• 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 13:25:06 UTC
• checking for file ‘ape/DESCRIPTION’ ... OK
• this is package ‘ape’ version ‘5.8-1’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [2s/4s] 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 ‘ape’ can be installed ... OK See the install log for details.
• used C compiler: ‘gcc-16 (Debian 16.1.0-3) 16.1.0’
• 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 ... [0s/0s] OK
• checking whether the package can be loaded with stated dependencies ... [0s/1s] OK
• checking whether the package can be unloaded cleanly ... [0s/1s] OK
• checking whether the namespace can be loaded with stated dependencies ... [0s/1s] OK
• checking whether the namespace can be unloaded cleanly ... [0s/1s] OK
• checking loading without being on the library search path ... [0s/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 ... [47s/63s] OK
• checking Rd files ... [2s/2s] 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 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 sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [15s/18s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [32s/46s] OK
• checking PDF version of manual ... [13s/17s] OK
• checking HTML version of manual ... [7s/9s] 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/Rtmp05Hdrp’ ‘~/tmp/scratch/Rtmp0Busag’   ‘~/tmp/scratch/Rtmp0h7cNl’ ‘~/tmp/scratch/Rtmp0nr6sH’   ‘~/tmp/scratch/Rtmp134mu6’ ‘~/tmp/scratch/Rtmp187A3f’   ‘~/tmp/scratch/Rtmp1RvPMC’ ‘~/tmp/scratch/Rtmp1XmyPj’   ‘~/tmp/scratch/Rtmp1m6Mx6’ ‘~/tmp/scratch/Rtmp20A6fs’   ‘~/tmp/scratch/Rtmp2owZiO’ ‘~/tmp/scratch/Rtmp326LMY’   ‘~/tmp/scratch/Rtmp47KR1O’ ‘~/tmp/scratch/Rtmp4D7qBw’   ‘~/tmp/scratch/Rtmp4fGJEP’ ‘~/tmp/scratch/Rtmp4iraXS’   ‘~/tmp/scratch/Rtmp4n3Fs4’ ‘~/tmp/scratch/Rtmp5XOdif’   ‘~/tmp/scratch/Rtmp5i0W79’ ‘~/tmp/scratch/Rtmp6MHqBo’   ‘~/tmp/scratch/Rtmp6OvIAr’ ‘~/tmp/scratch/Rtmp7X02ve’   ‘~/tmp/scratch/Rtmp7rd7DQ’ ‘~/tmp/scratch/Rtmp8Gt636’   ‘~/tmp/scratch/Rtmp8RADfL’ ‘~/tmp/scratch/Rtmp957DCt’   ‘~/tmp/scratch/Rtmp95D4Bo’ ‘~/tmp/scratch/Rtmp9oRI97’   ‘~/tmp/scratch/RtmpANfOLm’ ‘~/tmp/scratch/RtmpB1W4Dt’   ‘~/tmp/scratch/RtmpBNOL0H’ ‘~/tmp/scratch/RtmpBk8dCq’   ‘~/tmp/scratch/RtmpBxpSrs’ ‘~/tmp/scratch/RtmpCAQ63T’   ‘~/tmp/scratch/RtmpCk7EVV’ ‘~/tmp/scratch/RtmpCohKzG’   ‘~/tmp/scratch/RtmpDUodK8’ ‘~/tmp/scratch/RtmpDwkcR9’   ‘~/tmp/scratch/RtmpEGDbZQ’ ‘~/tmp/scratch/RtmpF4Kwx5’   ‘~/tmp/scratch/RtmpF9ZdxG’ ‘~/tmp/scratch/RtmpHBRZZl’   ‘~/tmp/scratch/RtmpHrHxcl’ ‘~/tmp/scratch/RtmpHrxeGE’   ‘~/tmp/scratch/RtmpIA03Vo’ ‘~/tmp/scratch/RtmpIHBcyZ’   ‘~/tmp/scratch/RtmpIL0Qdb’ ‘~/tmp/scratch/RtmpJ8duc7’   ‘~/tmp/scratch/RtmpK0euU6’ ‘~/tmp/scratch/RtmpKnfL4y’   ‘~/tmp/scratch/RtmpLIYS8T’ ‘~/tmp/scratch/RtmpMEaDGR’   ‘~/tmp/scratch/RtmpMlBrxB’ ‘~/tmp/scratch/RtmpMy3Wkj’   ‘~/tmp/scratch/RtmpNWUa5z’ ‘~/tmp/scratch/RtmpNisV2k’   ‘~/tmp/scratch/RtmpNseDHX’ ‘~/tmp/scratch/RtmpNyClVU’   ‘~/tmp/scratch/RtmpO1IAmm’ ‘~/tmp/scratch/RtmpOK5njD’   ‘~/tmp/scratch/RtmpOUi2sl’ ‘~/tmp/scratch/RtmpOdyA4h’   ‘~/tmp/scratch/RtmpPihKbW’ ‘~/tmp/scratch/RtmpPxVqm7’   ‘~/tmp/scratch/RtmpPy1CIy’ ‘~/tmp/scratch/RtmpQ5j2aI’   ‘~/tmp/scratch/RtmpQNZqNF’ ‘~/tmp/scratch/RtmpR0bQNo’   ‘~/tmp/scratch/RtmpRSAiaL’ ‘~/tmp/scratch/RtmpSDyRjN’   ‘~/tmp/scratch/RtmpSVbw0P’ ‘~/tmp/scratch/RtmpSbQ81O’   ‘~/tmp/scratch/RtmpSt0wQt’ ‘~/tmp/scratch/RtmpT7Nz6o’   ‘~/tmp/scratch/RtmpTPoMUm’ ‘~/tmp/scratch/RtmpTnzz5E’   ‘~/tmp/scratch/RtmpToWsYo’ ‘~/tmp/scratch/RtmpTuvPmd’   ‘~/tmp/scratch/RtmpUmVUsS’ ‘~/tmp/scratch/RtmpV2KDHf’   ‘~/tmp/scratch/RtmpV6Ktce’ ‘~/tmp/scratch/RtmpWUEmPn’   ‘~/tmp/scratch/RtmpWvlXYG’ ‘~/tmp/scratch/RtmpX41pkF’   ‘~/tmp/scratch/RtmpXRucYT’ ‘~/tmp/scratch/RtmpXrqP9U’   ‘~/tmp/scratch/RtmpXyuvcS’ ‘~/tmp/scratch/RtmpYUFhsh’   ‘~/tmp/scratch/RtmpYkmgZo’ ‘~/tmp/scratch/RtmpYqK2fl’   ‘~/tmp/scratch/RtmpZ8N5l2’ ‘~/tmp/scratch/RtmpZBoyTJ’   ‘~/tmp/scratch/RtmpZCrBmw’ ‘~/tmp/scratch/Rtmpa0ecr3’   ‘~/tmp/scratch/RtmpagXZCX’ ‘~/tmp/scratch/RtmpaiuqrJ’   ‘~/tmp/scratch/Rtmpalefb2’ ‘~/tmp/scratch/RtmpatQKju’   ‘~/tmp/scratch/RtmpbS0rag’ ‘~/tmp/scratch/Rtmpcs2zyG’   ‘~/tmp/scratch/Rtmpd1EJIj’ ‘~/tmp/scratch/RtmpdSxEaD’   ‘~/tmp/scratch/RtmpdUOEIR’ ‘~/tmp/scratch/RtmpdqbFAV’   ‘~/tmp/scratch/RtmpeYm4LF’ ‘~/tmp/scratch/RtmpeaaxiA’   ‘~/tmp/scratch/RtmpercPWr’ ‘~/tmp/scratch/Rtmpf5hrNq’   ‘~/tmp/scratch/RtmpfPBgt4’ ‘~/tmp/scratch/RtmpfXv8gI’   ‘~/tmp/scratch/Rtmpg07jAR’ ‘~/tmp/scratch/Rtmpg5a2ZW’   ‘~/tmp/scratch/RtmpgOaxXJ’ ‘~/tmp/scratch/RtmpgPD2hE’   ‘~/tmp/scratch/RtmpgTeuke’ ‘~/tmp/scratch/RtmpgzzFVo’   ‘~/tmp/scratch/Rtmph9W9jJ’ ‘~/tmp/scratch/RtmphMZcDI’   ‘~/tmp/scratch/RtmphMvNwE’ ‘~/tmp/scratch/RtmphpclOg’   ‘~/tmp/scratch/Rtmpi5vBG3’ ‘~/tmp/scratch/RtmpiH3ZCR’   ‘~/tmp/scratch/RtmpiXKVWm’ ‘~/tmp/scratch/RtmpiZrxqc’   ‘~/tmp/scratch/Rtmpicd6r8’ ‘~/tmp/scratch/Rtmpit2aiW’   ‘~/tmp/scratch/RtmpjW97Zl’ ‘~/tmp/scratch/RtmpjrHvds’   ‘~/tmp/scratch/RtmpkAucBS’ ‘~/tmp/scratch/RtmpkRgDo6’   ‘~/tmp/scratch/RtmpkreJrj’ ‘~/tmp/scratch/RtmplXvbu6’   ‘~/tmp/scratch/RtmplcXum4’ ‘~/tmp/scratch/RtmplsIv1A’   ‘~/tmp/scratch/RtmplzAaty’ ‘~/tmp/scratch/RtmpmhCMGZ’   ‘~/tmp/scratch/Rtmpn41dRW’ ‘~/tmp/scratch/RtmpohLChR’   ‘~/tmp/scratch/RtmponepjD’ ‘~/tmp/scratch/Rtmpp0OI9J’   ‘~/tmp/scratch/RtmppzwseQ’ ‘~/tmp/scratch/RtmpqbkdMg’   ‘~/tmp/scratch/RtmpqoIjjO’ ‘~/tmp/scratch/Rtmpr3xnTB’   ‘~/tmp/scratch/RtmprIJY8b’ ‘~/tmp/scratch/RtmprfSHtB’   ‘~/tmp/scratch/Rtmps4Rz88’ ‘~/tmp/scratch/Rtmps7TH1T’   ‘~/tmp/scratch/RtmpsMnVDg’ ‘~/tmp/scratch/Rtmpu6J3pu’   ‘~/tmp/scratch/RtmpulQL13’ ‘~/tmp/scratch/Rtmpv8hfXT’   ‘~/tmp/scratch/Rtmpv9iytd’ ‘~/tmp/scratch/RtmpxBBXbt’   ‘~/tmp/scratch/RtmpxYh0KW’ ‘~/tmp/scratch/RtmpxbaYb3’   ‘~/tmp/scratch/RtmpyvXqjJ’ ‘~/tmp/scratch/Rtmpyy9xHr’   ‘~/tmp/scratch/RtmpzCw7NH’ ‘~/tmp/scratch/xvfb-run.0mv95A’   ‘~/tmp/scratch/xvfb-run.0s5dCE’ ‘~/tmp/scratch/xvfb-run.3G6iz1’   ‘~/tmp/scratch/xvfb-run.5CNG5m’ ‘~/tmp/scratch/xvfb-run.5QQt0K’   ‘~/tmp/scratch/xvfb-run.75r55f’ ‘~/tmp/scratch/xvfb-run.7YDKjx’   ‘~/tmp/scratch/xvfb-run.8s80nZ’ ‘~/tmp/scratch/xvfb-run.96a1qw’   ‘~/tmp/scratch/xvfb-run.C8B0ST’ ‘~/tmp/scratch/xvfb-run.D7kXtZ’   ‘~/tmp/scratch/xvfb-run.DKE6Kf’ ‘~/tmp/scratch/xvfb-run.EpvzRq’   ‘~/tmp/scratch/xvfb-run.FAOOYZ’ ‘~/tmp/scratch/xvfb-run.HDAAEE’   ‘~/tmp/scratch/xvfb-run.IxEBUn’ ‘~/tmp/scratch/xvfb-run.J2hmsl’   ‘~/tmp/scratch/xvfb-run.KWyoc2’ ‘~/tmp/scratch/xvfb-run.LChWNL’   ‘~/tmp/scratch/xvfb-run.MCuaO8’ ‘~/tmp/scratch/xvfb-run.MEiTrd’   ‘~/tmp/scratch/xvfb-run.MuzG5V’ ‘~/tmp/scratch/xvfb-run.NXGzpv’   ‘~/tmp/scratch/xvfb-run.OHRH8z’ ‘~/tmp/scratch/xvfb-run.OJ8ZNp’   ‘~/tmp/scratch/xvfb-run.QyEAmv’ ‘~/tmp/scratch/xvfb-run.R3L4DC’   ‘~/tmp/scratch/xvfb-run.R5y9dq’ ‘~/tmp/scratch/xvfb-run.RnStZn’   ‘~/tmp/scratch/xvfb-run.TALACV’ ‘~/tmp/scratch/xvfb-run.TBhAiw’   ‘~/tmp/scratch/xvfb-run.UwBv2j’ ‘~/tmp/scratch/xvfb-run.V6A5IM’   ‘~/tmp/scratch/xvfb-run.VpmhMO’ ‘~/tmp/scratch/xvfb-run.WtKEiL’   ‘~/tmp/scratch/xvfb-run.X2xHh1’ ‘~/tmp/scratch/xvfb-run.XFH5Mu’   ‘~/tmp/scratch/xvfb-run.Y4EWgM’ ‘~/tmp/scratch/xvfb-run.Z0lvqF’   ‘~/tmp/scratch/xvfb-run.aBteLB’ ‘~/tmp/scratch/xvfb-run.aVUof4’   ‘~/tmp/scratch/xvfb-run.cWP5tC’ ‘~/tmp/scratch/xvfb-run.eP50Iv’   ‘~/tmp/scratch/xvfb-run.eZ9P5a’ ‘~/tmp/scratch/xvfb-run.ehPILO’   ‘~/tmp/scratch/xvfb-run.fBCLyP’ ‘~/tmp/scratch/xvfb-run.fEv6fM’   ‘~/tmp/scratch/xvfb-run.ft3SmM’ ‘~/tmp/scratch/xvfb-run.guVEFM’   ‘~/tmp/scratch/xvfb-run.iSzRwO’ ‘~/tmp/scratch/xvfb-run.iYBtdV’   ‘~/tmp/scratch/xvfb-run.jSpfj2’ ‘~/tmp/scratch/xvfb-run.jgLP1z’   ‘~/tmp/scratch/xvfb-run.jtY6jd’ ‘~/tmp/scratch/xvfb-run.k2CsjM’   ‘~/tmp/scratch/xvfb-run.kpNQoV’ ‘~/tmp/scratch/xvfb-run.lKDNIR’   ‘~/tmp/scratch/xvfb-run.nydLMg’ ‘~/tmp/scratch/xvfb-run.ojAMCo’   ‘~/tmp/scratch/xvfb-run.pH6UTu’ ‘~/tmp/scratch/xvfb-run.qDSuBg’   ‘~/tmp/scratch/xvfb-run.sxj4pH’ ‘~/tmp/scratch/xvfb-run.t0kH5J’   ‘~/tmp/scratch/xvfb-run.uIoIQp’ ‘~/tmp/scratch/xvfb-run.vSuyaJ’   ‘~/tmp/scratch/xvfb-run.vZUCMX’ ‘~/tmp/scratch/xvfb-run.wK27fl’   ‘~/tmp/scratch/xvfb-run.xCoJVK’ ‘~/tmp/scratch/xvfb-run.ycRzq8’   ‘~/tmp/scratch/xvfb-run.yy8hws’ ‘~/tmp/scratch/xvfb-run.zg0KtA’
• DONE

Status: 1 NOTE