• 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 11:24:39 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/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 ... [10s/15s] 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 ... [3s/5s] 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/Rtmp0UeD67’ ‘~/tmp/scratch/Rtmp0j0Ubo’   ‘~/tmp/scratch/Rtmp0lMKz3’ ‘~/tmp/scratch/Rtmp44NWoZ’   ‘~/tmp/scratch/Rtmp4Ww07g’ ‘~/tmp/scratch/Rtmp4yg3f7’   ‘~/tmp/scratch/Rtmp5yx3EO’ ‘~/tmp/scratch/Rtmp6A1T7o’   ‘~/tmp/scratch/Rtmp6a8KY8’ ‘~/tmp/scratch/Rtmp6aPOwL’   ‘~/tmp/scratch/Rtmp6usEW8’ ‘~/tmp/scratch/Rtmp7ZFQEp’   ‘~/tmp/scratch/Rtmp7amsSl’ ‘~/tmp/scratch/Rtmp7geYnP’   ‘~/tmp/scratch/Rtmp9SG8QS’ ‘~/tmp/scratch/RtmpASl4GN’   ‘~/tmp/scratch/RtmpAwHZC3’ ‘~/tmp/scratch/RtmpBNgQip’   ‘~/tmp/scratch/RtmpCHdQZf’ ‘~/tmp/scratch/RtmpCMul7F’   ‘~/tmp/scratch/RtmpCv1hUm’ ‘~/tmp/scratch/RtmpD6xH6u’   ‘~/tmp/scratch/RtmpDD32CT’ ‘~/tmp/scratch/RtmpDTD4zO’   ‘~/tmp/scratch/RtmpEHfwtQ’ ‘~/tmp/scratch/RtmpEoGOVz’   ‘~/tmp/scratch/RtmpF5oaHJ’ ‘~/tmp/scratch/RtmpG0QQFJ’   ‘~/tmp/scratch/RtmpGJLMtN’ ‘~/tmp/scratch/RtmpGZkG7g’   ‘~/tmp/scratch/RtmpHcMtcH’ ‘~/tmp/scratch/RtmpHoXYLS’   ‘~/tmp/scratch/RtmpI2GL08’ ‘~/tmp/scratch/RtmpI7eGdq’   ‘~/tmp/scratch/RtmpIR1jjv’ ‘~/tmp/scratch/RtmpIcGZ8B’   ‘~/tmp/scratch/RtmpIzRZoM’ ‘~/tmp/scratch/RtmpKAvIHZ’   ‘~/tmp/scratch/RtmpKStscf’ ‘~/tmp/scratch/RtmpKhkIkg’   ‘~/tmp/scratch/RtmpKw2EH3’ ‘~/tmp/scratch/RtmpLC3agw’   ‘~/tmp/scratch/RtmpMMzzZF’ ‘~/tmp/scratch/RtmpMUUJlQ’   ‘~/tmp/scratch/RtmpMz6wZq’ ‘~/tmp/scratch/RtmpNRGuA1’   ‘~/tmp/scratch/RtmpO0FdWE’ ‘~/tmp/scratch/RtmpO7AHJm’   ‘~/tmp/scratch/RtmpOeZcjj’ ‘~/tmp/scratch/RtmpOvOlQk’   ‘~/tmp/scratch/RtmpPVfKR9’ ‘~/tmp/scratch/RtmpQEbxQm’   ‘~/tmp/scratch/RtmpQGMmqq’ ‘~/tmp/scratch/RtmpQhTDnE’   ‘~/tmp/scratch/RtmpQlZE54’ ‘~/tmp/scratch/RtmpRoGVkN’   ‘~/tmp/scratch/RtmpS6Iajc’ ‘~/tmp/scratch/RtmpSNieY5’   ‘~/tmp/scratch/RtmpSpU7iR’ ‘~/tmp/scratch/RtmpT30PKQ’   ‘~/tmp/scratch/RtmpT8C7pU’ ‘~/tmp/scratch/RtmpTLCaGr’   ‘~/tmp/scratch/RtmpTbngq5’ ‘~/tmp/scratch/RtmpTzXVob’   ‘~/tmp/scratch/RtmpURnAJM’ ‘~/tmp/scratch/RtmpUYjayj’   ‘~/tmp/scratch/RtmpVqzRLm’ ‘~/tmp/scratch/RtmpW9P8Lr’   ‘~/tmp/scratch/RtmpWownR7’ ‘~/tmp/scratch/RtmpXH4JpD’   ‘~/tmp/scratch/RtmpXw1PJR’ ‘~/tmp/scratch/RtmpYOqIy0’   ‘~/tmp/scratch/RtmpYomdAP’ ‘~/tmp/scratch/RtmpYpMJIE’   ‘~/tmp/scratch/RtmpZcpYFR’ ‘~/tmp/scratch/RtmpbFUXxP’   ‘~/tmp/scratch/RtmpbK8ii1’ ‘~/tmp/scratch/RtmpcKLxRo’   ‘~/tmp/scratch/RtmpdOKfm3’ ‘~/tmp/scratch/RtmpdOdoAT’   ‘~/tmp/scratch/RtmpdWJ8CZ’ ‘~/tmp/scratch/RtmpeQoBFj’   ‘~/tmp/scratch/RtmpeiWqcN’ ‘~/tmp/scratch/RtmpexJPGy’   ‘~/tmp/scratch/RtmpfiN3XX’ ‘~/tmp/scratch/Rtmpfwr1fX’   ‘~/tmp/scratch/RtmpfxR4xM’ ‘~/tmp/scratch/RtmpgY0Fkj’   ‘~/tmp/scratch/RtmpgddZAb’ ‘~/tmp/scratch/RtmpgzFJQs’   ‘~/tmp/scratch/RtmphZP407’ ‘~/tmp/scratch/RtmphZewIt’   ‘~/tmp/scratch/Rtmphb8jEN’ ‘~/tmp/scratch/RtmphyOhF6’   ‘~/tmp/scratch/RtmpifLFZV’ ‘~/tmp/scratch/RtmpioQTgz’   ‘~/tmp/scratch/Rtmpj0fNkE’ ‘~/tmp/scratch/Rtmpk35bwr’   ‘~/tmp/scratch/RtmpkDgdDW’ ‘~/tmp/scratch/RtmplqOcUb’   ‘~/tmp/scratch/RtmpmEXKzg’ ‘~/tmp/scratch/RtmpmdodJM’   ‘~/tmp/scratch/RtmpmfIjdX’ ‘~/tmp/scratch/RtmpmkTuhK’   ‘~/tmp/scratch/Rtmpmy3hp0’ ‘~/tmp/scratch/RtmpnR0qFl’   ‘~/tmp/scratch/RtmpoJfFCx’ ‘~/tmp/scratch/RtmpoM3HYn’   ‘~/tmp/scratch/Rtmpps9m7D’ ‘~/tmp/scratch/RtmpqMeis7’   ‘~/tmp/scratch/RtmpqPEnlb’ ‘~/tmp/scratch/Rtmpr2xrFU’   ‘~/tmp/scratch/Rtmpr7Guc4’ ‘~/tmp/scratch/RtmprLaEhw’   ‘~/tmp/scratch/RtmprMDKY1’ ‘~/tmp/scratch/RtmpsLh5xz’   ‘~/tmp/scratch/Rtmpsb1bpy’ ‘~/tmp/scratch/RtmpstdE3K’   ‘~/tmp/scratch/Rtmpt1U0s6’ ‘~/tmp/scratch/RtmptSI11F’   ‘~/tmp/scratch/RtmptfT0Xa’ ‘~/tmp/scratch/RtmptkfVeH’   ‘~/tmp/scratch/Rtmpu1PSj2’ ‘~/tmp/scratch/RtmpvFbhSh’   ‘~/tmp/scratch/RtmpvWGxXk’ ‘~/tmp/scratch/Rtmpvea154’   ‘~/tmp/scratch/RtmpvlrB9H’ ‘~/tmp/scratch/RtmpwJTJhm’   ‘~/tmp/scratch/Rtmpx4ojwn’ ‘~/tmp/scratch/RtmpxHQJ1J’   ‘~/tmp/scratch/RtmpxYo2Qv’ ‘~/tmp/scratch/RtmpxevQC7’   ‘~/tmp/scratch/RtmpxgbAFH’ ‘~/tmp/scratch/RtmpyT7ltw’   ‘~/tmp/scratch/RtmpyezWgi’ ‘~/tmp/scratch/Rtmpymmv8Y’   ‘~/tmp/scratch/xvfb-run.1PitxV’ ‘~/tmp/scratch/xvfb-run.1jm9tE’   ‘~/tmp/scratch/xvfb-run.28jIun’ ‘~/tmp/scratch/xvfb-run.2B4OYC’   ‘~/tmp/scratch/xvfb-run.2ssGYn’ ‘~/tmp/scratch/xvfb-run.2uDkpC’   ‘~/tmp/scratch/xvfb-run.35m7yL’ ‘~/tmp/scratch/xvfb-run.538I2w’   ‘~/tmp/scratch/xvfb-run.76g2KF’ ‘~/tmp/scratch/xvfb-run.7ijOWn’   ‘~/tmp/scratch/xvfb-run.8NBF07’ ‘~/tmp/scratch/xvfb-run.9lP6ac’   ‘~/tmp/scratch/xvfb-run.BZL6SV’ ‘~/tmp/scratch/xvfb-run.BeK0QH’   ‘~/tmp/scratch/xvfb-run.C1yhwH’ ‘~/tmp/scratch/xvfb-run.FNuXzZ’   ‘~/tmp/scratch/xvfb-run.Gj0P4P’ ‘~/tmp/scratch/xvfb-run.Gy9si8’   ‘~/tmp/scratch/xvfb-run.JoGPat’ ‘~/tmp/scratch/xvfb-run.JosnXs’   ‘~/tmp/scratch/xvfb-run.K2F9YX’ ‘~/tmp/scratch/xvfb-run.KZus7w’   ‘~/tmp/scratch/xvfb-run.Nit8QH’ ‘~/tmp/scratch/xvfb-run.OUPsUm’   ‘~/tmp/scratch/xvfb-run.PuMda3’ ‘~/tmp/scratch/xvfb-run.Q161lP’   ‘~/tmp/scratch/xvfb-run.RCIFF2’ ‘~/tmp/scratch/xvfb-run.TG2y9t’   ‘~/tmp/scratch/xvfb-run.bTK6FW’ ‘~/tmp/scratch/xvfb-run.e05CN6’   ‘~/tmp/scratch/xvfb-run.eYrqsJ’ ‘~/tmp/scratch/xvfb-run.eptVrr’   ‘~/tmp/scratch/xvfb-run.gU7W5c’ ‘~/tmp/scratch/xvfb-run.ghSmWk’   ‘~/tmp/scratch/xvfb-run.gnIAbQ’ ‘~/tmp/scratch/xvfb-run.jbjNbv’   ‘~/tmp/scratch/xvfb-run.kcNorO’ ‘~/tmp/scratch/xvfb-run.lM0edD’   ‘~/tmp/scratch/xvfb-run.lNLxHQ’ ‘~/tmp/scratch/xvfb-run.mqojZC’   ‘~/tmp/scratch/xvfb-run.nua73M’ ‘~/tmp/scratch/xvfb-run.uX2rw2’   ‘~/tmp/scratch/xvfb-run.v1U5Z3’ ‘~/tmp/scratch/xvfb-run.v4iY1S’   ‘~/tmp/scratch/xvfb-run.w0Lc0t’ ‘~/tmp/scratch/xvfb-run.wYzAtP’   ‘~/tmp/scratch/xvfb-run.xA071U’ ‘~/tmp/scratch/xvfb-run.zE5FQ3’
• DONE

Status: 1 NOTE