extdata", "Reference_SS2_10000SNPs.gds",
+ 	package="EthSEQ"),
+   verbose=TRUE,
+   composite.model.call.rate = 1)
[2017-04-20 12:38:06] Running EthSEQ v2.0.1
[2017-04-20 12:38:06] Working directory: D:\temp\Rtmpu2tSbj/EthSEQ_Analysis
[2017-04-20 12:38:06] Create D:\temp\Rtmpu2tSbj/EthSEQ_Analysis folder
[2017-04-20 12:38:06] Create target model from VCF
[2017-04-20 12:38:07] Create aggregated model
Error in snpgdsOpen(reference.fn) : 
  Invalid SNP GDS file: no 'sample.id' variable.
Calls: ethseq.Analysis -> combine.Models -> snpgdsOpen
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... [1s] OK
* checking re-building of vignette outputs ... NOTE
Error in re-building vignettes:
  ...
Quitting from lines 24-45 (EthSEQ.Rmd) 
Error: processing vignette 'EthSEQ.Rmd' failed with diagnostics:
Invalid SNP GDS file: no 'sample.id' variable.
Execution halted

* checking PDF version of manual ... OK
* DONE
Status: 1 ERROR, 1 NOTE