* using log directory 'd:/Rcompile/CRANpkg/local/4.5/lolR.Rcheck' * using R Under development (unstable) (2024-11-12 r87322 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.3.0 GNU Fortran (GCC) 13.3.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * checking for file 'lolR/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'lolR' version '2.1' * package encoding: UTF-8 * 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 'lolR' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking 'build' 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 code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [2s] OK * checking whether the package can be loaded with stated dependencies ... [2s] OK * checking whether the package can be unloaded cleanly ... [2s] OK * checking whether the namespace can be loaded with stated dependencies ... [2s] OK * checking whether the namespace can be unloaded cleanly ... [2s] OK * checking loading without being on the library search path ... [2s] OK * checking use of S3 registration ... 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 ... [7s] OK * checking Rd files ... [1s] NOTE checkRd: (-1) lol.project.lrlda.Rd:18: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.project.lrlda.Rd:19: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.project.lrlda.Rd:20: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.project.lrlda.Rd:21: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.project.lrlda.Rd:22: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.project.pca.Rd:16: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.project.pca.Rd:17: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.project.pca.Rd:18: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.project.pca.Rd:19: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.project.pca.Rd:20: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.sims.fat_tails.Rd:25: Lost braces; missing escapes or markup? 25 | \item{f}{the fatness scaling of the tail. S2 = f*S1, where S1_{ij} = rho if i != j, and 1 if i == j. Defaults to \code{15}.} | ^ checkRd: (-1) lol.sims.mean_diff.Rd:36: Lost braces; missing escapes or markup? 36 | \item{s}{the scaling parameter of the covariance matrix. S_{ij} = scaling*1 if i == j, or scaling*offdiag if i != j. Defaults to \code{1}.} | ^ checkRd: (-1) lol.utils.decomp.Rd:21: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.utils.decomp.Rd:22: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.utils.decomp.Rd:23: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.utils.decomp.Rd:24: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.utils.decomp.Rd:25: Lost braces in \itemize; meant \describe ? checkRd: (-1) lol.xval.eval.Rd:31: Lost braces; missing escapes or markup? 31 | \item{alg}{the algorithm to use for embedding. Should be a function that accepts inputs \code{X}, \code{Y}, and has a parameter for \code{alg.dimname} if \code{alg} is supervised, or just \code{X} and \code{alg.dimname} if \code{alg} is unsupervised.This algorithm should return a list containing a matrix that embeds from {d} to {r <= d} dimensions.} | ^ checkRd: (-1) lol.xval.eval.Rd:31: Lost braces; missing escapes or markup? 31 | \item{alg}{the algorithm to use for embedding. Should be a function that accepts inputs \code{X}, \code{Y}, and has a parameter for \code{alg.dimname} if \code{alg} is supervised, or just \code{X} and \code{alg.dimname} if \code{alg} is unsupervised.This algorithm should return a list containing a matrix that embeds from {d} to {r <= d} dimensions.} | ^ checkRd: (-1) lol.xval.eval.Rd:68: Lost braces 68 | \item{if ]code{rank.low == TRUE}, users cross-validation method with \code{ntrain = min((k-1)/k*n, d)} sample training sets, where \code{d} is the number of dimensions in \code{X}. This ensures that the training data is always low-rank, \code{ntrain < d + 1}. Note that the resulting training sets may have \code{ntrain < (k-1)/k*n}, but the resulting testing sets will always be properly rotated \code{ntest = n/k} to ensure no dependencies in fold-wise testing.} | ^ checkRd: (-1) lol.xval.optimal_dimselect.Rd:32: Lost braces; missing escapes or markup? 32 | \item{alg}{the algorithm to use for embedding. Should be a function that accepts inputs \code{X} and \code{Y} and embedding dimension \code{r} if \code{alg} is supervised, or just \code{X} and embedding dimension \code{r} if \code{alg} is unsupervised.This algorithm should return a list containing a matrix that embeds from {d} to {r < d} dimensions.} | ^ checkRd: (-1) lol.xval.optimal_dimselect.Rd:32: Lost braces; missing escapes or markup? 32 | \item{alg}{the algorithm to use for embedding. Should be a function that accepts inputs \code{X} and \code{Y} and embedding dimension \code{r} if \code{alg} is supervised, or just \code{X} and embedding dimension \code{r} if \code{alg} is unsupervised.This algorithm should return a list containing a matrix that embeds from {d} to {r < d} dimensions.} | ^ checkRd: (-1) lol.xval.optimal_dimselect.Rd:75: Lost braces 75 | \item{if ]code{rank.low == TRUE}, users cross-validation method with \code{ntrain = min((k-1)/k*n, d)} sample training sets, where \code{d} is the number of dimensions in \code{X}. This ensures that the training data is always low-rank, \code{ntrain < d + 1}. Note that the resulting training sets may have \code{ntrain < (k-1)/k*n}, but the resulting testing sets will always be properly rotated \code{ntest = n/k} to ensure no dependencies in fold-wise testing.} | ^ checkRd: (-1) predict.nearestCentroid.Rd:12: Lost braces in \itemize; meant \describe ? checkRd: (-1) predict.nearestCentroid.Rd:13: Lost braces in \itemize; meant \describe ? checkRd: (-1) predict.nearestCentroid.Rd:14: Lost braces in \itemize; meant \describe ? checkRd: (-1) predict.randomChance.Rd:12: Lost braces in \itemize; meant \describe ? checkRd: (-1) predict.randomChance.Rd:13: Lost braces in \itemize; meant \describe ? checkRd: (-1) predict.randomGuess.Rd:12: Lost braces in \itemize; meant \describe ? checkRd: (-1) predict.randomGuess.Rd:13: Lost braces in \itemize; meant \describe ? * 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 LazyData ... INFO 'LazyData' is specified without a 'data' directory * checking installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... [11s] OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... [12s] OK Running 'testthat.R' [12s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [96s] OK * checking PDF version of manual ... [35s] OK * checking HTML version of manual ... [12s] OK * DONE Status: 1 NOTE