• using R Under development (unstable) (2026-07-31 r90332)
• 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: 2026-08-01 11:41:15 UTC
• checking for file ‘EvoPhylo/DESCRIPTION’ ... OK
• this is package ‘EvoPhylo’ version ‘0.3.5’
• 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 ‘EvoPhylo’ can be installed ... OK See the install log for details.
• 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 ... [2s/2s] OK
• checking whether the package can be loaded with stated dependencies ... [1s/2s] OK
• checking whether the package can be unloaded cleanly ... [1s/2s] 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/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 ... [11s/17s] OK
• checking Rd files ... [0s/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 ... [1s/2s] OK
• checking data for ASCII and uncompressed saves ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [21s/31s] OK Examples with CPU (user + system) or elapsed time > 5s                user system elapsed make_clusters 3.451 0.008 5.113
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [96s/129s] OK
• checking PDF version of manual ... [5s/7s] OK
• checking HTML version of manual ... [1s/2s] 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/Rtmp0pWHn6’ ‘~/tmp/scratch/Rtmp0pqcDd’   ‘~/tmp/scratch/Rtmp0qYz3p’ ‘~/tmp/scratch/Rtmp26gTT9’   ‘~/tmp/scratch/Rtmp2R4ooZ’ ‘~/tmp/scratch/Rtmp2TlGio’   ‘~/tmp/scratch/Rtmp3ouaSc’ ‘~/tmp/scratch/Rtmp3u1amT’   ‘~/tmp/scratch/Rtmp4AiiRX’ ‘~/tmp/scratch/Rtmp4R2esd’   ‘~/tmp/scratch/Rtmp4dNnyY’ ‘~/tmp/scratch/Rtmp50t9RQ’   ‘~/tmp/scratch/Rtmp5TfH5D’ ‘~/tmp/scratch/Rtmp70fAKB’   ‘~/tmp/scratch/Rtmp74Nk7F’ ‘~/tmp/scratch/Rtmp7UdSTc’   ‘~/tmp/scratch/Rtmp7tfkGM’ ‘~/tmp/scratch/Rtmp7zpuWn’   ‘~/tmp/scratch/Rtmp87D9yh’ ‘~/tmp/scratch/Rtmp8YQ078’   ‘~/tmp/scratch/Rtmp96z5lE’ ‘~/tmp/scratch/Rtmp9l8nn7’   ‘~/tmp/scratch/Rtmp9uOQBw’ ‘~/tmp/scratch/RtmpACuvZ8’   ‘~/tmp/scratch/RtmpAjODdo’ ‘~/tmp/scratch/RtmpArxQlv’   ‘~/tmp/scratch/RtmpB5ZFz7’ ‘~/tmp/scratch/RtmpBP4rEp’   ‘~/tmp/scratch/RtmpBW5lmV’ ‘~/tmp/scratch/RtmpBaUmzG’   ‘~/tmp/scratch/RtmpBkwGYk’ ‘~/tmp/scratch/RtmpBzTrO5’   ‘~/tmp/scratch/RtmpCScb9w’ ‘~/tmp/scratch/RtmpDAY8fy’   ‘~/tmp/scratch/RtmpDtN5Gc’ ‘~/tmp/scratch/RtmpE684jF’   ‘~/tmp/scratch/RtmpEJZpQS’ ‘~/tmp/scratch/RtmpEbPeTn’   ‘~/tmp/scratch/RtmpEbxT78’ ‘~/tmp/scratch/RtmpF4vuJO’   ‘~/tmp/scratch/RtmpFEedMe’ ‘~/tmp/scratch/RtmpFjhpVP’   ‘~/tmp/scratch/RtmpFqZFKs’ ‘~/tmp/scratch/RtmpGFEEMq’   ‘~/tmp/scratch/RtmpGPQXeN’ ‘~/tmp/scratch/RtmpH2zZ6A’   ‘~/tmp/scratch/RtmpH8MeLD’ ‘~/tmp/scratch/RtmpHXwDKp’   ‘~/tmp/scratch/RtmpIf5OWq’ ‘~/tmp/scratch/RtmpIgikuU’   ‘~/tmp/scratch/RtmpJMEvgE’ ‘~/tmp/scratch/RtmpJbKsZo’   ‘~/tmp/scratch/RtmpJcE7hN’ ‘~/tmp/scratch/RtmpJzFvi6’   ‘~/tmp/scratch/RtmpKNtMC4’ ‘~/tmp/scratch/RtmpKoAs98’   ‘~/tmp/scratch/RtmpKzVm5y’ ‘~/tmp/scratch/RtmpL8qnaW’   ‘~/tmp/scratch/RtmpLN98UK’ ‘~/tmp/scratch/RtmpLODbWq’   ‘~/tmp/scratch/RtmpMP6HnJ’ ‘~/tmp/scratch/RtmpMmoWDc’   ‘~/tmp/scratch/RtmpN1q3kf’ ‘~/tmp/scratch/RtmpNYzOLc’   ‘~/tmp/scratch/RtmpO1kVgr’ ‘~/tmp/scratch/RtmpOGbKnZ’   ‘~/tmp/scratch/RtmpP8fjdn’ ‘~/tmp/scratch/RtmpPBVtaC’   ‘~/tmp/scratch/RtmpPe3SuS’ ‘~/tmp/scratch/RtmpQCFNVd’   ‘~/tmp/scratch/RtmpR1EIyX’ ‘~/tmp/scratch/RtmpR3l4Ws’   ‘~/tmp/scratch/RtmpRwtomw’ ‘~/tmp/scratch/RtmpSAXTin’   ‘~/tmp/scratch/RtmpT7zp4Q’ ‘~/tmp/scratch/RtmpTBaN90’   ‘~/tmp/scratch/RtmpUIf8vN’ ‘~/tmp/scratch/RtmpUSuawc’   ‘~/tmp/scratch/RtmpUTj4K6’ ‘~/tmp/scratch/RtmpUlYij9’   ‘~/tmp/scratch/RtmpVHWMwM’ ‘~/tmp/scratch/RtmpVsdZn6’   ‘~/tmp/scratch/RtmpWHpbts’ ‘~/tmp/scratch/RtmpXHmlND’   ‘~/tmp/scratch/RtmpXM3kRn’ ‘~/tmp/scratch/RtmpXe6Ei5’   ‘~/tmp/scratch/RtmpY4WSqQ’ ‘~/tmp/scratch/RtmpYJghoi’   ‘~/tmp/scratch/RtmpYrPTp9’ ‘~/tmp/scratch/RtmpZZG6kB’   ‘~/tmp/scratch/RtmpZtfukD’ ‘~/tmp/scratch/RtmpbaG6Eu’   ‘~/tmp/scratch/Rtmpbqvzn0’ ‘~/tmp/scratch/Rtmpc3wjlT’   ‘~/tmp/scratch/Rtmpd3QGuf’ ‘~/tmp/scratch/RtmpdHKAu9’   ‘~/tmp/scratch/RtmpdIxVMg’ ‘~/tmp/scratch/RtmpdVdVm2’   ‘~/tmp/scratch/RtmpdWrsFE’ ‘~/tmp/scratch/RtmpdaDYGl’   ‘~/tmp/scratch/RtmpdxmlF1’ ‘~/tmp/scratch/Rtmpdzvp1n’   ‘~/tmp/scratch/RtmpeWtEFj’ ‘~/tmp/scratch/RtmpeiBWNX’   ‘~/tmp/scratch/RtmpejDXuo’ ‘~/tmp/scratch/RtmpewB8rv’   ‘~/tmp/scratch/RtmpfpzTWG’ ‘~/tmp/scratch/Rtmpfsy8W8’   ‘~/tmp/scratch/RtmpgV5Iac’ ‘~/tmp/scratch/RtmpgkzpOI’   ‘~/tmp/scratch/RtmpgsFuGn’ ‘~/tmp/scratch/RtmphU1aJx’   ‘~/tmp/scratch/RtmpiOoI82’ ‘~/tmp/scratch/RtmpijKQXB’   ‘~/tmp/scratch/RtmpizT7fc’ ‘~/tmp/scratch/RtmpjFxzQk’   ‘~/tmp/scratch/RtmpjTPn3u’ ‘~/tmp/scratch/RtmpjjPqPF’   ‘~/tmp/scratch/Rtmpk9b8eg’ ‘~/tmp/scratch/RtmpkWrm4A’   ‘~/tmp/scratch/Rtmpl20z4n’ ‘~/tmp/scratch/Rtmpl4EtCq’   ‘~/tmp/scratch/RtmplFrgeW’ ‘~/tmp/scratch/Rtmpm5VxWg’   ‘~/tmp/scratch/Rtmpn8eFWn’ ‘~/tmp/scratch/RtmpnlAT43’   ‘~/tmp/scratch/RtmpnnnxUn’ ‘~/tmp/scratch/RtmpnunsRo’   ‘~/tmp/scratch/Rtmpo24Mu5’ ‘~/tmp/scratch/RtmppGbJ0g’   ‘~/tmp/scratch/RtmppN2Mi2’ ‘~/tmp/scratch/RtmpqDnvBp’   ‘~/tmp/scratch/RtmpqQGCVO’ ‘~/tmp/scratch/RtmpqZECYS’   ‘~/tmp/scratch/RtmpqpAkPA’ ‘~/tmp/scratch/RtmprJeiXn’   ‘~/tmp/scratch/Rtmprokd3D’ ‘~/tmp/scratch/RtmpsOJLbC’   ‘~/tmp/scratch/Rtmpst3fdv’ ‘~/tmp/scratch/RtmpszRdQc’   ‘~/tmp/scratch/Rtmpu0nDu1’ ‘~/tmp/scratch/Rtmpu3pAm4’   ‘~/tmp/scratch/RtmpuOcOx6’ ‘~/tmp/scratch/RtmpvcTwbK’   ‘~/tmp/scratch/RtmpwI4WKK’ ‘~/tmp/scratch/RtmpwkTSjz’   ‘~/tmp/scratch/Rtmpwp5DI8’ ‘~/tmp/scratch/Rtmpx1K031’   ‘~/tmp/scratch/RtmpxCwuR5’ ‘~/tmp/scratch/Rtmpxo8ZM8’   ‘~/tmp/scratch/RtmpyRtjr2’ ‘~/tmp/scratch/RtmpyY7Mc8’   ‘~/tmp/scratch/xvfb-run.007rIX’ ‘~/tmp/scratch/xvfb-run.0n6ozB’   ‘~/tmp/scratch/xvfb-run.25HGLX’ ‘~/tmp/scratch/xvfb-run.25z6jq’   ‘~/tmp/scratch/xvfb-run.2d4V6V’ ‘~/tmp/scratch/xvfb-run.3EYtDU’   ‘~/tmp/scratch/xvfb-run.3QPC69’ ‘~/tmp/scratch/xvfb-run.5GFKfD’   ‘~/tmp/scratch/xvfb-run.5LG5Cx’ ‘~/tmp/scratch/xvfb-run.74ShNq’   ‘~/tmp/scratch/xvfb-run.7Qp59M’ ‘~/tmp/scratch/xvfb-run.7aD2EC’   ‘~/tmp/scratch/xvfb-run.91nfMT’ ‘~/tmp/scratch/xvfb-run.AT6ATq’   ‘~/tmp/scratch/xvfb-run.AUA1fx’ ‘~/tmp/scratch/xvfb-run.AiohEr’   ‘~/tmp/scratch/xvfb-run.AsO00Z’ ‘~/tmp/scratch/xvfb-run.ChEPSv’   ‘~/tmp/scratch/xvfb-run.D2Tm0o’ ‘~/tmp/scratch/xvfb-run.Dma0oA’   ‘~/tmp/scratch/xvfb-run.E6Psvm’ ‘~/tmp/scratch/xvfb-run.EABxgx’   ‘~/tmp/scratch/xvfb-run.EFQxfj’ ‘~/tmp/scratch/xvfb-run.FX57Jr’   ‘~/tmp/scratch/xvfb-run.H3lzX8’ ‘~/tmp/scratch/xvfb-run.JBq5p4’   ‘~/tmp/scratch/xvfb-run.JiD0Yh’ ‘~/tmp/scratch/xvfb-run.L67daD’   ‘~/tmp/scratch/xvfb-run.MjM2A7’ ‘~/tmp/scratch/xvfb-run.N50bGM’   ‘~/tmp/scratch/xvfb-run.N7K5z1’ ‘~/tmp/scratch/xvfb-run.P5pC7c’   ‘~/tmp/scratch/xvfb-run.Qge4Hg’ ‘~/tmp/scratch/xvfb-run.Qz5K0d’   ‘~/tmp/scratch/xvfb-run.SthG3H’ ‘~/tmp/scratch/xvfb-run.W0RRFD’   ‘~/tmp/scratch/xvfb-run.WAczV6’ ‘~/tmp/scratch/xvfb-run.WXuGpN’   ‘~/tmp/scratch/xvfb-run.X16QTo’ ‘~/tmp/scratch/xvfb-run.Zf3GpI’   ‘~/tmp/scratch/xvfb-run.aF21nh’ ‘~/tmp/scratch/xvfb-run.aorBKm’   ‘~/tmp/scratch/xvfb-run.bE72AM’ ‘~/tmp/scratch/xvfb-run.c5w8um’   ‘~/tmp/scratch/xvfb-run.ce7Yzb’ ‘~/tmp/scratch/xvfb-run.cecDxz’   ‘~/tmp/scratch/xvfb-run.f6gTyO’ ‘~/tmp/scratch/xvfb-run.fkWyxk’   ‘~/tmp/scratch/xvfb-run.hcalHD’ ‘~/tmp/scratch/xvfb-run.i5u5hO’   ‘~/tmp/scratch/xvfb-run.jQYc5y’ ‘~/tmp/scratch/xvfb-run.kSVXOh’   ‘~/tmp/scratch/xvfb-run.kaqcMl’ ‘~/tmp/scratch/xvfb-run.kgzGov’   ‘~/tmp/scratch/xvfb-run.lhXXRA’ ‘~/tmp/scratch/xvfb-run.njVW4T’   ‘~/tmp/scratch/xvfb-run.oKWD49’ ‘~/tmp/scratch/xvfb-run.pBmoGC’   ‘~/tmp/scratch/xvfb-run.qGENMr’ ‘~/tmp/scratch/xvfb-run.rF2pSZ’   ‘~/tmp/scratch/xvfb-run.sDdQGi’ ‘~/tmp/scratch/xvfb-run.sSeTqD’   ‘~/tmp/scratch/xvfb-run.sdSDCh’ ‘~/tmp/scratch/xvfb-run.sqfmXS’   ‘~/tmp/scratch/xvfb-run.uJwW0M’ ‘~/tmp/scratch/xvfb-run.uZzYsJ’   ‘~/tmp/scratch/xvfb-run.vUrnWl’ ‘~/tmp/scratch/xvfb-run.vrzUkA’   ‘~/tmp/scratch/xvfb-run.w2jYs2’ ‘~/tmp/scratch/xvfb-run.wRuCah’   ‘~/tmp/scratch/xvfb-run.xG3yDm’ ‘~/tmp/scratch/xvfb-run.yJQRN5’
• DONE

Status: 1 NOTE