• 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 18:17:38 UTC
• checking for file ‘tcgaViz/DESCRIPTION’ ... OK
• this is package ‘tcgaViz’ version ‘1.0.2’
• 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 serialization versions ... OK
• checking whether package ‘tcgaViz’ 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 ... [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 ... [9s/11s] 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 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 ... [8s/12s] OK Examples with CPU (user + system) or elapsed time > 5s                   user system elapsed calculate_pvalue 3.169 0.406 5.033
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [3s/5s] OK   Running ‘testthat.R’ [3s/5s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [17s/23s] OK
• checking PDF version of manual ... [4s/6s] OK
• checking HTML version of manual ... [0s/0s] 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/Rtmp0EsxMz’ ‘~/tmp/scratch/Rtmp0GGtuO’   ‘~/tmp/scratch/Rtmp0HnKHF’ ‘~/tmp/scratch/Rtmp0QGW68’   ‘~/tmp/scratch/Rtmp0s2gtg’ ‘~/tmp/scratch/Rtmp14AZrB’   ‘~/tmp/scratch/Rtmp1F9zq9’ ‘~/tmp/scratch/Rtmp1OBdiI’   ‘~/tmp/scratch/Rtmp1TZqCO’ ‘~/tmp/scratch/Rtmp1mxAQ0’   ‘~/tmp/scratch/Rtmp2P9H6l’ ‘~/tmp/scratch/Rtmp3QozIA’   ‘~/tmp/scratch/Rtmp3UbcMM’ ‘~/tmp/scratch/Rtmp3iLVue’   ‘~/tmp/scratch/Rtmp4JDFl8’ ‘~/tmp/scratch/Rtmp4S6KLX’   ‘~/tmp/scratch/Rtmp4sDPwE’ ‘~/tmp/scratch/Rtmp60VaUI’   ‘~/tmp/scratch/Rtmp69amgJ’ ‘~/tmp/scratch/Rtmp6MTo7A’   ‘~/tmp/scratch/Rtmp6RedOA’ ‘~/tmp/scratch/Rtmp6TxHuO’   ‘~/tmp/scratch/Rtmp7IZHzM’ ‘~/tmp/scratch/Rtmp7mHjgy’   ‘~/tmp/scratch/Rtmp7mbWAe’ ‘~/tmp/scratch/Rtmp7xERH4’   ‘~/tmp/scratch/Rtmp8DCiLb’ ‘~/tmp/scratch/Rtmp8t6Sq8’   ‘~/tmp/scratch/Rtmp9SbH5d’ ‘~/tmp/scratch/Rtmp9XfPG1’   ‘~/tmp/scratch/RtmpAW7SoI’ ‘~/tmp/scratch/RtmpAnDBhH’   ‘~/tmp/scratch/RtmpAu0J6X’ ‘~/tmp/scratch/RtmpBn04vY’   ‘~/tmp/scratch/RtmpBz3W0j’ ‘~/tmp/scratch/RtmpC8MkdP’   ‘~/tmp/scratch/RtmpCJ0OPq’ ‘~/tmp/scratch/RtmpCZBzdu’   ‘~/tmp/scratch/RtmpCrP8B1’ ‘~/tmp/scratch/RtmpD7QA4m’   ‘~/tmp/scratch/RtmpDgSMJE’ ‘~/tmp/scratch/RtmpEAcEFx’   ‘~/tmp/scratch/RtmpEDhZQV’ ‘~/tmp/scratch/RtmpENAPFF’   ‘~/tmp/scratch/RtmpEsDISI’ ‘~/tmp/scratch/RtmpF1CLc7’   ‘~/tmp/scratch/RtmpG8OL7a’ ‘~/tmp/scratch/RtmpGPM7bh’   ‘~/tmp/scratch/RtmpGSlFIJ’ ‘~/tmp/scratch/RtmpHVUiNj’   ‘~/tmp/scratch/RtmpIyxvPm’ ‘~/tmp/scratch/RtmpJWiiVg’   ‘~/tmp/scratch/RtmpJrbPEn’ ‘~/tmp/scratch/RtmpJvHGsJ’   ‘~/tmp/scratch/RtmpKACMOx’ ‘~/tmp/scratch/RtmpKATy0V’   ‘~/tmp/scratch/RtmpKQgWp9’ ‘~/tmp/scratch/RtmpLZcFw4’   ‘~/tmp/scratch/RtmpM03rmC’ ‘~/tmp/scratch/RtmpMbuV6P’   ‘~/tmp/scratch/RtmpMbyTi6’ ‘~/tmp/scratch/RtmpNToNS0’   ‘~/tmp/scratch/RtmpNe501m’ ‘~/tmp/scratch/RtmpNrSHJ6’   ‘~/tmp/scratch/RtmpOiFy2j’ ‘~/tmp/scratch/RtmpOmajhQ’   ‘~/tmp/scratch/RtmpPO4kfv’ ‘~/tmp/scratch/RtmpPXVHjW’   ‘~/tmp/scratch/RtmpPwnnWt’ ‘~/tmp/scratch/RtmpQBIMuP’   ‘~/tmp/scratch/RtmpQF92cF’ ‘~/tmp/scratch/RtmpR6X3CC’   ‘~/tmp/scratch/RtmpRw3obl’ ‘~/tmp/scratch/RtmpS1mWOe’   ‘~/tmp/scratch/RtmpSDNay7’ ‘~/tmp/scratch/RtmpSSgD7d’   ‘~/tmp/scratch/RtmpTBToPX’ ‘~/tmp/scratch/RtmpTD8tnC’   ‘~/tmp/scratch/RtmpTjDZxD’ ‘~/tmp/scratch/RtmpUq5cif’   ‘~/tmp/scratch/RtmpV5M4rs’ ‘~/tmp/scratch/RtmpVFGXqf’   ‘~/tmp/scratch/RtmpVJCwtf’ ‘~/tmp/scratch/RtmpVowvQN’   ‘~/tmp/scratch/RtmpVrf7im’ ‘~/tmp/scratch/RtmpW1RFFX’   ‘~/tmp/scratch/RtmpWciFj1’ ‘~/tmp/scratch/RtmpXXPCPs’   ‘~/tmp/scratch/RtmpY1Khud’ ‘~/tmp/scratch/RtmpYIWTVz’   ‘~/tmp/scratch/RtmpYfvBcz’ ‘~/tmp/scratch/RtmpYk02cb’   ‘~/tmp/scratch/RtmpYupLQs’ ‘~/tmp/scratch/RtmpZ0wsdn’   ‘~/tmp/scratch/RtmpZqZtRu’ ‘~/tmp/scratch/Rtmparjwa0’   ‘~/tmp/scratch/Rtmpb4pw67’ ‘~/tmp/scratch/Rtmpbb3PVw’   ‘~/tmp/scratch/RtmpbpAFFL’ ‘~/tmp/scratch/RtmpcAm4wa’   ‘~/tmp/scratch/Rtmpd1Qx8G’ ‘~/tmp/scratch/RtmpdEgxI5’   ‘~/tmp/scratch/RtmpdRcwUP’ ‘~/tmp/scratch/RtmpdXmTUw’   ‘~/tmp/scratch/Rtmpdnizjt’ ‘~/tmp/scratch/RtmpdrF75g’   ‘~/tmp/scratch/RtmpeR0P27’ ‘~/tmp/scratch/Rtmpg8P76r’   ‘~/tmp/scratch/RtmpgDOxZ6’ ‘~/tmp/scratch/Rtmpgp6a6V’   ‘~/tmp/scratch/RtmphUPgJK’ ‘~/tmp/scratch/RtmphcM0nt’   ‘~/tmp/scratch/Rtmpi8njGB’ ‘~/tmp/scratch/RtmpixP1pX’   ‘~/tmp/scratch/RtmpjBi9Hg’ ‘~/tmp/scratch/RtmpjDjrkL’   ‘~/tmp/scratch/RtmpjZa2qy’ ‘~/tmp/scratch/RtmpkC4J5L’   ‘~/tmp/scratch/RtmpkLDVms’ ‘~/tmp/scratch/RtmpkQ3vuO’   ‘~/tmp/scratch/RtmpkRBmsD’ ‘~/tmp/scratch/RtmplkhXXL’   ‘~/tmp/scratch/RtmpltMm4l’ ‘~/tmp/scratch/Rtmpm7V3pL’   ‘~/tmp/scratch/Rtmpm9jW1D’ ‘~/tmp/scratch/RtmpmFSgAX’   ‘~/tmp/scratch/RtmpmdhuKE’ ‘~/tmp/scratch/RtmpmrQZ7k’   ‘~/tmp/scratch/RtmpnEOxuA’ ‘~/tmp/scratch/Rtmpndm0GJ’   ‘~/tmp/scratch/Rtmpny4wkf’ ‘~/tmp/scratch/Rtmpo9AF3t’   ‘~/tmp/scratch/RtmpoKiVyG’ ‘~/tmp/scratch/RtmpoWr0mC’   ‘~/tmp/scratch/Rtmpp0VhfC’ ‘~/tmp/scratch/RtmppJqJNO’   ‘~/tmp/scratch/RtmppqEwnI’ ‘~/tmp/scratch/RtmpqKD1sb’   ‘~/tmp/scratch/RtmpqQhzNQ’ ‘~/tmp/scratch/RtmpqWg3Lg’   ‘~/tmp/scratch/Rtmprkrb20’ ‘~/tmp/scratch/RtmpsS0VMU’   ‘~/tmp/scratch/Rtmpsf6JC0’ ‘~/tmp/scratch/Rtmpv0fU5i’   ‘~/tmp/scratch/Rtmpxhe8mA’ ‘~/tmp/scratch/Rtmpxz4JEg’   ‘~/tmp/scratch/RtmpyUrlPF’ ‘~/tmp/scratch/RtmpzC3uwp’   ‘~/tmp/scratch/RtmpzZ80rP’ ‘~/tmp/scratch/xvfb-run.0x5oDu’   ‘~/tmp/scratch/xvfb-run.3YadLf’ ‘~/tmp/scratch/xvfb-run.3iZX7g’   ‘~/tmp/scratch/xvfb-run.639Qy6’ ‘~/tmp/scratch/xvfb-run.7LHItE’   ‘~/tmp/scratch/xvfb-run.7X9EzG’ ‘~/tmp/scratch/xvfb-run.8Nw4uo’   ‘~/tmp/scratch/xvfb-run.Af7rNy’ ‘~/tmp/scratch/xvfb-run.BNdAvh’   ‘~/tmp/scratch/xvfb-run.BX0Qds’ ‘~/tmp/scratch/xvfb-run.BsnNr0’   ‘~/tmp/scratch/xvfb-run.ErEZz7’ ‘~/tmp/scratch/xvfb-run.FT8zgp’   ‘~/tmp/scratch/xvfb-run.GRvkGh’ ‘~/tmp/scratch/xvfb-run.Ge0PpX’   ‘~/tmp/scratch/xvfb-run.Gi0nhz’ ‘~/tmp/scratch/xvfb-run.HHJg8i’   ‘~/tmp/scratch/xvfb-run.HHQrh6’ ‘~/tmp/scratch/xvfb-run.IeKp7M’   ‘~/tmp/scratch/xvfb-run.JhPTwJ’ ‘~/tmp/scratch/xvfb-run.KJee27’   ‘~/tmp/scratch/xvfb-run.KVLpV3’ ‘~/tmp/scratch/xvfb-run.Nvx8SO’   ‘~/tmp/scratch/xvfb-run.PhRnnp’ ‘~/tmp/scratch/xvfb-run.RGOKVC’   ‘~/tmp/scratch/xvfb-run.RPKqvC’ ‘~/tmp/scratch/xvfb-run.Ri3T6h’   ‘~/tmp/scratch/xvfb-run.RqxlOx’ ‘~/tmp/scratch/xvfb-run.SIuuvU’   ‘~/tmp/scratch/xvfb-run.SNgKrO’ ‘~/tmp/scratch/xvfb-run.T1HakX’   ‘~/tmp/scratch/xvfb-run.URgDne’ ‘~/tmp/scratch/xvfb-run.V27FF4’   ‘~/tmp/scratch/xvfb-run.WdFPGp’ ‘~/tmp/scratch/xvfb-run.X59QV5’   ‘~/tmp/scratch/xvfb-run.YuIL7h’ ‘~/tmp/scratch/xvfb-run.Z4sglH’   ‘~/tmp/scratch/xvfb-run.Z7vH1j’ ‘~/tmp/scratch/xvfb-run.ZeByZj’   ‘~/tmp/scratch/xvfb-run.bLhJd7’ ‘~/tmp/scratch/xvfb-run.bqVJf9’   ‘~/tmp/scratch/xvfb-run.cri19V’ ‘~/tmp/scratch/xvfb-run.ev3Av9’   ‘~/tmp/scratch/xvfb-run.fly425’ ‘~/tmp/scratch/xvfb-run.hewYYU’   ‘~/tmp/scratch/xvfb-run.hmksUv’ ‘~/tmp/scratch/xvfb-run.ijati9’   ‘~/tmp/scratch/xvfb-run.jRHfdp’ ‘~/tmp/scratch/xvfb-run.keiYWc’   ‘~/tmp/scratch/xvfb-run.nwrsxG’ ‘~/tmp/scratch/xvfb-run.q4Ndvb’   ‘~/tmp/scratch/xvfb-run.shAdMg’ ‘~/tmp/scratch/xvfb-run.uRn4Mj’   ‘~/tmp/scratch/xvfb-run.wDNhIN’ ‘~/tmp/scratch/xvfb-run.x3zk1W’   ‘~/tmp/scratch/xvfb-run.yxDCcz’ ‘~/tmp/scratch/xvfb-run.zFU5kf’   ‘~/tmp/scratch/xvfb-run.zdrM0Y’
• DONE

Status: 1 NOTE