• using R Under development (unstable) (2025-01-24 r87627)
• using platform: x86_64-apple-darwin20
• R was compiled by     Apple clang version 14.0.0 (clang-1400.0.29.202)     GNU Fortran (GCC) 14.2.0
• running under: macOS Ventura 13.3.1
• using session charset: UTF-8
• checking for file ‘scpoisson/DESCRIPTION’ ... OK
• this is package ‘scpoisson’ version ‘0.0.1’
• 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 whether package ‘scpoisson’ can be installed ... [7s/9s] OK See the install log 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 ... [2s/2s] OK
• checking whether the package can be loaded with stated dependencies ... [1s/2s] OK
• checking whether the package can be unloaded cleanly ... [1s/2s] OK
• checking whether the namespace can be loaded with stated dependencies ... [1s/2s] OK
• checking whether the namespace can be unloaded cleanly ... [2s/2s] OK
• checking loading without being on the library search path ... [2s/2s] 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 ... [5s/7s] OK
• checking Rd files ... [2s/3s] NOTE checkRd: (-1) HclustDepart.Rd:23: Lost braces; missing escapes or markup?     23 | \item{\code{res2}}: {a data frame contains two columns: names (cell names) and clusters (cluster label)}        | ^ checkRd: (-1) HclustDepart.Rd:24-26: Lost braces     24 | \item{\code{sigclust_p}}: {a matrix with cells to cluster as rows, split index as columns,        | ^ checkRd: (-1) HclustDepart.Rd:27-29: Lost braces     27 | \item{\code{sigclust_z}}: {a matrix with cells to cluster as rows, split index as columns,        | ^ checkRd: (-1) LouvainDepart.Rd:38: Lost braces; missing escapes or markup?     38 | \item{\code{sdata}}: {a Seurat object}        | ^ checkRd: (-1) LouvainDepart.Rd:39-40: Lost braces     39 | \item{\code{tsne_data}}: {a matrix containing t-SNE dimension reduction results,        | ^ checkRd: (-1) LouvainDepart.Rd:41-42: Lost braces     41 | \item{\code{umap_data}}: {a matrix containing UMAP dimension reduction results,        | ^ checkRd: (-1) LouvainDepart.Rd:43: Lost braces; missing escapes or markup?     43 | \item{\code{res_clust}}: {a data frame contains two columns: names (cell names) and clusters (cluster label)}        | ^ checkRd: (-1) sigp.Rd:19: Lost braces; missing escapes or markup?     19 | \item{\code{p}}: {p-value for the first split}        | ^ checkRd: (-1) sigp.Rd:20: Lost braces; missing escapes or markup?     20 | \item{\code{z}}: {z-score for the first split}        | ^ checkRd: (-1) sigp.Rd:21: Lost braces     21 | \item{\code{shc_result}}: {a \code{shc} S3-object as defined in sigclust2 package}        | ^ checkRd: (-1) sigp.Rd:22: Lost braces; missing escapes or markup?     22 | \item{\code{clust2}}: {a vector with group index for each cell}        | ^ checkRd: (-1) sigp.Rd:23: Lost braces; missing escapes or markup?     23 | \item{\code{clust_dat}}: {a matrix of data representation used as input for hierarchical clustering}        | ^
• 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 R/sysdata.rda ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [5s/7s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [6s/9s] OK   Running ‘testthat.R’ [6s/9s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [212s/307s] OK
• checking PDF version of manual ... [6s/8s] OK
• DONE Status: 1 NOTE
• using check arguments '--no-clean-on-error '