* using log directory 'd:/Rcompile/CRANpkg/local/3.1/pbatR.Rcheck' * using R version 3.1.3 (2015-03-09) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * checking for file 'pbatR/DESCRIPTION' ... OK * this is package 'pbatR' version '2.2-9' * 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 'pbatR' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... NOTE Package listed in more than one of Depends, Imports, Suggests, Enhances: 'tcltk' A package should be listed in only one of these fields. * 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 'library' or 'require' call to 'rootSolve' which was already attached by Depends. Please remove these calls from your code. 'library' or 'require' calls in package code: 'kinship2' 'tcltk' Please use :: or requireNamespace() instead. See section 'Suggested packages' in the 'Writing R Extensions' manual. Packages in Depends field not imported from: 'rootSolve' 'survival' These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... NOTE Call with DUP != TRUE: .C("powerR", as.integer(numOffspring), as.integer(numParents), as.integer(numFamilies), as.integer(additionalOffspringPhenos), as.integer(ascertainment), as.integer(modelGen), as.integer(modelTest), as.double(afreqMarker), as.double(penAA), as.double(penAB), as.double(penBB), as.double(heritability), as.double(contsAscertainmentLower), as.double(contsAscertainmentUpper), as.double(pDiseaseAlleleGivenMarkerAllele), as.double(afreqDSL), as.double(qnorm(1 - alpha/2)), as.double(offset), as.integer(numSim), as.integer(ITERATION_KILLER), result, DUP = FALSE) DUP = FALSE is deprecated and will be disabled in future versions of R. * checking R code for possible problems ... NOTE pen_or1: no visible global function definition for 'multiroot' plot.pedigree: no visible global function definition for 'align.pedigree' plotPed: no visible global function definition for 'pedigree' * 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 line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... OK * checking examples ... ** running examples for arch 'i386' ... [2s] OK ** running examples for arch 'x64' ... [2s] OK * checking PDF version of manual ... OK * DONE NOTE: There were 4 notes.