• using R Under development (unstable) (2026-02-22 r89452)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     Debian clang version 21.1.8 (3+b1)     Debian flang version 21.1.8 (3+b1)
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8 * current time: 2026-02-24 04:58:27 UTC
• checking for file ‘neuroimaGene/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘neuroimaGene’ version ‘0.1.2’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [2s/3s] OK
• 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 ‘neuroimaGene’ 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 ... [3s/5s] OK
• checking whether the package can be loaded with stated dependencies ... [3s/4s] OK
• checking whether the package can be unloaded cleanly ... [3s/4s] OK
• checking whether the namespace can be loaded with stated dependencies ... [3s/3s] OK
• checking whether the namespace can be unloaded cleanly ... [3s/4s] OK
• checking loading without being on the library search path ... [3s/5s] OK
• checking whether startup messages can be suppressed ... [3s/4s] 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 ... [16s/21s] OK
• checking Rd files ... [0s/1s] OK
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• 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 ... [0s/0s] 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 ... [4s/5s] ERROR Running examples in ‘neuroimaGene-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: neuro_vis > ### Title: 2D visualization plot of a neuroimaGene object > ### Aliases: neuro_vis > ### Keywords: neuroimaging > > ### ** Examples > > gene_list <- c('TRIM35', 'PROSER3', 'EXOSC6', 'PICK1', 'UPK1A', 'ESPNL', 'ZIC4') > ng <- neuroimaGene(gene_list, atlas = NA, mtc = 'BH', vignette = TRUE) > neuro_vis(ng, atlas = 'DKT') Error: ! `ggseg()` was deprecated in ggseg 2.0.0 and is now defunct. ℹ Please use `ggplot() + geom_brain()` instead. Backtrace:     ▆  1. └─neuroimaGene::neuro_vis(ng, atlas = "DKT")  2. └─ggseg::ggseg(...)  3. └─lifecycle::deprecate_stop("2.0.0", "ggseg()", details = "Please use `ggplot() + geom_brain()` instead.")  4. └─lifecycle:::deprecate_stop0(msg)  5. └─rlang::cnd_signal(...) Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [8s/9s] ERROR Error(s) in re-building vignettes:   ... --- re-building ‘neuroimaGene.Rmd’ using rmarkdown Quitting from neuroimaGene.Rmd:230-235 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `eval(parse(text = fs))$data`: ! object of type 'closure' is not subsettable --- Backtrace:     ▆  1. └─neuroimaGene::neuro_vis(...)  2. ├─data.table::as.data.table(...)  3. ├─base::merge(...)  4. ├─data.table::merge.data.table(...)  5. │ └─data.table::is.data.table(y)  6. └─data.table::as.data.table(eval(parse(text = fs))$data) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'neuroimaGene.Rmd' failed with diagnostics: object of type 'closure' is not subsettable --- failed re-building ‘neuroimaGene.Rmd’ SUMMARY: processing the following file failed:   ‘neuroimaGene.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [4s/5s] OK
• checking HTML version of manual ... [1s/1s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 ERRORs