• 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 11:08:55 UTC
• checking for file ‘ApplyPolygenicScore/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘ApplyPolygenicScore’ version ‘4.0.2’
• 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 ‘ApplyPolygenicScore’ 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/3s] 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/3s] 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 ... [14s/18s] 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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [16s/20s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [128s/169s] OK   Running ‘testthat.R’ [128s/168s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [22s/30s] OK
• checking PDF version of manual ... [4s/7s] 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/Rtmp01Rf0v’ ‘~/tmp/scratch/Rtmp04Z653’   ‘~/tmp/scratch/Rtmp07esmI’ ‘~/tmp/scratch/Rtmp0YEWxG’   ‘~/tmp/scratch/Rtmp1Gv5vJ’ ‘~/tmp/scratch/Rtmp1dp3qU’   ‘~/tmp/scratch/Rtmp1vMlGe’ ‘~/tmp/scratch/Rtmp1xEH1L’   ‘~/tmp/scratch/Rtmp1yC6Wb’ ‘~/tmp/scratch/Rtmp2d3RKG’   ‘~/tmp/scratch/Rtmp37HMAV’ ‘~/tmp/scratch/Rtmp3aSmMC’   ‘~/tmp/scratch/Rtmp3yEd6B’ ‘~/tmp/scratch/Rtmp4ycvNe’   ‘~/tmp/scratch/Rtmp51wXK6’ ‘~/tmp/scratch/Rtmp5eyIs5’   ‘~/tmp/scratch/Rtmp5nMgqt’ ‘~/tmp/scratch/Rtmp6FDati’   ‘~/tmp/scratch/Rtmp6uqej6’ ‘~/tmp/scratch/Rtmp7HlSPX’   ‘~/tmp/scratch/Rtmp92f6GN’ ‘~/tmp/scratch/Rtmp9ChKVb’   ‘~/tmp/scratch/RtmpAlOSPa’ ‘~/tmp/scratch/RtmpBjJZeW’   ‘~/tmp/scratch/RtmpBm2eTe’ ‘~/tmp/scratch/RtmpCbfGxj’   ‘~/tmp/scratch/RtmpCpMPFL’ ‘~/tmp/scratch/RtmpDccwnu’   ‘~/tmp/scratch/RtmpDyaQ8v’ ‘~/tmp/scratch/RtmpEQvcoN’   ‘~/tmp/scratch/RtmpEuI7PJ’ ‘~/tmp/scratch/RtmpEyHqvb’   ‘~/tmp/scratch/RtmpF0f9TU’ ‘~/tmp/scratch/RtmpF5An2Q’   ‘~/tmp/scratch/RtmpFOtP52’ ‘~/tmp/scratch/RtmpFeQYwx’   ‘~/tmp/scratch/RtmpHg47cp’ ‘~/tmp/scratch/RtmpI7Cb7u’   ‘~/tmp/scratch/RtmpIAvV9F’ ‘~/tmp/scratch/RtmpIiHYKe’   ‘~/tmp/scratch/RtmpIq2QxW’ ‘~/tmp/scratch/RtmpJ0enOE’   ‘~/tmp/scratch/RtmpJ0xE9w’ ‘~/tmp/scratch/RtmpJ42uSi’   ‘~/tmp/scratch/RtmpJBqclb’ ‘~/tmp/scratch/RtmpL30cCf’   ‘~/tmp/scratch/RtmpLpvKXB’ ‘~/tmp/scratch/RtmpMOWksK’   ‘~/tmp/scratch/RtmpMajFNb’ ‘~/tmp/scratch/RtmpMc6ebT’   ‘~/tmp/scratch/RtmpMladER’ ‘~/tmp/scratch/RtmpMsmrE1’   ‘~/tmp/scratch/RtmpNGjVun’ ‘~/tmp/scratch/RtmpNNf6Kl’   ‘~/tmp/scratch/RtmpNV7RuE’ ‘~/tmp/scratch/RtmpNjfb8V’   ‘~/tmp/scratch/RtmpO5xp7p’ ‘~/tmp/scratch/RtmpOhVNaP’   ‘~/tmp/scratch/RtmpOkoYkF’ ‘~/tmp/scratch/RtmpPI3nLb’   ‘~/tmp/scratch/RtmpPlNgOZ’ ‘~/tmp/scratch/RtmpQJVCVr’   ‘~/tmp/scratch/RtmpQRFV4a’ ‘~/tmp/scratch/RtmpQmy3YH’   ‘~/tmp/scratch/RtmpQx1Z3v’ ‘~/tmp/scratch/RtmpR0gbye’   ‘~/tmp/scratch/RtmpRWJkLT’ ‘~/tmp/scratch/RtmpRcpWUT’   ‘~/tmp/scratch/RtmpRqRW9m’ ‘~/tmp/scratch/RtmpSBt2fg’   ‘~/tmp/scratch/RtmpShhsSw’ ‘~/tmp/scratch/RtmpSmSUZ8’   ‘~/tmp/scratch/RtmpTfoZg4’ ‘~/tmp/scratch/RtmpTgE1T2’   ‘~/tmp/scratch/RtmpU3Nw1B’ ‘~/tmp/scratch/RtmpULMLqp’   ‘~/tmp/scratch/RtmpUQEdrC’ ‘~/tmp/scratch/RtmpUXb61o’   ‘~/tmp/scratch/RtmpUv45Ri’ ‘~/tmp/scratch/RtmpV0te5B’   ‘~/tmp/scratch/RtmpWOnuqf’ ‘~/tmp/scratch/RtmpXLHVyo’   ‘~/tmp/scratch/RtmpXrazdd’ ‘~/tmp/scratch/RtmpY9052I’   ‘~/tmp/scratch/RtmpYdNCC9’ ‘~/tmp/scratch/RtmpZ59KJ5’   ‘~/tmp/scratch/RtmpZVAWcf’ ‘~/tmp/scratch/RtmpZVdveo’   ‘~/tmp/scratch/RtmpZWyzpG’ ‘~/tmp/scratch/RtmpZrl0wv’   ‘~/tmp/scratch/Rtmpa7aUd6’ ‘~/tmp/scratch/RtmpaVBt8v’   ‘~/tmp/scratch/Rtmpan90pN’ ‘~/tmp/scratch/RtmpatNFNW’   ‘~/tmp/scratch/RtmpayWdIV’ ‘~/tmp/scratch/Rtmpb5MObm’   ‘~/tmp/scratch/RtmpbQI9Ms’ ‘~/tmp/scratch/Rtmpbh80C3’   ‘~/tmp/scratch/Rtmpc4vu1D’ ‘~/tmp/scratch/Rtmpc8tEbj’   ‘~/tmp/scratch/Rtmpcrrodh’ ‘~/tmp/scratch/Rtmpcy5tva’   ‘~/tmp/scratch/RtmpcyfKZk’ ‘~/tmp/scratch/Rtmpd0Nr7x’   ‘~/tmp/scratch/Rtmpd6tx97’ ‘~/tmp/scratch/RtmpdJU5k4’   ‘~/tmp/scratch/RtmpdS0vLy’ ‘~/tmp/scratch/RtmpdVdqsV’   ‘~/tmp/scratch/RtmpdbEEFy’ ‘~/tmp/scratch/RtmpdkXpB0’   ‘~/tmp/scratch/Rtmpdz3plq’ ‘~/tmp/scratch/Rtmpe2BsiQ’   ‘~/tmp/scratch/Rtmpe9Dhmy’ ‘~/tmp/scratch/RtmpeCFq4H’   ‘~/tmp/scratch/RtmpeUU9Il’ ‘~/tmp/scratch/RtmpfcalIy’   ‘~/tmp/scratch/Rtmpgsm9fH’ ‘~/tmp/scratch/Rtmph3ODpW’   ‘~/tmp/scratch/Rtmph62Dfd’ ‘~/tmp/scratch/Rtmph9FTYO’   ‘~/tmp/scratch/RtmphQ1JVQ’ ‘~/tmp/scratch/RtmphnqcwE’   ‘~/tmp/scratch/RtmpiJ6HzF’ ‘~/tmp/scratch/Rtmpiq2IhE’   ‘~/tmp/scratch/Rtmpj2Aa93’ ‘~/tmp/scratch/RtmpjJhxOL’   ‘~/tmp/scratch/RtmpjK9K3Z’ ‘~/tmp/scratch/RtmpjaCtUu’   ‘~/tmp/scratch/RtmpkdMMoM’ ‘~/tmp/scratch/RtmplWEjsj’   ‘~/tmp/scratch/RtmplkRLRg’ ‘~/tmp/scratch/Rtmpmjwxzw’   ‘~/tmp/scratch/Rtmpmm0IdR’ ‘~/tmp/scratch/RtmpmmujWQ’   ‘~/tmp/scratch/Rtmpmxys9I’ ‘~/tmp/scratch/Rtmpn7NnFQ’   ‘~/tmp/scratch/Rtmpo1sGYK’ ‘~/tmp/scratch/RtmpoHM5qh’   ‘~/tmp/scratch/RtmpoaJk5h’ ‘~/tmp/scratch/RtmposIoqS’   ‘~/tmp/scratch/Rtmpp6jpfS’ ‘~/tmp/scratch/RtmppaDFBE’   ‘~/tmp/scratch/RtmppeiiRn’ ‘~/tmp/scratch/Rtmpq4vKk8’   ‘~/tmp/scratch/RtmpqYnLDC’ ‘~/tmp/scratch/Rtmpr7563o’   ‘~/tmp/scratch/RtmprnrSnF’ ‘~/tmp/scratch/Rtmps38COy’   ‘~/tmp/scratch/Rtmpt491Iy’ ‘~/tmp/scratch/Rtmpt4bBC6’   ‘~/tmp/scratch/RtmptgihIv’ ‘~/tmp/scratch/RtmpunH0hY’   ‘~/tmp/scratch/RtmpussMBb’ ‘~/tmp/scratch/RtmpuziKp4’   ‘~/tmp/scratch/RtmpvHRjwr’ ‘~/tmp/scratch/RtmpvUYXK9’   ‘~/tmp/scratch/Rtmpx9X2Lu’ ‘~/tmp/scratch/RtmpyPvM3y’   ‘~/tmp/scratch/RtmpydMsAC’ ‘~/tmp/scratch/Rtmpytjp2f’   ‘~/tmp/scratch/Rtmpz9sEmb’ ‘~/tmp/scratch/RtmpzcvoqS’   ‘~/tmp/scratch/Rtmpzhhn5l’ ‘~/tmp/scratch/xvfb-run.0WjWQK’   ‘~/tmp/scratch/xvfb-run.0jEmWl’ ‘~/tmp/scratch/xvfb-run.11APaY’   ‘~/tmp/scratch/xvfb-run.1Hv95m’ ‘~/tmp/scratch/xvfb-run.1aPy6B’   ‘~/tmp/scratch/xvfb-run.3ANLWt’ ‘~/tmp/scratch/xvfb-run.3jb05B’   ‘~/tmp/scratch/xvfb-run.4v074B’ ‘~/tmp/scratch/xvfb-run.5D45ZM’   ‘~/tmp/scratch/xvfb-run.67vf7k’ ‘~/tmp/scratch/xvfb-run.68rZzD’   ‘~/tmp/scratch/xvfb-run.6G5EUT’ ‘~/tmp/scratch/xvfb-run.6uGxFR’   ‘~/tmp/scratch/xvfb-run.7Dn2gZ’ ‘~/tmp/scratch/xvfb-run.7UV9JI’   ‘~/tmp/scratch/xvfb-run.8pZhL6’ ‘~/tmp/scratch/xvfb-run.8rt454’   ‘~/tmp/scratch/xvfb-run.8tBXB2’ ‘~/tmp/scratch/xvfb-run.9djELi’   ‘~/tmp/scratch/xvfb-run.9lELR2’ ‘~/tmp/scratch/xvfb-run.A5cipb’   ‘~/tmp/scratch/xvfb-run.A91ong’ ‘~/tmp/scratch/xvfb-run.AXNPAX’   ‘~/tmp/scratch/xvfb-run.BNPgf0’ ‘~/tmp/scratch/xvfb-run.BXJVBC’   ‘~/tmp/scratch/xvfb-run.BXw0RI’ ‘~/tmp/scratch/xvfb-run.C0e9lH’   ‘~/tmp/scratch/xvfb-run.CVOTqp’ ‘~/tmp/scratch/xvfb-run.CWSbln’   ‘~/tmp/scratch/xvfb-run.E6uQBm’ ‘~/tmp/scratch/xvfb-run.EAqLXN’   ‘~/tmp/scratch/xvfb-run.Fbv4w5’ ‘~/tmp/scratch/xvfb-run.GrU3Cx’   ‘~/tmp/scratch/xvfb-run.IgBBQm’ ‘~/tmp/scratch/xvfb-run.KxzuDK’   ‘~/tmp/scratch/xvfb-run.L0dzLL’ ‘~/tmp/scratch/xvfb-run.LCYHfu’   ‘~/tmp/scratch/xvfb-run.Lbm7XV’ ‘~/tmp/scratch/xvfb-run.LdKLkR’   ‘~/tmp/scratch/xvfb-run.LqGYNE’ ‘~/tmp/scratch/xvfb-run.N8y8GD’   ‘~/tmp/scratch/xvfb-run.O6gQWg’ ‘~/tmp/scratch/xvfb-run.O97yb6’   ‘~/tmp/scratch/xvfb-run.P24vZE’ ‘~/tmp/scratch/xvfb-run.PG0sFz’   ‘~/tmp/scratch/xvfb-run.POjB7x’ ‘~/tmp/scratch/xvfb-run.QKpiuZ’   ‘~/tmp/scratch/xvfb-run.QaSZFu’ ‘~/tmp/scratch/xvfb-run.QaxXmN’   ‘~/tmp/scratch/xvfb-run.UJ5Rwr’ ‘~/tmp/scratch/xvfb-run.XGShKZ’   ‘~/tmp/scratch/xvfb-run.a64Omd’ ‘~/tmp/scratch/xvfb-run.aoFnOi’   ‘~/tmp/scratch/xvfb-run.bqmoiK’ ‘~/tmp/scratch/xvfb-run.cCbpVc’   ‘~/tmp/scratch/xvfb-run.cTt7x0’ ‘~/tmp/scratch/xvfb-run.cqjmE4’   ‘~/tmp/scratch/xvfb-run.d2Zv6D’ ‘~/tmp/scratch/xvfb-run.e3T8iB’   ‘~/tmp/scratch/xvfb-run.eRmav5’ ‘~/tmp/scratch/xvfb-run.eacCHr’   ‘~/tmp/scratch/xvfb-run.ekQ6t9’ ‘~/tmp/scratch/xvfb-run.eqmzts’   ‘~/tmp/scratch/xvfb-run.itEvm8’ ‘~/tmp/scratch/xvfb-run.jA1KBC’   ‘~/tmp/scratch/xvfb-run.jDs3B3’ ‘~/tmp/scratch/xvfb-run.kQGo7V’   ‘~/tmp/scratch/xvfb-run.lsoZ3f’ ‘~/tmp/scratch/xvfb-run.mjrfuI’   ‘~/tmp/scratch/xvfb-run.nSu9k1’ ‘~/tmp/scratch/xvfb-run.ns6xue’   ‘~/tmp/scratch/xvfb-run.oIgyTf’ ‘~/tmp/scratch/xvfb-run.ox65gz’   ‘~/tmp/scratch/xvfb-run.p8be9G’ ‘~/tmp/scratch/xvfb-run.rxNKVj’   ‘~/tmp/scratch/xvfb-run.sDPY00’ ‘~/tmp/scratch/xvfb-run.ssI6Xk’   ‘~/tmp/scratch/xvfb-run.tIzL3a’ ‘~/tmp/scratch/xvfb-run.tx2WIE’   ‘~/tmp/scratch/xvfb-run.u8Pdzc’ ‘~/tmp/scratch/xvfb-run.uvEwg7’   ‘~/tmp/scratch/xvfb-run.xPvADH’
• DONE

Status: 1 NOTE