Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-08-09 12:10 -0400 (Sat, 09 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4818 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4553 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4595 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4537 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 2119/2317 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
SVMDO 1.9.0 (landing page) Mustafa Erhan Ozer
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
To the developers/maintainers of the SVMDO package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SVMDO.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: SVMDO |
Version: 1.9.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SVMDO_1.9.0.tar.gz |
StartedAt: 2025-08-08 21:56:16 -0400 (Fri, 08 Aug 2025) |
EndedAt: 2025-08-08 21:58:10 -0400 (Fri, 08 Aug 2025) |
EllapsedTime: 114.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: SVMDO.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SVMDO_1.9.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’ * using R version 4.5.1 Patched (2025-06-14 r88325) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 16.0.0 (clang-1600.0.26.6) GNU Fortran (GCC) 14.2.0 * running under: macOS Ventura 13.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘SVMDO/DESCRIPTION’ ... OK * this is package ‘SVMDO’ version ‘1.9.0’ * package encoding: UTF-8 * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘SVMDO’ can be installed ... OK * checking installed package size ... OK * checking package directory ... 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 ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... 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 ... OK * checking Rd files ... OK * checking Rd metadata ... 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 files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: OK
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘SVMDO’ ... ** this is package ‘SVMDO’ version ‘1.9.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SVMDO)
SVMDO.Rcheck/tests/testthat.Rout
R version 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" Copyright (C) 2025 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files > > library(testthat) > library(SVMDO) Loading required package: shiny > > test_check("SVMDO") 'select()' returned 1:1 mapping between keys and columns --> No gene can be mapped.... --> Expected input gene ID: 91574,7248,91869,65985,3284,5702 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3708,57818,155,3990,3791,1080 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 341,1200,37,4720,434,5230 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 51085,91574,3708,116931,3113,9076 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 11222,1992,11093,5824,81689,54549 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8560,4126,6476,6401,5971,10269 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1650,57761,3030,3074,9332,5328 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 387,53335,374291,9868,1582,8854 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3358,5538,9971,347411,239,6352 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1392,387787,411,1586,10874,10094 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2937,2572,2053,1394,107075310,5236 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 152078,51601,790,6464,6934,2776 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7057,3240,4915,353500,5306,6338 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3251,6821,285848,121268,5191,3557 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 54205,219,3157,84649,51738,479 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1339,3339,10102,3791,10269,50674 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 356,471,10891,1889,84061,6821 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3980,8202,1175,51611,3418,81034 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4232,2919,51099,26003,335,2805 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2806,4656,8841,6934,23417,6462 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4729,56606,1435,4722,3586,4879 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9512,1734,6696,3156,91574,4149 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 406991,10935,1509,50484,3356,10195 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 596,84239,7942,100,7384,7248 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 336,2904,708,79633,391051,9415 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6521,1678,64432,5617,2693,3813 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1371,5192,23417,56052,1584,6342 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10008,1435,7287,3062,84649,2740 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 54915,7084,81570,57085,10874,57570 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7494,5551,4544,134,558,7018 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 54539,10383,26003,491,10724,2908 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 22796,4015,3945,23369,81033,8473 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 55278,10999,348,10599,4285,6906 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 581,200186,6492,27329,364,10643 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2588,4846,7056,217,1401,9498 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 284958,10382,85446,85476,9180,10644 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 185,51082,847,57620,10667,54806 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7320,4153,1182,256471,3054,10891 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 959,407021,7528,409,388,10466 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 84340,9091,5068,825,2752,35 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 80267,7424,5161,6901,27232,538 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3570,5962,2693,582,3703,2260 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7450,10062,1757,51548,490,6403 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7078,80339,55186,57192,4852,1812 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6492,5184,1650,5580,10911,120227 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10102,7054,7048,231,3576,389 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 148979,8648,7376,3630,1509,50506 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 79644,3351,5346,3551,3375,1906 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5261,4357,5367,8639,5445,9365 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1116,539,92483,4968,593,5625 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3033,185,5744,10682,1075,79783 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6521,2998,10128,2524,51555,51116 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2752,2118,5617,211,5250,4851 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8842,3600,9414,118,54968,217 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8879,3483,87178,266,5447,1583 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1595,4851,51458,3123,2805,3980 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 255738,6354,7248,4982,5562,55024 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4609,162417,1080,55340,1607,6999 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8050,6389,10316,490,2235,51204 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5787,80222,57570,6522,9054,116519 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5515,283120,64601,1435,56997,10991 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 885,29926,48,3098,1022,7054 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10642,7376,2119,2746,6383,283120 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3995,2638,7351,4312,93587,2875 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7350,51649,55270,2678,1717,4704 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 285848,51608,2571,56848,57818,55037 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3304,406937,51204,54901,3586,5078 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2683,5592,2100,51085,10642,57511 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3565,811,133522,2593,3938,6786 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7037,3416,3119,6934,4288,3481 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1232,7498,7388,32,160428,28976 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8665,3813,4547,6445,170302,2936 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2788,1514,27429,1869,275,10102 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 26191,3708,1186,100128525,292,1644 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5590,7248,151306,599,6338,169792 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 844,9868,2280,1340,7319,1789 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4149,4846,7388,10221,10686,929 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5625,6339,1558,10,359,51608 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4351,3113,4851,2495,9076,79644 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5228,3440,1232,7347,2947,8648 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3284,84334,4713,1182,26227,284958 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 405,948,355,6770,1641,1581 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7941,8803,5105,4598,10560,201305 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 26175,3875,776,7528,846,89874 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 644974,10667,26227,8471,9131,5370 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 51167,23530,3251,22978,2147,5313 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2582,3995,6772,85569,5967,6513 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3953,1080,28976,79944,1605,5728 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 210,6616,3600,4803,6531,406906 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 383,6647,84062,3934,9507,1490 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5078,10875,162417,56999,51649,4627 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 407008,10938,821,2984,2243,4358 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2260,54575,4552,644974,347411,79949 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7350,1843,51092,517,26119,3155 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3423,11222,491,5288,7057,10891 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3066,3645,23409,4668,3312,91452 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10243,2303,25974,1268,63931,51206 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3507,1019,11231,2110,92609,56923 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6868,5054,3356,25813,5330,348 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4854,56919,8567,31,7100,7319 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1471,3308,116150,3122,56848,5860 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3980,10616,3606,92667,406937,29843 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4982,3576,4357,664,10874,55163 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5096,347,846,5188,5919,51601 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5261,1374,10642,5214,7040,3240 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4669,435,203859,2998,3242,9672 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4338,6492,7466,582,1678,4609 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 55750,7372,7431,640,154,8802 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5580,55340,336,1992,79731,1608 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9927,857,57761,2934,51241,6678 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9131,492,10226,407009,9560,29928 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 91574,5091,3382,6582,2030,123283 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9377,6786,4609,643181,1232,10157 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3291,10845,54896,83884,56259,84706 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2110,2835,55630,629,10875,1558 --> return NULL... 2025-08-08 21:58:07.445 R[62552:491995364] XType: Using static font registry. [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ] > > proc.time() user system elapsed 23.525 0.391 24.220
SVMDO.Rcheck/SVMDO-Ex.timings
name | user | system | elapsed | |
runGUI | 0.264 | 0.013 | 1.565 | |