* using log directory ‘/home/hornik/tmp/CRAN_special_clang-san/mpactr.Rcheck’
* using R Under development (unstable) (2025-09-10 r88805)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.7 (3+b1)
    Debian flang-new version 19.1.7 (3+b1)
* running under: Debian GNU/Linux forky/sid
* using session charset: UTF-8
* checking for file ‘mpactr/DESCRIPTION’ ... OK
* this is package ‘mpactr’ version ‘0.3.1’
* 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 ‘mpactr’ can be installed ... [32s/32s] OK
* used C++ compiler: ‘Debian clang version 19.1.7 (3+b2)’
* 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/3s] OK
* checking whether the package can be loaded with stated dependencies ... [2s/2s] OK
* checking whether the package can be unloaded cleanly ... [2s/2s] OK
* checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK
* checking whether the namespace can be unloaded cleanly ... [3s/3s] OK
* checking loading without being on the library search path ... [3s/3s] 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 ... [17s/17s] 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 ... [3s/3s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [148s/23s] OK
Examples with CPU (user + system) or elapsed time > 5s
                        user system elapsed
plot_qc_tree          17.686  2.104   2.036
get_similar_ions      15.010  1.964   1.503
filter_summary        14.561  1.887   1.395
qc_summary            14.515  1.804   1.445
get_group_averages    14.680  1.523   2.513
filter_mispicked_ions 10.069  1.458   1.163
filter_group           9.811  1.442   2.190
filter_cv              4.549  1.179   1.541
Examples with CPU time > 2.5 times elapsed time
                        user system elapsed  ratio
filter_summary        14.561  1.887   1.395 11.791
get_similar_ions      15.010  1.964   1.503 11.293
qc_summary            14.515  1.804   1.445 11.293
filter_mispicked_ions 10.069  1.458   1.163  9.911
plot_qc_tree          17.686  2.104   2.036  9.720
get_cv_data            2.553  1.220   0.427  8.836
get_meta_data          0.763  1.103   0.286  6.524
get_group_averages    14.680  1.523   2.513  6.448
filter_group           9.811  1.442   2.190  5.138
import_data            0.390  2.142   0.539  4.698
get_peak_table         0.306  0.926   0.290  4.248
get_raw_data           0.196  1.081   0.326  3.917
filter_cv              4.549  1.179   1.541  3.717
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [928s/122s] NOTE
  Running ‘testthat.R’ [928s/121s]
Running R code in ‘testthat.R’ had CPU time 7.7 times elapsed time
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [459s/125s] NOTE
Re-building vignettes had CPU time 3.7 times elapsed time
* checking PDF version of manual ... [4s/4s] 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: 2 NOTEs