* using log directory ‘/home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/gggenomes.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-14 (Debian 14.2.0-19) 14.2.0
    GNU Fortran (Debian 14.2.0-19) 14.2.0
* running under: Debian GNU/Linux 13 (trixie)
* using session charset: UTF-8
* checking for file ‘gggenomes/DESCRIPTION’ ... OK
* this is package ‘gggenomes’ version ‘1.0.1’
* 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 serialization versions ... OK
* checking whether package ‘gggenomes’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-release-linux-x86_64/gggenomes-00install.html' for details.
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
  Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘aaa.R’ ‘flip.R’ ‘geom_link.Rd’ ‘geom_seq.Rd’ ‘geom_seq_break.Rd’
    ‘shift.Rd’ ‘track_info.Rd’
* 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/1s] 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 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 ... [18s/25s] OK
* checking Rd files ... [1s/1s] OK
* 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 ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [113s/151s] OK
Examples with CPU (user + system) or elapsed time > 5s
                  user system elapsed
focus           10.040  0.317  14.413
gggenomes        9.257  0.134  12.599
add_tracks       8.915  0.216  11.263
geom_gene        7.357  0.069  10.393
read_alitv       6.947  0.095   9.491
pick             6.453  0.193   8.838
flip             6.458  0.138   7.481
geom_link        6.087  0.181   8.594
scale_x_bp       5.082  0.103   6.954
geom_wiggle      4.638  0.107   6.990
geom_bin_label   4.480  0.123   6.125
position_strand  4.388  0.060   5.074
geom_seq         4.002  0.054   5.151
geom_seq_break   3.767  0.079   5.585
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [3s/4s] OK
  Running ‘testthat.R’ [3s/3s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [49s/67s] OK
* checking PDF version of manual ... [8s/10s] OK
* checking HTML version of manual ... [4s/7s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 NOTE