* using log directory 'd:/Rcompile/CRANpkg/local/2.12/Mangrove.Rcheck'
* using R version 2.12.2 (2011-02-25)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* checking for file 'Mangrove/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Mangrove' version '1.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Mangrove' can be installed ... OK
* 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 whether the package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... 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
.addNode: no visible binding for global variable 'private'
.addNode: no visible binding for '<<-' assignment to 'private'
.addPed: no visible binding for '<<-' assignment to 'private'
.addPed: no visible binding for global variable 'private'
.addPed: no visible binding for global variable 'public'
.addPed : <anonymous>: no visible binding for global variable 'public'
.addRoot: no visible binding for global variable 'private'
.addRoot: no visible binding for '<<-' assignment to 'private'
.calcAlpha: no visible binding for global variable 'private'
.calcAlpha: no visible binding for '<<-' assignment to 'private'
.calcAlpha: no visible binding for global variable 'public'
.calcAlpha : <anonymous>: no visible binding for global variable
  'private'
.calcBeta: no visible binding for global variable 'private'
.calcBeta: no visible binding for '<<-' assignment to 'private'
.calcBeta : <anonymous>: no visible binding for global variable
  'private'
.calcBeta: no visible binding for global variable 'public'
.calcLikelihoods: no visible binding for '<<-' assignment to 'private'
.calcLikelihoods: no visible binding for global variable 'private'
.calcParams: no visible binding for global variable 'tree'
.calcPost: no visible binding for global variable 'private'
.calcPost: no visible binding for '<<-' assignment to 'private'
.calcPost: no visible binding for global variable 'public'
.getData: no visible binding for global variable 'private'
.getMaxDepth: no visible binding for global variable 'public'
.getNNodes: no visible binding for global variable 'private'
.getNinds: no visible binding for global variable 'private'
.getOffspring: no visible binding for global variable 'private'
.getPrevs: no visible binding for global variable 'public'
.getPrevs: no visible binding for '<<-' assignment to 'private'
.getPrevs: no visible binding for global variable 'private'
.getRoot: no visible binding for global variable 'private'
.getTrans: no visible binding for global variable 'mendT'
.printSummary: no visible binding for global variable 'public'
.printSummary: no visible binding for global variable 'private'
.printTree: no visible binding for global variable 'public'
.sampleCases: no visible binding for global variable 'private'
.sampleCases: no visible binding for '<<-' assignment to 'private'
.sampleVariant: no visible binding for global variable 'private'
.sampleVariant: no visible binding for '<<-' assignment to 'private'
.sampleVariant: no visible binding for global variable 'public'
.sampleVariants: no visible binding for '<<-' assignment to 'private'
.sampleVariants: no visible binding for global variable 'private'
.sampleVariants: no visible binding for global variable 'public'
initialiseTree: no visible binding for global variable 'mendT'
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking PDF version of manual ... OK