* using log directory ‘/srv/hornik/tmp/CRAN/RaMS.Rcheck’
* using R Under development (unstable) (2023-12-04 r85659)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 17.0.5 (1)
    Debian flang-new version 17.0.5 (1)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘RaMS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RaMS’ version ‘1.3.2’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [5s/6s] Note_to_CRAN_maintainers
Maintainer: ‘William Kumler <wkumler@uw.edu>’
* 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 ‘RaMS’ can be installed ... [2s/2s] OK
* 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 R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [0s/0s] OK
* checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the package can be unloaded cleanly ... [0s/0s] OK
* checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
* checking loading without being on the library search path ... [0s/0s] 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 ... [4s/4s] OK
* checking Rd files ... [0s/0s] 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [38s/4s] NOTE
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
mz_group     17.36  0.483   1.706
qplotMS1data  5.71  0.199   0.844
Examples with CPU time > 2.5 times elapsed time
               user system elapsed  ratio
grabMzmlData  1.507  0.029   0.121 12.694
mz_group     17.360  0.483   1.706 10.459
grabMSdata    3.968  0.096   0.398 10.211
qplotMS1data  5.710  0.199   0.844  7.001
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [134s/21s] NOTE
  Running ‘testthat.R’ [134s/21s]
Running R code in ‘testthat.R’ had CPU time 6.4 times elapsed time
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking re-building of vignette outputs ... [115s/30s] NOTE
Re-building vignettes had CPU time 3.8 times elapsed time
* checking PDF version of manual ... [3s/3s] OK
* checking HTML version of manual ... [1s/1s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 3 NOTEs