* using log directory 'd:/Rcompile/CRANpkg/local/3.1/BaM.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 'BaM/DESCRIPTION' ... OK * this is package 'BaM' version '0.99' * checking package namespace information ... OK * checking package dependencies ... NOTE Depends: includes the non-default packages: 'bayesm' 'coda' 'MASS' 'mice' 'survival' 'foreign' 'nnet' Adding so many packages to the search path is excessive and importing selectively is preferable. * 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 'BaM' can be installed ... OK * checking installed package size ... OK * checking package 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 ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE biv.norm.post: possible error in rwishart(alpha + n, SqrtSigma = chol(solve(Wp.inv))): unused argument (SqrtSigma = chol(solve(Wp.inv))) biv.norm.post: no visible global function definition for 'rmultinorm' mhplot.walk.MH: possible error in mhplot(walk.mat[1, 1], walk.mat[1, 2], type = "n", xlim = round(range(walk.mat[, 1]) * 1.2), ylim = round(range(walk.mat[, 2]) * 1.2), xlab = "", ylab = ""): unused arguments (walk.mat[1, 2], type = "n", xlim = round(range(walk.mat[, 1]) * 1.2), ylim = round(range(walk.mat[, 2]) * 1.2), xlab = "", ylab = "") sir: no visible binding for global variable 'normal.posterior.ll' sir: no visible binding for global variable 't.posterior.ll' * 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 contents of 'data' directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking examples ... [4s] OK * checking PDF version of manual ... OK * DONE NOTE: There were 2 notes.