• 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 14:20:28 UTC
• checking for file ‘denovolyzeR/DESCRIPTION’ ... OK
• this is package ‘denovolyzeR’ version ‘0.2.0’
• checking CRAN incoming feasibility ... [1s/1s] NOTE Maintainer: ‘James Ware <j.ware@imperial.ac.uk>’ Found the following URLs which should use \doi (with the DOI name only):   File ‘fmrpGenes.Rd’:     http://dx.doi.org/10.1016/j.cell.2011.06.013
• 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 ‘denovolyzeR’ 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 ... [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/1s] OK
• checking whether the namespace can be unloaded cleanly ... [1s/1s] 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 ... [7s/10s] 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 R/sysdata.rda ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [3s/4s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [13s/17s] OK
• checking PDF version of manual ... [3s/4s] 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/Rtmp061Ous’ ‘~/tmp/scratch/Rtmp07wFE4’   ‘~/tmp/scratch/Rtmp0Y7pOH’ ‘~/tmp/scratch/Rtmp0hAErX’   ‘~/tmp/scratch/Rtmp0hZnvV’ ‘~/tmp/scratch/Rtmp0hfkNh’   ‘~/tmp/scratch/Rtmp17LtqR’ ‘~/tmp/scratch/Rtmp1QJRPs’   ‘~/tmp/scratch/Rtmp1awi8L’ ‘~/tmp/scratch/Rtmp1zUj6l’   ‘~/tmp/scratch/Rtmp2c1CmO’ ‘~/tmp/scratch/Rtmp32elGn’   ‘~/tmp/scratch/Rtmp35qAwo’ ‘~/tmp/scratch/Rtmp3JAdB0’   ‘~/tmp/scratch/Rtmp3Rsi4k’ ‘~/tmp/scratch/Rtmp43hUcw’   ‘~/tmp/scratch/Rtmp5qgdS3’ ‘~/tmp/scratch/Rtmp6bY7t2’   ‘~/tmp/scratch/Rtmp6d330u’ ‘~/tmp/scratch/Rtmp6edUsz’   ‘~/tmp/scratch/Rtmp6kr49m’ ‘~/tmp/scratch/Rtmp7PASM7’   ‘~/tmp/scratch/Rtmp8OeShx’ ‘~/tmp/scratch/Rtmp9CVcln’   ‘~/tmp/scratch/Rtmp9Lapax’ ‘~/tmp/scratch/Rtmp9PZkvN’   ‘~/tmp/scratch/Rtmp9ejmpe’ ‘~/tmp/scratch/RtmpA3rCx0’   ‘~/tmp/scratch/RtmpBJ6USn’ ‘~/tmp/scratch/RtmpBLwydC’   ‘~/tmp/scratch/RtmpCJHNAi’ ‘~/tmp/scratch/RtmpDYrFer’   ‘~/tmp/scratch/RtmpDZN87x’ ‘~/tmp/scratch/RtmpEN6xaw’   ‘~/tmp/scratch/RtmpF4MBUS’ ‘~/tmp/scratch/RtmpFg0wlg’   ‘~/tmp/scratch/RtmpG50wfk’ ‘~/tmp/scratch/RtmpGYMRJk’   ‘~/tmp/scratch/RtmpGeO79n’ ‘~/tmp/scratch/RtmpGxe7Ys’   ‘~/tmp/scratch/RtmpHooig9’ ‘~/tmp/scratch/RtmpI15NeY’   ‘~/tmp/scratch/RtmpINVEq1’ ‘~/tmp/scratch/RtmpKjJWDA’   ‘~/tmp/scratch/RtmpKvVEw4’ ‘~/tmp/scratch/RtmpLQFTwp’   ‘~/tmp/scratch/RtmpM8Gth6’ ‘~/tmp/scratch/RtmpMQU3PB’   ‘~/tmp/scratch/RtmpMTCoGN’ ‘~/tmp/scratch/RtmpMTJD95’   ‘~/tmp/scratch/RtmpNzeH4n’ ‘~/tmp/scratch/RtmpO7iQPd’   ‘~/tmp/scratch/RtmpOEIe3Y’ ‘~/tmp/scratch/RtmpOJb4Ec’   ‘~/tmp/scratch/RtmpP5afuy’ ‘~/tmp/scratch/RtmpR7P3JL’   ‘~/tmp/scratch/RtmpRl8NoD’ ‘~/tmp/scratch/RtmpRx3HNt’   ‘~/tmp/scratch/RtmpSKI8kZ’ ‘~/tmp/scratch/RtmpSgLZX3’   ‘~/tmp/scratch/RtmpStsPrM’ ‘~/tmp/scratch/RtmpTYKC5b’   ‘~/tmp/scratch/RtmpUVhb5v’ ‘~/tmp/scratch/RtmpUYfzuV’   ‘~/tmp/scratch/RtmpUkz17T’ ‘~/tmp/scratch/RtmpUnwUyr’   ‘~/tmp/scratch/RtmpWJGbs0’ ‘~/tmp/scratch/RtmpXTWX0F’   ‘~/tmp/scratch/RtmpYXKTu9’ ‘~/tmp/scratch/RtmpZyPpZg’   ‘~/tmp/scratch/Rtmpab4Y6N’ ‘~/tmp/scratch/RtmpaeFQqO’   ‘~/tmp/scratch/Rtmpat8RIi’ ‘~/tmp/scratch/Rtmpb6SKfx’   ‘~/tmp/scratch/RtmpbUa5fv’ ‘~/tmp/scratch/RtmpbkvcQi’   ‘~/tmp/scratch/Rtmpbq4VSw’ ‘~/tmp/scratch/RtmpcLw7a3’   ‘~/tmp/scratch/RtmpcX5UG9’ ‘~/tmp/scratch/RtmpcqSBj4’   ‘~/tmp/scratch/Rtmpe3TNe4’ ‘~/tmp/scratch/Rtmpe76aC2’   ‘~/tmp/scratch/RtmpeAEyNC’ ‘~/tmp/scratch/Rtmpf5uwWJ’   ‘~/tmp/scratch/Rtmpfi9VU6’ ‘~/tmp/scratch/RtmpfsSOxH’   ‘~/tmp/scratch/RtmpgHeW1N’ ‘~/tmp/scratch/Rtmph2ZDOg’   ‘~/tmp/scratch/RtmphUbcTS’ ‘~/tmp/scratch/RtmphmCLEA’   ‘~/tmp/scratch/Rtmpi1CCuc’ ‘~/tmp/scratch/Rtmpi6EHZP’   ‘~/tmp/scratch/RtmpiFTrC8’ ‘~/tmp/scratch/Rtmpikofi4’   ‘~/tmp/scratch/RtmpiwuUJi’ ‘~/tmp/scratch/RtmpjO2CMZ’   ‘~/tmp/scratch/RtmpjXBRzV’ ‘~/tmp/scratch/Rtmpk6mSdA’   ‘~/tmp/scratch/Rtmpkr1rqO’ ‘~/tmp/scratch/RtmplzD4WL’   ‘~/tmp/scratch/RtmpmdLQ7X’ ‘~/tmp/scratch/RtmpmmtgIQ’   ‘~/tmp/scratch/RtmpnPzgZr’ ‘~/tmp/scratch/RtmpnVzkzJ’   ‘~/tmp/scratch/Rtmpo72Sp8’ ‘~/tmp/scratch/Rtmpof67IO’   ‘~/tmp/scratch/Rtmpp2BITy’ ‘~/tmp/scratch/Rtmpq9PM09’   ‘~/tmp/scratch/RtmprE1aLV’ ‘~/tmp/scratch/Rtmps5rYYr’   ‘~/tmp/scratch/Rtmps6JkxY’ ‘~/tmp/scratch/RtmpsB0HJf’   ‘~/tmp/scratch/RtmpsR2c2M’ ‘~/tmp/scratch/RtmpteNHdH’   ‘~/tmp/scratch/Rtmptvj9sN’ ‘~/tmp/scratch/Rtmpu1MrFj’   ‘~/tmp/scratch/RtmpuHKhov’ ‘~/tmp/scratch/Rtmpv4nVlT’   ‘~/tmp/scratch/RtmpvahdQR’ ‘~/tmp/scratch/Rtmpvhm6gC’   ‘~/tmp/scratch/RtmpvlBxeV’ ‘~/tmp/scratch/RtmpwU8uyb’   ‘~/tmp/scratch/Rtmpx8ti5X’ ‘~/tmp/scratch/Rtmpxkfljh’   ‘~/tmp/scratch/Rtmpxmrt05’ ‘~/tmp/scratch/RtmpyAnZgG’   ‘~/tmp/scratch/RtmpyN57Yb’ ‘~/tmp/scratch/RtmpyOp3ze’   ‘~/tmp/scratch/RtmpzTJn9l’ ‘~/tmp/scratch/RtmpzUQWTh’   ‘~/tmp/scratch/xvfb-run.0GfPJF’ ‘~/tmp/scratch/xvfb-run.0ILfyn’   ‘~/tmp/scratch/xvfb-run.0wqm1T’ ‘~/tmp/scratch/xvfb-run.1LmNq6’   ‘~/tmp/scratch/xvfb-run.31GKkR’ ‘~/tmp/scratch/xvfb-run.34KSVR’   ‘~/tmp/scratch/xvfb-run.3hPDt0’ ‘~/tmp/scratch/xvfb-run.3m3Ym4’   ‘~/tmp/scratch/xvfb-run.3o9rRy’ ‘~/tmp/scratch/xvfb-run.6znX3P’   ‘~/tmp/scratch/xvfb-run.7JsOWS’ ‘~/tmp/scratch/xvfb-run.7vyHYN’   ‘~/tmp/scratch/xvfb-run.9lbrTN’ ‘~/tmp/scratch/xvfb-run.ANbYnW’   ‘~/tmp/scratch/xvfb-run.C5vdHk’ ‘~/tmp/scratch/xvfb-run.DqLC4Q’   ‘~/tmp/scratch/xvfb-run.FCrubs’ ‘~/tmp/scratch/xvfb-run.FHgfZf’   ‘~/tmp/scratch/xvfb-run.FKTP0t’ ‘~/tmp/scratch/xvfb-run.GXXjhx’   ‘~/tmp/scratch/xvfb-run.JMXx49’ ‘~/tmp/scratch/xvfb-run.KQkjJg’   ‘~/tmp/scratch/xvfb-run.LEFTAs’ ‘~/tmp/scratch/xvfb-run.MlMtLq’   ‘~/tmp/scratch/xvfb-run.R8yKXm’ ‘~/tmp/scratch/xvfb-run.RjepXV’   ‘~/tmp/scratch/xvfb-run.THSgIk’ ‘~/tmp/scratch/xvfb-run.TmeF6G’   ‘~/tmp/scratch/xvfb-run.WTtUBS’ ‘~/tmp/scratch/xvfb-run.YIQmN6’   ‘~/tmp/scratch/xvfb-run.ZLiuZM’ ‘~/tmp/scratch/xvfb-run.b5Sq1b’   ‘~/tmp/scratch/xvfb-run.d8h4i1’ ‘~/tmp/scratch/xvfb-run.e99bRb’   ‘~/tmp/scratch/xvfb-run.eQfpZL’ ‘~/tmp/scratch/xvfb-run.gD5iiy’   ‘~/tmp/scratch/xvfb-run.je6Wkd’ ‘~/tmp/scratch/xvfb-run.lYIWfK’   ‘~/tmp/scratch/xvfb-run.lxx1rg’ ‘~/tmp/scratch/xvfb-run.m3whDz’   ‘~/tmp/scratch/xvfb-run.npYavs’ ‘~/tmp/scratch/xvfb-run.o2yzPl’   ‘~/tmp/scratch/xvfb-run.oEFNHz’ ‘~/tmp/scratch/xvfb-run.pE0tBM’   ‘~/tmp/scratch/xvfb-run.pVUtpg’ ‘~/tmp/scratch/xvfb-run.pam3B4’   ‘~/tmp/scratch/xvfb-run.sQs7lq’ ‘~/tmp/scratch/xvfb-run.tLQWRq’   ‘~/tmp/scratch/xvfb-run.uZMEz4’ ‘~/tmp/scratch/xvfb-run.xYNCyw’   ‘~/tmp/scratch/xvfb-run.yLgjnz’ ‘~/tmp/scratch/xvfb-run.zHfGZD’   ‘~/tmp/scratch/xvfb-run.zMQREI’ ‘~/tmp/scratch/xvfb-run.zVdsoZ’   ‘~/tmp/scratch/xvfb-run.zgQQ9C’ ‘~/tmp/scratch/xvfb-run.zy2baG’
• DONE

Status: 2 NOTEs