* using log directory ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/gggenomes.Rcheck’
* using R Under development (unstable) (2025-02-26 r87830)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.7 (1+b1)
    Debian flang-new version 19.1.7 (1+b1)
* running under: Debian GNU/Linux trixie/sid
* 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-devel-linux-x86_64-debian-clang/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/3s] 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 ... [1s/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 ... [19s/26s] 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 ... [117s/171s] OK
Examples with CPU (user + system) or elapsed time > 5s
                      user system elapsed
focus               11.156  0.114  17.109
gggenomes            9.648  0.076  15.068
add_tracks           8.967  0.372  12.785
read_alitv           7.779  0.092  11.014
geom_gene            7.727  0.043   9.952
pick                 6.726  0.004  10.668
geom_link            6.487  0.056   9.148
flip                 6.481  0.051   9.309
scale_x_bp           5.269  0.004   7.933
geom_bin_label       4.903  0.020   7.489
position_strand      4.908  0.004   6.650
geom_wiggle          4.802  0.043   7.548
shift                4.320  0.056   5.613
geom_seq             4.213  0.011   6.580
geom_seq_break       3.837  0.008   6.023
scale_color_variant  3.048  0.064   5.348
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [3s/4s] OK
  Running ‘testthat.R’ [3s/4s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [51s/67s] OK
* checking PDF version of manual ... [8s/10s] OK
* checking HTML version of manual ... [4s/8s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 NOTE