• using R Under development (unstable) (2026-08-01 r90334)
• 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: 2026-08-02 11:23:32 UTC
• checking for file ‘CoalescentPhylo/DESCRIPTION’ ... OK
• this is package ‘CoalescentPhylo’ version ‘0.1.0’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [1s/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 whether package ‘CoalescentPhylo’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... 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 ... [2s/2s] 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 ... [2s/2s] OK
• checking loading without being on the library search path ... [2s/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 ... [11s/18s] 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 examples ... [2s/3s] OK
• checking PDF version of manual ... [4s/6s] OK
• checking HTML version of manual ... [0s/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/Rtmp0Ohrph’ ‘~/tmp/scratch/Rtmp14Ugm6’   ‘~/tmp/scratch/Rtmp1aoc7t’ ‘~/tmp/scratch/Rtmp1mOMeJ’   ‘~/tmp/scratch/Rtmp2EZvLs’ ‘~/tmp/scratch/Rtmp2G2bE7’   ‘~/tmp/scratch/Rtmp2ML52h’ ‘~/tmp/scratch/Rtmp2mEdCq’   ‘~/tmp/scratch/Rtmp316qNc’ ‘~/tmp/scratch/Rtmp3DAkJJ’   ‘~/tmp/scratch/Rtmp3ruqdu’ ‘~/tmp/scratch/Rtmp44qmr0’   ‘~/tmp/scratch/Rtmp4UulwM’ ‘~/tmp/scratch/Rtmp5IjKLy’   ‘~/tmp/scratch/Rtmp6QNVfw’ ‘~/tmp/scratch/Rtmp6qugrL’   ‘~/tmp/scratch/Rtmp7OIGXf’ ‘~/tmp/scratch/Rtmp7UKoWA’   ‘~/tmp/scratch/Rtmp7V3dPQ’ ‘~/tmp/scratch/Rtmp7WoYz0’   ‘~/tmp/scratch/Rtmp7uIfcH’ ‘~/tmp/scratch/Rtmp7zyCYQ’   ‘~/tmp/scratch/Rtmp8FBqI5’ ‘~/tmp/scratch/Rtmp8sW9lX’   ‘~/tmp/scratch/Rtmp9BZEXy’ ‘~/tmp/scratch/RtmpA9ZNJn’   ‘~/tmp/scratch/RtmpAEFfOV’ ‘~/tmp/scratch/RtmpAMW8DM’   ‘~/tmp/scratch/RtmpAnV0V7’ ‘~/tmp/scratch/RtmpBRp7yf’   ‘~/tmp/scratch/RtmpC5Sbfk’ ‘~/tmp/scratch/RtmpCac23i’   ‘~/tmp/scratch/RtmpCbhz7Y’ ‘~/tmp/scratch/RtmpDbjLiZ’   ‘~/tmp/scratch/RtmpFCRW7X’ ‘~/tmp/scratch/RtmpFVPZYv’   ‘~/tmp/scratch/RtmpHMq5Bc’ ‘~/tmp/scratch/RtmpHWVrD7’   ‘~/tmp/scratch/RtmpHoQBg4’ ‘~/tmp/scratch/RtmpHxOBf1’   ‘~/tmp/scratch/RtmpIYwLGH’ ‘~/tmp/scratch/RtmpIg0nH8’   ‘~/tmp/scratch/RtmpIhD6Qe’ ‘~/tmp/scratch/RtmpJIe0s5’   ‘~/tmp/scratch/RtmpJXJfOL’ ‘~/tmp/scratch/RtmpJfmEAX’   ‘~/tmp/scratch/RtmpJl8mJf’ ‘~/tmp/scratch/RtmpKdu0lZ’   ‘~/tmp/scratch/RtmpKjfonl’ ‘~/tmp/scratch/RtmpKtEZjt’   ‘~/tmp/scratch/RtmpKvcEaw’ ‘~/tmp/scratch/RtmpLkYERz’   ‘~/tmp/scratch/RtmpMbqrJQ’ ‘~/tmp/scratch/RtmpNNPe49’   ‘~/tmp/scratch/RtmpNmMpnx’ ‘~/tmp/scratch/RtmpNnUzu6’   ‘~/tmp/scratch/RtmpO6BCdA’ ‘~/tmp/scratch/RtmpOHGjwK’   ‘~/tmp/scratch/RtmpPPHlt8’ ‘~/tmp/scratch/RtmpPlNNeR’   ‘~/tmp/scratch/RtmpPuBixN’ ‘~/tmp/scratch/RtmpQpMX9i’   ‘~/tmp/scratch/RtmpR0TgeL’ ‘~/tmp/scratch/RtmpRDCnDm’   ‘~/tmp/scratch/RtmpRX6wq0’ ‘~/tmp/scratch/RtmpS9SOaM’   ‘~/tmp/scratch/RtmpSIzONi’ ‘~/tmp/scratch/RtmpTUjqPr’   ‘~/tmp/scratch/RtmpTWDiCu’ ‘~/tmp/scratch/RtmpTp1Xaa’   ‘~/tmp/scratch/RtmpTz3fND’ ‘~/tmp/scratch/RtmpVHSy9x’   ‘~/tmp/scratch/RtmpVOkFzC’ ‘~/tmp/scratch/RtmpVsP5MF’   ‘~/tmp/scratch/RtmpVwO3MV’ ‘~/tmp/scratch/RtmpW4m2Lw’   ‘~/tmp/scratch/RtmpWJ9ooY’ ‘~/tmp/scratch/RtmpWMqF6n’   ‘~/tmp/scratch/RtmpWX5py1’ ‘~/tmp/scratch/RtmpWhKy1R’   ‘~/tmp/scratch/RtmpX29LAD’ ‘~/tmp/scratch/RtmpX4vrAS’   ‘~/tmp/scratch/RtmpXPMNec’ ‘~/tmp/scratch/RtmpXVSuBs’   ‘~/tmp/scratch/RtmpXf9KgD’ ‘~/tmp/scratch/RtmpZoGGlR’   ‘~/tmp/scratch/RtmpZtpYA1’ ‘~/tmp/scratch/RtmpZuToWO’   ‘~/tmp/scratch/RtmpakTbvw’ ‘~/tmp/scratch/RtmpcBZTEQ’   ‘~/tmp/scratch/RtmpcZkz5V’ ‘~/tmp/scratch/RtmpdQo5JU’   ‘~/tmp/scratch/Rtmpe8Aahg’ ‘~/tmp/scratch/RtmpeqSCaF’   ‘~/tmp/scratch/RtmpfAyAn5’ ‘~/tmp/scratch/Rtmpg1CQiH’   ‘~/tmp/scratch/RtmpgCI7yE’ ‘~/tmp/scratch/RtmphSoNat’   ‘~/tmp/scratch/RtmpheffHv’ ‘~/tmp/scratch/RtmpiA8nN7’   ‘~/tmp/scratch/RtmpiC2GXK’ ‘~/tmp/scratch/RtmpiHKByy’   ‘~/tmp/scratch/Rtmpif53vg’ ‘~/tmp/scratch/RtmpjTZSph’   ‘~/tmp/scratch/RtmpjkeFPh’ ‘~/tmp/scratch/RtmpkJYDTS’   ‘~/tmp/scratch/RtmpkToy59’ ‘~/tmp/scratch/RtmpkZe6b1’   ‘~/tmp/scratch/RtmpkjUP8a’ ‘~/tmp/scratch/RtmplDuWGz’   ‘~/tmp/scratch/RtmplZ8fSK’ ‘~/tmp/scratch/RtmplaDX1z’   ‘~/tmp/scratch/RtmpmECwyf’ ‘~/tmp/scratch/RtmpmMv1cz’   ‘~/tmp/scratch/RtmpmflTZ8’ ‘~/tmp/scratch/RtmpntxHKe’   ‘~/tmp/scratch/RtmpoDbgXN’ ‘~/tmp/scratch/RtmpoNevHP’   ‘~/tmp/scratch/RtmpoV1Rzc’ ‘~/tmp/scratch/Rtmpod6P62’   ‘~/tmp/scratch/RtmppLsoNB’ ‘~/tmp/scratch/RtmpqADPET’   ‘~/tmp/scratch/RtmpqlxMmR’ ‘~/tmp/scratch/RtmpqwMvA7’   ‘~/tmp/scratch/RtmpqwgCdI’ ‘~/tmp/scratch/Rtmpr4QOSI’   ‘~/tmp/scratch/Rtmps5zdaF’ ‘~/tmp/scratch/RtmpsI8sN2’   ‘~/tmp/scratch/RtmpsREMVp’ ‘~/tmp/scratch/RtmptkJW3z’   ‘~/tmp/scratch/RtmpuGNmm9’ ‘~/tmp/scratch/RtmpuPMVCo’   ‘~/tmp/scratch/RtmpuY3LJv’ ‘~/tmp/scratch/RtmpvOi5Mx’   ‘~/tmp/scratch/RtmpwWFbNz’ ‘~/tmp/scratch/Rtmpwc3Byw’   ‘~/tmp/scratch/Rtmpx6RVLE’ ‘~/tmp/scratch/RtmpxFnJiB’   ‘~/tmp/scratch/RtmpxikOrc’ ‘~/tmp/scratch/RtmpxmqtqJ’   ‘~/tmp/scratch/Rtmpxu4HlH’ ‘~/tmp/scratch/RtmpzOUPKo’   ‘~/tmp/scratch/RtmpzllR2C’ ‘~/tmp/scratch/Rtmpzn9stL’   ‘~/tmp/scratch/ccvPyYBI.s’ ‘~/tmp/scratch/xvfb-run.1pXSuO’   ‘~/tmp/scratch/xvfb-run.2FOUGl’ ‘~/tmp/scratch/xvfb-run.2aoK7s’   ‘~/tmp/scratch/xvfb-run.3XuouD’ ‘~/tmp/scratch/xvfb-run.4PLS3i’   ‘~/tmp/scratch/xvfb-run.4rSDCh’ ‘~/tmp/scratch/xvfb-run.55bPvq’   ‘~/tmp/scratch/xvfb-run.6GTyhn’ ‘~/tmp/scratch/xvfb-run.6P6izJ’   ‘~/tmp/scratch/xvfb-run.8qYIS3’ ‘~/tmp/scratch/xvfb-run.9ReXsA’   ‘~/tmp/scratch/xvfb-run.AEFIXX’ ‘~/tmp/scratch/xvfb-run.CI3kNj’   ‘~/tmp/scratch/xvfb-run.CNH5YJ’ ‘~/tmp/scratch/xvfb-run.CPpNoc’   ‘~/tmp/scratch/xvfb-run.F3VdV2’ ‘~/tmp/scratch/xvfb-run.FI5smn’   ‘~/tmp/scratch/xvfb-run.FeaXZX’ ‘~/tmp/scratch/xvfb-run.FrbXg5’   ‘~/tmp/scratch/xvfb-run.FxIaV3’ ‘~/tmp/scratch/xvfb-run.Go1uNJ’   ‘~/tmp/scratch/xvfb-run.H6ADQH’ ‘~/tmp/scratch/xvfb-run.ITzZFY’   ‘~/tmp/scratch/xvfb-run.LG10fU’ ‘~/tmp/scratch/xvfb-run.LZPplL’   ‘~/tmp/scratch/xvfb-run.LlxPki’ ‘~/tmp/scratch/xvfb-run.NZUSF7’   ‘~/tmp/scratch/xvfb-run.VGTMrB’ ‘~/tmp/scratch/xvfb-run.Xu5Hex’   ‘~/tmp/scratch/xvfb-run.Z0XjSn’ ‘~/tmp/scratch/xvfb-run.aYeClt’   ‘~/tmp/scratch/xvfb-run.cPw99A’ ‘~/tmp/scratch/xvfb-run.dE59Y5’   ‘~/tmp/scratch/xvfb-run.dpkkEe’ ‘~/tmp/scratch/xvfb-run.eaBcDI’   ‘~/tmp/scratch/xvfb-run.eqLAkB’ ‘~/tmp/scratch/xvfb-run.h4rkYZ’   ‘~/tmp/scratch/xvfb-run.mt4jPR’ ‘~/tmp/scratch/xvfb-run.nFmYwK’   ‘~/tmp/scratch/xvfb-run.nQcO3G’ ‘~/tmp/scratch/xvfb-run.nU0Psa’   ‘~/tmp/scratch/xvfb-run.o01NvK’ ‘~/tmp/scratch/xvfb-run.pNsMUh’   ‘~/tmp/scratch/xvfb-run.qqA79P’ ‘~/tmp/scratch/xvfb-run.riXi0c’   ‘~/tmp/scratch/xvfb-run.sMuScp’ ‘~/tmp/scratch/xvfb-run.tDNEIw’   ‘~/tmp/scratch/xvfb-run.tvTJj0’ ‘~/tmp/scratch/xvfb-run.uAulRb’   ‘~/tmp/scratch/xvfb-run.xjPXGN’
• DONE

Status: 1 NOTE