* using log directory ‘/srv/hornik/tmp/CRAN/mvSLOUCH.Rcheck’ * using R Under development (unstable) (2023-11-19 r85561) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 17.0.5 (1) Debian flang-new version 17.0.5 (1) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘mvSLOUCH/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘mvSLOUCH’ version ‘2.7.6’ * checking CRAN incoming feasibility ... [4s/4s] Note_to_CRAN_maintainers Maintainer: ‘Krzysztof Bartoszek ’ * 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 whether package ‘mvSLOUCH’ can be installed ... [13s/13s] OK * 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 R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [1s/1s] OK * checking whether the package can be loaded with stated dependencies ... [1s/1s] OK * checking whether the package can be unloaded cleanly ... [1s/1s] OK * checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK * checking whether the namespace can be unloaded cleanly ... [1s/1s] OK * checking loading without being on the library search path ... [1s/1s] 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 ... [28s/28s] OK * checking Rd files ... [0s/0s] NOTE checkRd: (-1) BrownianMotionModel.Rd:39: Lost braces in \itemize; meant \describe ? checkRd: (-1) BrownianMotionModel.Rd:40-41: Lost braces in \itemize; meant \describe ? checkRd: (-1) BrownianMotionModel.Rd:42-43: Lost braces in \itemize; meant \describe ? checkRd: (-1) BrownianMotionModel.Rd:44-47: Lost braces in \itemize; meant \describe ? checkRd: (-1) BrownianMotionModel.Rd:48: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_RSS.Rd:40: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_RSS.Rd:41-42: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_RSS.Rd:43-44: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_RSS.Rd:45-48: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_RSS.Rd:49: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_phylreg.Rd:66: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_phylreg.Rd:67-68: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_phylreg.Rd:69-70: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_phylreg.Rd:71-74: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_phylreg.Rd:75: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_phylreg.Rd:178: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:179: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:180: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:181: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:182: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:183: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:184: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:185-186: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:187: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:188: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_phylreg.Rd:189-190: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) OU_xVz.Rd:51: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_xVz.Rd:52-53: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_xVz.Rd:54-55: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_xVz.Rd:56-59: Lost braces in \itemize; meant \describe ? checkRd: (-1) OU_xVz.Rd:60: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeBM.Rd:43: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeBM.Rd:44-45: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeBM.Rd:46-47: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeBM.Rd:48-51: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeBM.Rd:52: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeMVSLOUCH.Rd:61: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeMVSLOUCH.Rd:62-63: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeMVSLOUCH.Rd:64-65: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeMVSLOUCH.Rd:66-69: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeMVSLOUCH.Rd:70: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeOUCH.Rd:59: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeOUCH.Rd:60-61: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeOUCH.Rd:62-63: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeOUCH.Rd:64-67: Lost braces in \itemize; meant \describe ? checkRd: (-1) SummarizeOUCH.Rd:68: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:55: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:56-57: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:58-59: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:60-63: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:64: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:84-86: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:87-89: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:90-92: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:93-94: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:99-100: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:101-107: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:108-112: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:113-123: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:124-127: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:128-131: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:132-135: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:136-139: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:140-143: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:144-167: Lost braces in \itemize; meant \describe ? checkRd: (-1) estimate.evolutionary.model.Rd:152: Lost braces 152 | \item{parscale}{ | ^ checkRd: (-1) estimate.evolutionary.model.Rd:152-166: Lost braces 152 | \item{parscale}{ | ^ checkRd: (-1) estimate.evolutionary.model.Rd:168-170: Lost braces in \itemize; meant \describe ? checkRd: (-1) generate.model.setups.Rd:29-30: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) generate.model.setups.Rd:31-37: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) generate.model.setups.Rd:38-42: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) generate.model.setups.Rd:43-44: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) mvslouchModel.Rd:69: Lost braces in \itemize; meant \describe ? checkRd: (-1) mvslouchModel.Rd:70-71: Lost braces in \itemize; meant \describe ? checkRd: (-1) mvslouchModel.Rd:72-73: Lost braces in \itemize; meant \describe ? checkRd: (-1) mvslouchModel.Rd:74-77: Lost braces in \itemize; meant \describe ? checkRd: (-1) mvslouchModel.Rd:78: Lost braces in \itemize; meant \describe ? checkRd: (-1) ouchModel.Rd:60: Lost braces in \itemize; meant \describe ? checkRd: (-1) ouchModel.Rd:61-62: Lost braces in \itemize; meant \describe ? checkRd: (-1) ouchModel.Rd:63-64: Lost braces in \itemize; meant \describe ? checkRd: (-1) ouchModel.Rd:65-68: Lost braces in \itemize; meant \describe ? checkRd: (-1) ouchModel.Rd:69: Lost braces in \itemize; meant \describe ? checkRd: (-1) parametric.bootstrap.Rd:55: Lost braces in \itemize; meant \describe ? checkRd: (-1) parametric.bootstrap.Rd:56-57: Lost braces in \itemize; meant \describe ? checkRd: (-1) parametric.bootstrap.Rd:58-59: Lost braces in \itemize; meant \describe ? checkRd: (-1) parametric.bootstrap.Rd:60-63: Lost braces in \itemize; meant \describe ? checkRd: (-1) parametric.bootstrap.Rd:64: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:30: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:31-32: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:33-34: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:35-38: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:39: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:49-55: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:56-58: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:59-60: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:61-62: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulBMProcPhylTree.Rd:63-64: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:41: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:42-43: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:44-45: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:46-49: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:50: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:60-66: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:67-69: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:70-71: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:72-73: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulMVSLOUCHProcPhylTree.Rd:74-75: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:41: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:42-43: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:44-45: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:46-49: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:50: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:60-66: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:67-69: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:70-71: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:72-73: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulOUCHProcPhylTree.Rd:74-75: Lost braces in \itemize; meant \describe ? checkRd: (-1) simulate_clustered_phylogeny.Rd:49-53: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) simulate_clustered_phylogeny.Rd:54-56: Lost braces in \itemize; \value handles \item{}{} directly * 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 installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [13s/13s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [7s/7s] OK Running ‘testthat.R’ [7s/7s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking re-building of vignette outputs ... [6s/9s] OK * checking PDF version of manual ... [4s/4s] OK * checking HTML version of manual ... [1s/1s] OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 NOTE