• using R version 4.4.2 (2024-10-31)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-14 (Debian 14.2.0-6) 14.2.0     GNU Fortran (Debian 14.2.0-6) 14.2.0
• running under: Debian GNU/Linux trixie/sid
• 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 executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking serialization versions ... OK
• checking whether package ‘lolR’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... 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/3s] OK
• checking whether the package can be loaded with stated dependencies ... [2s/3s] OK
• checking whether the package can be unloaded cleanly ... [2s/2s] OK
• checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK
• checking whether the namespace can be unloaded cleanly ... [2s/3s] OK
• checking loading without being on the library search path ... [2s/3s] 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 ... [13s/19s] OK
• checking Rd files ... [1s/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 line widths ... 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 ... NOTE   'LazyData' is specified without a 'data' directory
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [8s/9s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [13s/15s] OK   Running ‘testthat.R’ [13s/14s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [116s/158s] OK
• checking PDF version of manual ... [8s/10s] OK
• checking HTML version of manual ... [2s/4s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 NOTEs