Hello, All,

GWAF 1.2
R.Version() is below.

system(lme.batch.imputed(
phenfile = 'phenfile.csv',
genfile = 'CARe_imputed_release.0.fhsR.gz',
pedfile='pedfile.csv',
phen='phen1',
covar=c('covar1','covar2'),
kinmat='imputed_fhs.kinship.RData',
outfile='imputed.FHS.IBC.GWAF.LME.output.0.txt'
))

Gives the error messages:

Error in coxme.varcheck(ncluster, varlist, n, gvars, groups, sparse, rescale,  :
  object 'kmat' not found
Error in lme.cov.out$theta : $ operator is invalid for atomic vectors

Might anyone know why?

Thank you for your time!

Jim

---------------------------------------------------
> R.Version()
$platform
[1] "x86_64-apple-darwin9.6.0"

$arch
[1] "x86_64"

$os
[1] "darwin9.6.0"

$system
[1] "x86_64, darwin9.6.0"

$status
[1] ""

$major
[1] "2"

$minor
[1] "12.1"

$year
[1] "2010"

$month
[1] "12"

$day
[1] "16"

$`svn rev`
[1] "53855"

$language
[1] "R"

$version.string
[1] "R version 2.12.1 (2010-12-16)"

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