• using R Under development (unstable) (2026-07-30 r90327)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-16 (Debian 16.1.0-3) 16.1.0     GNU Fortran (Debian 16.1.0-3) 16.1.0
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8 * current time: 2026-07-31 14:13:59 UTC
• checking for file ‘cytometree/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘cytometree’ version ‘2.0.6’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [2s/2s] 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 serialization versions ... OK
• checking whether package ‘cytometree’ can be installed ... OK See the install log for details.
• used C++ compiler: ‘g++-16 (Debian 16.1.0-3) 16.1.0’
• 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 ... [1s/2s] OK
• checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
• checking whether the package can be unloaded cleanly ... [1s/1s] OK
• checking whether the namespace can be loaded with stated dependencies ... [1s/2s] OK
• checking whether the namespace can be unloaded cleanly ... [1s/2s] OK
• checking loading without being on the library search path ... [1s/1s] 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 ... [12s/16s] 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 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 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 ... [6s/8s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [2s/3s] OK   Running ‘testthat.R’ [2s/3s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [225s/297s] OK
• checking PDF version of manual ... [5s/8s] OK
• checking HTML version of manual ... [1s/1s] OK
• checking for non-standard things in the check directory ... OK
• checking for new files in some other directories ... NOTE Found the following files/directories:   ‘~/tmp/scratch/Rtmp0MX8c4’ ‘~/tmp/scratch/Rtmp0SsQHR’   ‘~/tmp/scratch/Rtmp0wKcmq’ ‘~/tmp/scratch/Rtmp1QSD5R’   ‘~/tmp/scratch/Rtmp1VDIBv’ ‘~/tmp/scratch/Rtmp1oNlsc’   ‘~/tmp/scratch/Rtmp1wTzLn’ ‘~/tmp/scratch/Rtmp1yKmFF’   ‘~/tmp/scratch/Rtmp2TCTTD’ ‘~/tmp/scratch/Rtmp3ai5ZG’   ‘~/tmp/scratch/Rtmp3bN78i’ ‘~/tmp/scratch/Rtmp3feSUl’   ‘~/tmp/scratch/Rtmp438LYx’ ‘~/tmp/scratch/Rtmp4cau8j’   ‘~/tmp/scratch/Rtmp4nd8sK’ ‘~/tmp/scratch/Rtmp4vo2Y9’   ‘~/tmp/scratch/Rtmp4zCXSK’ ‘~/tmp/scratch/Rtmp54Dtj6’   ‘~/tmp/scratch/Rtmp5npymg’ ‘~/tmp/scratch/Rtmp5sbj4T’   ‘~/tmp/scratch/Rtmp5suB9k’ ‘~/tmp/scratch/Rtmp6pW2ut’   ‘~/tmp/scratch/Rtmp842udo’ ‘~/tmp/scratch/Rtmp8FgEDs’   ‘~/tmp/scratch/Rtmp8I0XiS’ ‘~/tmp/scratch/Rtmp8MasyU’   ‘~/tmp/scratch/Rtmp8NiewS’ ‘~/tmp/scratch/Rtmp99gpID’   ‘~/tmp/scratch/Rtmp9SApve’ ‘~/tmp/scratch/RtmpAYh6ET’   ‘~/tmp/scratch/RtmpAZjk4C’ ‘~/tmp/scratch/RtmpBSEUjR’   ‘~/tmp/scratch/RtmpBTuyCP’ ‘~/tmp/scratch/RtmpCbPauZ’   ‘~/tmp/scratch/RtmpDxcJqW’ ‘~/tmp/scratch/RtmpEMQWSA’   ‘~/tmp/scratch/RtmpERFsWh’ ‘~/tmp/scratch/RtmpEvVyMl’   ‘~/tmp/scratch/RtmpFIKyR0’ ‘~/tmp/scratch/RtmpFQrYJy’   ‘~/tmp/scratch/RtmpFRAZMz’ ‘~/tmp/scratch/RtmpGDOIJx’   ‘~/tmp/scratch/RtmpGinL50’ ‘~/tmp/scratch/RtmpHMWd7Y’   ‘~/tmp/scratch/RtmpHYOceM’ ‘~/tmp/scratch/RtmpHvGwJN’   ‘~/tmp/scratch/RtmpItzVAl’ ‘~/tmp/scratch/RtmpJ8LziF’   ‘~/tmp/scratch/RtmpK6KERe’ ‘~/tmp/scratch/RtmpKBlxxc’   ‘~/tmp/scratch/RtmpKJvQGc’ ‘~/tmp/scratch/RtmpKMi61u’   ‘~/tmp/scratch/RtmpKNd3cb’ ‘~/tmp/scratch/RtmpKgTPkc’   ‘~/tmp/scratch/RtmpKnQkwh’ ‘~/tmp/scratch/RtmpLanRWR’   ‘~/tmp/scratch/RtmpLrLwkS’ ‘~/tmp/scratch/RtmpLw11M4’   ‘~/tmp/scratch/RtmpM47jW1’ ‘~/tmp/scratch/RtmpMNHs5Q’   ‘~/tmp/scratch/RtmpMvP0bb’ ‘~/tmp/scratch/RtmpN3qj6U’   ‘~/tmp/scratch/RtmpNWsKH5’ ‘~/tmp/scratch/RtmpOy9OPR’   ‘~/tmp/scratch/RtmpQ3ZonD’ ‘~/tmp/scratch/RtmpQR6H3r’   ‘~/tmp/scratch/RtmpQxbluI’ ‘~/tmp/scratch/RtmpRDVCBO’   ‘~/tmp/scratch/RtmpRMZn56’ ‘~/tmp/scratch/RtmpRiWLQg’   ‘~/tmp/scratch/RtmpRuT578’ ‘~/tmp/scratch/RtmpRviEYV’   ‘~/tmp/scratch/RtmpS0htEx’ ‘~/tmp/scratch/RtmpSmu2p7’   ‘~/tmp/scratch/RtmpSsDCHX’ ‘~/tmp/scratch/RtmpTKwGGx’   ‘~/tmp/scratch/RtmpTQ0Xu3’ ‘~/tmp/scratch/RtmpTo8oN2’   ‘~/tmp/scratch/RtmpU0JLmI’ ‘~/tmp/scratch/RtmpULLYix’   ‘~/tmp/scratch/RtmpUMiERz’ ‘~/tmp/scratch/RtmpUiXqYM’   ‘~/tmp/scratch/RtmpVZh5J0’ ‘~/tmp/scratch/RtmpVjVpaz’   ‘~/tmp/scratch/RtmpVoNHvD’ ‘~/tmp/scratch/RtmpVwYPpf’   ‘~/tmp/scratch/RtmpWUsW1j’ ‘~/tmp/scratch/RtmpWmcCL0’   ‘~/tmp/scratch/RtmpWpDIvS’ ‘~/tmp/scratch/RtmpXDXVnp’   ‘~/tmp/scratch/RtmpXGTbbQ’ ‘~/tmp/scratch/RtmpXcZzgg’   ‘~/tmp/scratch/RtmpXdGOoa’ ‘~/tmp/scratch/RtmpXloNpO’   ‘~/tmp/scratch/RtmpYCjqAX’ ‘~/tmp/scratch/RtmpYcy9QA’   ‘~/tmp/scratch/RtmpZ38h8d’ ‘~/tmp/scratch/RtmpZAdNKu’   ‘~/tmp/scratch/RtmpZgYr5k’ ‘~/tmp/scratch/Rtmpa9vt39’   ‘~/tmp/scratch/RtmpaAWI12’ ‘~/tmp/scratch/RtmpaEx4lk’   ‘~/tmp/scratch/RtmpaO70cZ’ ‘~/tmp/scratch/Rtmpaf1tpM’   ‘~/tmp/scratch/RtmpakTkbj’ ‘~/tmp/scratch/RtmpanbuXe’   ‘~/tmp/scratch/Rtmpb8TRdy’ ‘~/tmp/scratch/RtmpcAhdjq’   ‘~/tmp/scratch/RtmpcX91E3’ ‘~/tmp/scratch/RtmpdFXWJm’   ‘~/tmp/scratch/RtmpdhJYYA’ ‘~/tmp/scratch/RtmpeGumLl’   ‘~/tmp/scratch/RtmpeRqXW8’ ‘~/tmp/scratch/RtmpeUQFJn’   ‘~/tmp/scratch/Rtmpean2zD’ ‘~/tmp/scratch/Rtmpejsu6U’   ‘~/tmp/scratch/RtmpeqbtOx’ ‘~/tmp/scratch/RtmpfqqiI7’   ‘~/tmp/scratch/Rtmph0EfNk’ ‘~/tmp/scratch/RtmphMN95J’   ‘~/tmp/scratch/Rtmpi989Y2’ ‘~/tmp/scratch/Rtmpi9E2Gj’   ‘~/tmp/scratch/RtmpiVKAZw’ ‘~/tmp/scratch/Rtmpj7HPBf’   ‘~/tmp/scratch/RtmpjwcAn6’ ‘~/tmp/scratch/RtmpkUiAu4’   ‘~/tmp/scratch/RtmpkWWDmO’ ‘~/tmp/scratch/RtmpkeztBe’   ‘~/tmp/scratch/RtmpkwB4JV’ ‘~/tmp/scratch/RtmplCgQya’   ‘~/tmp/scratch/RtmplSqoTI’ ‘~/tmp/scratch/RtmpllYtKO’   ‘~/tmp/scratch/RtmpmCP7WT’ ‘~/tmp/scratch/RtmpmJWDtL’   ‘~/tmp/scratch/RtmpmMqydC’ ‘~/tmp/scratch/RtmpmxkCPm’   ‘~/tmp/scratch/RtmpoTN5Lt’ ‘~/tmp/scratch/Rtmpoc5mmc’   ‘~/tmp/scratch/RtmpoxlGHD’ ‘~/tmp/scratch/Rtmpozlaln’   ‘~/tmp/scratch/RtmppAVOmk’ ‘~/tmp/scratch/RtmppmKuy5’   ‘~/tmp/scratch/RtmppyH4g2’ ‘~/tmp/scratch/Rtmpq0pt9K’   ‘~/tmp/scratch/RtmpqD6DSQ’ ‘~/tmp/scratch/RtmpqaqtR0’   ‘~/tmp/scratch/Rtmpqeqcjs’ ‘~/tmp/scratch/RtmpqkI6rw’   ‘~/tmp/scratch/RtmprDEmw7’ ‘~/tmp/scratch/RtmprwzB3f’   ‘~/tmp/scratch/RtmpsQmXdN’ ‘~/tmp/scratch/RtmpsT9d3d’   ‘~/tmp/scratch/Rtmpt7qjXd’ ‘~/tmp/scratch/RtmptuExf6’   ‘~/tmp/scratch/RtmpuEI5n5’ ‘~/tmp/scratch/RtmpuOEuPs’   ‘~/tmp/scratch/RtmpuVfixl’ ‘~/tmp/scratch/Rtmpve07wN’   ‘~/tmp/scratch/Rtmpvo5Hx6’ ‘~/tmp/scratch/Rtmpw8yTJA’   ‘~/tmp/scratch/RtmpwFNZxN’ ‘~/tmp/scratch/RtmpwQnWiz’   ‘~/tmp/scratch/RtmpyDflCg’ ‘~/tmp/scratch/RtmpyLMvJX’   ‘~/tmp/scratch/RtmpyMuYtJ’ ‘~/tmp/scratch/RtmpyO5w1s’   ‘~/tmp/scratch/Rtmpz9vdnl’ ‘~/tmp/scratch/Rtmpzi0deO’   ‘~/tmp/scratch/RtmpziRjA6’   ‘~/tmp/scratch/quarto-sessionbc0bb24728b30455’   ‘~/tmp/scratch/xvfb-run.0FKgEQ’ ‘~/tmp/scratch/xvfb-run.2hahuc’   ‘~/tmp/scratch/xvfb-run.3Beu0I’ ‘~/tmp/scratch/xvfb-run.3SQPhb’   ‘~/tmp/scratch/xvfb-run.4zOViv’ ‘~/tmp/scratch/xvfb-run.5UVbmr’   ‘~/tmp/scratch/xvfb-run.5cafSm’ ‘~/tmp/scratch/xvfb-run.5pOCDz’   ‘~/tmp/scratch/xvfb-run.6D3gmx’ ‘~/tmp/scratch/xvfb-run.6WZGFJ’   ‘~/tmp/scratch/xvfb-run.6YnsNA’ ‘~/tmp/scratch/xvfb-run.6j9XBh’   ‘~/tmp/scratch/xvfb-run.8gqbk3’ ‘~/tmp/scratch/xvfb-run.8tlCPF’   ‘~/tmp/scratch/xvfb-run.A06Mw8’ ‘~/tmp/scratch/xvfb-run.Ai8edZ’   ‘~/tmp/scratch/xvfb-run.BrcAnE’ ‘~/tmp/scratch/xvfb-run.C9SeAI’   ‘~/tmp/scratch/xvfb-run.DB4Afk’ ‘~/tmp/scratch/xvfb-run.Db6Afk’   ‘~/tmp/scratch/xvfb-run.DtOpRj’ ‘~/tmp/scratch/xvfb-run.EZr5yh’   ‘~/tmp/scratch/xvfb-run.EouaZU’ ‘~/tmp/scratch/xvfb-run.FNuoLG’   ‘~/tmp/scratch/xvfb-run.Iv3jO0’ ‘~/tmp/scratch/xvfb-run.Jy4y7h’   ‘~/tmp/scratch/xvfb-run.KyQWlx’ ‘~/tmp/scratch/xvfb-run.LV2wdF’   ‘~/tmp/scratch/xvfb-run.M74Wby’ ‘~/tmp/scratch/xvfb-run.MhcRRL’   ‘~/tmp/scratch/xvfb-run.Mwmy0E’ ‘~/tmp/scratch/xvfb-run.NYVjch’   ‘~/tmp/scratch/xvfb-run.OaoxzT’ ‘~/tmp/scratch/xvfb-run.Rbc145’   ‘~/tmp/scratch/xvfb-run.RdBwJv’ ‘~/tmp/scratch/xvfb-run.TJZsFY’   ‘~/tmp/scratch/xvfb-run.UJIvbz’ ‘~/tmp/scratch/xvfb-run.VHpOQZ’   ‘~/tmp/scratch/xvfb-run.Vt1W5B’ ‘~/tmp/scratch/xvfb-run.WCCfiW’   ‘~/tmp/scratch/xvfb-run.WnjLap’ ‘~/tmp/scratch/xvfb-run.XPMHVW’   ‘~/tmp/scratch/xvfb-run.XUDdNF’ ‘~/tmp/scratch/xvfb-run.YEd6F1’   ‘~/tmp/scratch/xvfb-run.YSGDX8’ ‘~/tmp/scratch/xvfb-run.YdWdOB’   ‘~/tmp/scratch/xvfb-run.YsKXtI’ ‘~/tmp/scratch/xvfb-run.YyV1gv’   ‘~/tmp/scratch/xvfb-run.Z3S5We’ ‘~/tmp/scratch/xvfb-run.aQb3Li’   ‘~/tmp/scratch/xvfb-run.adSAp2’ ‘~/tmp/scratch/xvfb-run.bZyBV3’   ‘~/tmp/scratch/xvfb-run.cMHaab’ ‘~/tmp/scratch/xvfb-run.f7rHo6’   ‘~/tmp/scratch/xvfb-run.fYm5Pf’ ‘~/tmp/scratch/xvfb-run.g9KYg7’   ‘~/tmp/scratch/xvfb-run.gnRHZX’ ‘~/tmp/scratch/xvfb-run.iLl8nl’   ‘~/tmp/scratch/xvfb-run.k92mX9’ ‘~/tmp/scratch/xvfb-run.k9BP4G’   ‘~/tmp/scratch/xvfb-run.nqtAJ1’ ‘~/tmp/scratch/xvfb-run.owvJXG’   ‘~/tmp/scratch/xvfb-run.pPGjrW’ ‘~/tmp/scratch/xvfb-run.qdBiAU’   ‘~/tmp/scratch/xvfb-run.r6QRUl’ ‘~/tmp/scratch/xvfb-run.rAwhuS’   ‘~/tmp/scratch/xvfb-run.sOJTnF’ ‘~/tmp/scratch/xvfb-run.sucFV2’   ‘~/tmp/scratch/xvfb-run.tLcSiM’ ‘~/tmp/scratch/xvfb-run.tx8eAv’   ‘~/tmp/scratch/xvfb-run.vqAvpg’ ‘~/tmp/scratch/xvfb-run.wffmTG’   ‘~/tmp/scratch/xvfb-run.wm77hM’ ‘~/tmp/scratch/xvfb-run.xN83aJ’   ‘~/tmp/scratch/xvfb-run.y2bIn7’ ‘~/tmp/scratch/xvfb-run.z1Rs2o’   ‘~/tmp/scratch/xvfb-run.zl7e7h’ ‘~/tmp/scratch/xvfb-run.zyVews’
• DONE

Status: 1 NOTE