* using log directory ‘/home/bolker/lme4check2/check/ZeligMultilevel.Rcheck’
* using R Under development (unstable) (2015-06-08 r68489)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘ZeligMultilevel/DESCRIPTION’ ... OK
* this is package ‘ZeligMultilevel’ version ‘0.7-1’
* 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 executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘ZeligMultilevel’ 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 dependencies in R code ... NOTE
Missing or unexported object: ‘lme4::sigma’
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.compute.gamma.ev.and.pv: no visible global function definition for
‘linkinv’
.compute.logit.ev.and.pv: no visible global function definition for
‘alpha’
.compute.logit.ev.and.pv: no visible global function definition for
‘linkinv’
.compute.poisson.ev.and.pv: no visible global function definition for
‘linkinv’
compute.mixed.terms: no visible global function definition for
‘.getRandAndFixedTerms’
param.gamma.mixed: no visible global function definition for
‘GetObject’
param.gamma.mixed: no visible global function definition for ‘mvrnorm’
param.logit.mixed: no visible global function definition for
‘GetObject’
param.logit.mixed: no visible global function definition for ‘mvrnorm’
param.ls.mixed: no visible global function definition for ‘GetObject’
param.ls.mixed: no visible global function definition for ‘mvrnorm’
param.poisson.mixed: no visible global function definition for
‘GetObject’
param.poisson.mixed: no visible global function definition for
‘mvrnorm’
param.probit.mixed: no visible global function definition for
‘GetObject’
param.probit.mixed: no visible global function definition for ‘mvrnorm’
qi.logit.mixed: no visible global function definition for ‘alpha’
qi.ls.mixed: no visible global function definition for ‘alpha’
qi.probit.mixed: no visible global function definition for ‘alpha’
setup.x.matrix: no visible global function definition for
‘.getRandAndFixedTerms’
zelig2gamma.mixed: no visible global function definition for
‘tolmerFormat’
zelig2gamma.mixed: no visible global function definition for ‘reduceMI’
zelig2logit.mixed: no visible global function definition for
‘tolmerFormat’
zelig2logit.mixed: no visible global function definition for ‘reduceMI’
zelig2ls.mixed: no visible global function definition for
‘tolmerFormat’
zelig2ls.mixed: no visible global function definition for ‘reduceMI’
zelig2poisson.mixed: no visible global function definition for
‘tolmerFormat’
zelig2poisson.mixed: no visible global function definition for
‘reduceMI’
zelig2probit.mixed: no visible global function definition for
‘tolmerFormat’
zelig2probit.mixed: no visible global function definition for
‘reduceMI’
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... ERROR
Running the tests in ‘tests/tests.R’ failed.
Last 13 lines of output:
- Rescale variables?
>
>
> x.high <- setx(z.out, numst2 = 1)
Warning message:
In Ops.factor(1, country) : '|' not meaningful for factors
> x.low <- setx(z.out, numst2 = 0)
Warning message:
In Ops.factor(1, country) : '|' not meaningful for factors
>
> s.out <- sim(z.out, x = x.low, x1=x.high, num = 10)
Error: 'sigma' is not an exported object from 'namespace:lme4'
Execution halted
* 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 outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 ERROR, 2 NOTEs