* using log directory 'd:/Rcompile/CRANpkg/local/2.9/varmixt.Rcheck'
* using R version 2.9.2 Patched (2009-09-02 r49531)
* using session charset: ISO8859-1
* checking for file 'varmixt/DESCRIPTION' ... OK
* this is package 'varmixt' version '0.2-4'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'varmixt' can be installed ... WARNING
Found the following significant warnings:
  Warning: unmatched right brace in file 'boxplotvm.Rd' on line 28
  Warning: unmatched right brace in file 'boxplotvm.Rd' on line 28
  Warning: unmatched right brace in file 'boxplotvm.g.Rd' on line 25
  Warning: unmatched right brace in file 'boxplotvm.g.Rd' on line 25
  Warning: invalid whitespace before brace in file 'compute.dif.Rd' at ' \item{var.to.vardelta} {The factor to go from the gene variance to the variance of the mean difference}'
  Warning: invalid whitespace before brace in file 'compute.dif.Rd' at ' \item{var.to.vardelta} {The factor to go from the gene variance to the variance of the mean difference}'
  Warning: unmatched right brace in file 'plotrm.Rd' on line 25
  Warning: unmatched right brace in file 'plotrm.Rd' on line 25
  Warning: unmatched right brace in file 'plotvm.Rd' on line 27
  Warning: unmatched right brace in file 'plotvm.Rd' on line 27
  Warning: unmatched right brace in file 'qqplot.vm.Rd' on line 28
  Warning: unmatched right brace in file 'qqplot.vm.Rd' on line 28
See 'd:/Rcompile/CRANpkg/local/2.9/varmixt.Rcheck/00install.out' for details.
* checking package directory ... OK
* checking for portable file names ... 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 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 ... NOTE
choose.nmixt: no visible binding for global variable 'stop.crit.2'
compute.BIC: no visible binding for global variable 'niter.f'
compute.BIC: no visible binding for global variable 'vars'
compute.BIC: no visible binding for global variable 'loglike'
compute.BIC: no visible binding for global variable 'BIC'
compute.BIC.init: no visible binding for global variable 'stop.crit.2'
compute.BIC.stoch: no visible binding for global variable 'stop.crit.2'
compute.BIC.stoch: no visible binding for global variable 'niter.f'
compute.BIC.stoch: no visible binding for global variable 'vars'
compute.BIC.stoch: no visible binding for global variable 'loglike'
compute.BIC.stoch: no visible binding for global variable 'BIC'
compute.param: no visible binding for global variable 'stop.crit.2'
export.res: no visible binding for global variable 'i'
make.param: no visible binding for global variable 'niter.max'
sbset.gene: no visible binding for global variable 'x'
Found possibly global 'T' or 'F' in the following functions:
  fdr get.sas.export
* checking Rd files ... WARNING
Rd files without 'description':
  fdr.nmatch.an.Rd
  fdr.nmatch.an.anova.Rd
  fdr.nmatch.an.gene.Rd
  get.sas.export.Rd
  histresid.vm.Rd
  histvm.Rd
  n.mixt.Rd
  nmatch.an.Rd
  nmatch.an.anova.Rd
  nmatch.an.gene.Rd
  plotsdm.Rd
  plotsdt.Rd
  qqplot.vm.2.Rd
These entries are required in an Rd file.

See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking Rd files against version 2 parser ... WARNING
*** error on file ./man/apo.data.vm.Rd
Error : ./man/apo.data.vm.Rd:13: Unrecognized macro \item

*** error on file ./man/boxplotvm.Rd
Error in parse_Rd("./man/boxplotvm.Rd", encoding = "unknown") : 
  ./man/boxplotvm.Rd:28:2: unexpected '}'
27:         \code{\link{plotrm}},\code{\link{qqplot.vm}},\code{\link{plotvm}}}
28:  }
     ^

*** error on file ./man/boxplotvm.g.Rd
Error in parse_Rd("./man/boxplotvm.g.Rd", encoding = "unknown") : 
  ./man/boxplotvm.g.Rd:25:2: unexpected '}'
24:         \code{\link{plotrm}},\code{\link{qqplot.vm}},\code{\link{plotvm}}}
25:  }
     ^

Warning in parse_Rd("./man/compute.dif.Rd", encoding = "unknown") :
  bad markup (extra space?) at compute.dif.Rd:20:23
Warning: ./man/compute.dif.Rd:20: Unnecessary braces at '{The factor to go from the gene variance to the variance of the mean difference}'
*** error on file ./man/plotrm.Rd
Error in parse_Rd("./man/plotrm.Rd", encoding = "unknown") : 
  ./man/plotrm.Rd:25:2: unexpected '}'
24:         \code{\link{plotvm}},\code{\link{qqplot.vm}},\code{\link{boxplotvm}}}
25:  }
     ^

*** error on file ./man/plotvm.Rd
Error in parse_Rd("./man/plotvm.Rd", encoding = "unknown") : 
  ./man/plotvm.Rd:27:2: unexpected '}'
26:         \code{\link{plotrm}},\code{\link{qqplot.vm}},\code{\link{boxplotvm}}}
27:  }
     ^

*** error on file ./man/qqplot.vm.Rd
Error in parse_Rd("./man/qqplot.vm.Rd", encoding = "unknown") : 
  ./man/qqplot.vm.Rd:28:2: unexpected '}'
27:         \code{\link{plotrm}}, \code{\link{plotvm}}, \code{\link{boxplotvm}}}
28:  }
     ^

*** error on file ./man/spleen.data.vm.Rd
Error : ./man/spleen.data.vm.Rd:12: Unrecognized macro \item

problems found in 'apo.data.vm.Rd', 'boxplotvm.Rd', 'boxplotvm.g.Rd', 'plotrm.Rd', 'plotvm.Rd', 'qqplot.vm.Rd', 'spleen.data.vm.Rd'
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking examples ... OK
* checking PDF version of manual ... OK