* using log directory ‘/data/gannet/ripley/R/packages/tests-clang/shinySbm.Rcheck’ * using R Under development (unstable) (2024-04-24 r86484) * using platform: x86_64-pc-linux-gnu * R was compiled by clang version 18.1.4 flang-new version 18.1.4 * running under: Fedora Linux 36 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘shinySbm/DESCRIPTION’ ... OK * this is package ‘shinySbm’ version ‘0.1.5’ * 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 whether package ‘shinySbm’ can be installed ... [32s/39s] OK See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/shinySbm-00install.html' for details. * 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 ... 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 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 ... [39s/44s] OK * checking Rd files ... NOTE checkRd: (-1) FungusTreeNetwork.Rd:15-21: Lost braces in \itemize; meant \describe ? checkRd: (-1) FungusTreeNetwork.Rd:22-28: Lost braces in \itemize; meant \describe ? checkRd: (-1) FungusTreeNetwork.Rd:33-34: Lost braces in \itemize; meant \describe ? checkRd: (-1) FungusTreeNetwork.Rd:33: Lost braces; missing escapes or markup? 33 | \item{tree_tree}{Results of \code{estimateSimpleSBM} for {sbm} | ^ checkRd: (-1) FungusTreeNetwork.Rd:35-36: Lost braces in \itemize; meant \describe ? checkRd: (-1) FungusTreeNetwork.Rd:35: Lost braces; missing escapes or markup? 35 | \item{fungus_tree}{Results of \code{estimateBipartiteSBM} for {sbm} | ^ checkRd: (-1) get_block.BipartiteSBM_fit.Rd:30: Lost braces; missing escapes or markup? 30 | A fct that return blocks attribution or probabilities for each nodes in a Sbm fit from the {sbm} package. | ^ checkRd: (-1) get_block.Rd:36: Lost braces; missing escapes or markup? 36 | A fct that return blocks attribution or probabilities for each nodes in a Sbm fit from the {sbm} package. | ^ checkRd: (-1) get_block.Rd:21: Lost braces in \itemize; meant \describe ? checkRd: (-1) get_block.Rd:22: Lost braces in \itemize; meant \describe ? checkRd: (-1) get_block.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) get_block.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) get_block.SimpleSBM_fit.Rd:30: Lost braces; missing escapes or markup? 30 | A fct that return blocks attribution or probabilities for each nodes in a Sbm fit from the {sbm} package. | ^ checkRd: (-1) get_flextable.Rd:15: Lost braces; missing escapes or markup? 15 | \item{sbm}{an sbm model product of {sbm} estimation (simple or bipartite)} | ^ checkRd: (-1) get_flextable.Rd:34: Lost braces in \itemize; meant \describe ? checkRd: (-1) get_flextable.Rd:35: Lost braces in \itemize; meant \describe ? checkRd: (-1) get_flextable.Rd:36: Lost braces in \itemize; meant \describe ? checkRd: (-1) get_flextable.Rd:42: Lost braces in \itemize; meant \describe ? checkRd: (-1) get_flextable.Rd:43: Lost braces in \itemize; meant \describe ? checkRd: (-1) get_flextable.Rd:44: Lost braces in \itemize; meant \describe ? checkRd: (-1) get_flextable.Rd:45: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.BipartiteSBM_fit.Rd:37: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.BipartiteSBM_fit.Rd:38: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.BipartiteSBM_fit.Rd:39: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.BipartiteSBM_fit.Rd:40: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.BipartiteSBM_fit.Rd:41: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.BipartiteSBM_fit.Rd:42: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.BipartiteSBM_fit.Rd:43: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.Rd:40: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.Rd:41: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.Rd:42: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.Rd:43: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.Rd:44: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.Rd:45: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.Rd:46: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.SimpleSBM_fit.Rd:37: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.SimpleSBM_fit.Rd:38: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.SimpleSBM_fit.Rd:39: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.SimpleSBM_fit.Rd:40: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.SimpleSBM_fit.Rd:41: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.SimpleSBM_fit.Rd:42: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.SimpleSBM_fit.Rd:43: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.matrix.Rd:37: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.matrix.Rd:38: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.matrix.Rd:39: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.matrix.Rd:40: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.matrix.Rd:41: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.matrix.Rd:42: Lost braces in \itemize; meant \describe ? checkRd: (-1) plotSbm.matrix.Rd:43: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:38: Lost braces; missing escapes or markup? 38 | A fct that plot a {visNetwork} plot of a adjacency matrix or an Sbm fit from the {sbm} package. | ^ checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:38: Lost braces; missing escapes or markup? 38 | A fct that plot a {visNetwork} plot of a adjacency matrix or an Sbm fit from the {sbm} package. | ^ checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:25: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:26: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:43-44: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:45: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:46: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:47: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:48: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:49: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:50: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.BipartiteSBM_fit.Rd:51: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:38: Lost braces; missing escapes or markup? 38 | A fct that plot a {visNetwork} plot of a adjacency matrix or an Sbm fit from the {sbm} package. | ^ checkRd: (-1) visSbm.Rd:38: Lost braces; missing escapes or markup? 38 | A fct that plot a {visNetwork} plot of a adjacency matrix or an Sbm fit from the {sbm} package. | ^ checkRd: (-1) visSbm.Rd:25: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:26: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:43-44: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:45: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:46: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:47: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:48: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:49: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:50: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.Rd:51: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:38: Lost braces; missing escapes or markup? 38 | A fct that plot a {visNetwork} plot of a adjacency matrix or an Sbm fit from the {sbm} package. | ^ checkRd: (-1) visSbm.SimpleSBM_fit.Rd:38: Lost braces; missing escapes or markup? 38 | A fct that plot a {visNetwork} plot of a adjacency matrix or an Sbm fit from the {sbm} package. | ^ checkRd: (-1) visSbm.SimpleSBM_fit.Rd:25: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:26: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:43-44: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:45: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:46: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:47: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:48: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:49: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:50: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.SimpleSBM_fit.Rd:51: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:38: Lost braces; missing escapes or markup? 38 | A fct that plot a {visNetwork} plot of a adjacency matrix or an Sbm fit from the {sbm} package. | ^ checkRd: (-1) visSbm.default.Rd:38: Lost braces; missing escapes or markup? 38 | A fct that plot a {visNetwork} plot of a adjacency matrix or an Sbm fit from the {sbm} package. | ^ checkRd: (-1) visSbm.default.Rd:25: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:26: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:43-44: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:45: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:46: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:47: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:48: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:49: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:50: Lost braces in \itemize; meant \describe ? checkRd: (-1) visSbm.default.Rd:51: 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [13s/14s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [13s/16s] OK Running ‘spelling.R’ Running ‘testthat.R’ [12s/14s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [36s/39s] OK * checking PDF version of manual ... [10s/16s] OK * checking HTML version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 NOTE