Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-10-16 11:41 -0400 (Thu, 16 Oct 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4833 |
merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4614 |
kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4555 |
kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4586 |
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 2139/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
SVMDO 1.8.0 (landing page) Mustafa Erhan Ozer
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson1 | macOS 13.7.5 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: SVMDO |
Version: 1.8.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings SVMDO_1.8.0.tar.gz |
StartedAt: 2025-10-14 15:07:16 -0000 (Tue, 14 Oct 2025) |
EndedAt: 2025-10-14 15:15:00 -0000 (Tue, 14 Oct 2025) |
EllapsedTime: 463.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: SVMDO.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings SVMDO_1.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/SVMDO.Rcheck’ * using R Under development (unstable) (2025-02-19 r87757) * using platform: aarch64-unknown-linux-gnu * R was compiled by aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: openEuler 24.03 (LTS-SP1) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘SVMDO/DESCRIPTION’ ... OK * this is package ‘SVMDO’ version ‘1.8.0’ * 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 loading without being on the library search path ... 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: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’ * installing *source* package ‘SVMDO’ ... ** this is package ‘SVMDO’ version ‘1.8.0’ ** 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 Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" Copyright (C) 2025 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu 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: 2559,8675,407008,79158,5345,10195 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 650,7498,3485,6519,10165,2303 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2919,1594,30061,10094,7351,3460 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2798,2030,4319,821,83985,1353 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 942,3565,6352,9414,3552,55630 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2159,2946,406934,316,91942,64131 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10157,3295,5919,10559,4069,594 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 57511,11232,406947,1798,10965,3290 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 80339,2524,493,5207,5445,5095 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2762,4000,3479,3645,9445,3945 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 91949,8714,4705,6833,8639,2791 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1646,4544,50943,341,10250,31 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10935,2243,1544,4312,2064,201595 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5723,56259,4973,55967,7035,3172 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 132001,5350,79949,5243,51024,100 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 150,10269,84340,2745,56999,9429 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2063,3767,7289,5313,2688,1270 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3119,5091,10643,3813,26291,197131 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5188,55753,8942,57085,3795,5702 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6248,3066,55970,229,81570,51085 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5315,203859,2572,2878,656,55065 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5327,563,54344,9076,9374,3708 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 11222,7018,5468,4714,5789,5265 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7385,4547,55343,10269,405,1329 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 847,6492,4524,64801,2908,54576 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 48,56052,563,4982,92935,3606 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10560,3091,6392,9091,5447,10965 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 100506742,1345,3115,2034,4973,60 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9526,4552,1641,7037,51094,5068 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 29880,7252,4803,1718,3636,2787 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2788,7026,6383,54805,2109,26119 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 654,308,3081,50674,1371,5579 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5592,7030,149461,5444,3440,10062 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 201595,6261,3293,406913,5276,1595 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4069,149461,2539,2243,60386,3489 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4726,718,6999,4337,6898,5345 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 640,1075,9512,4758,197131,5370 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5507,7879,3684,6891,2155,2908 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 55278,729230,1641,8309,5274,2944 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3113,123263,3357,3562,7915,115286 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3308,9429,5078,177,4543,51021 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 513,5702,57192,64689,5443,3351 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 57678,55572,79796,26227,1909,5243 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3087,3073,116228,593,2864,728 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1769,4288,22933,1373,3099,5346 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1910,4128,29928,7097,1409,197322 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 57818,2305,652,10019,81033,53345 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3486,131118,359,2266,1672,388372 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6901,3290,8660,7036,2673,5257 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9451,6522,10128,2888,694,4288 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 123283,350,2694,2697,5191,2804 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1346,5176,5321,1409,4338,5590 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2159,1327,22852,6513,5161,6439 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8743,2695,80339,388,407040,2118 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1355,55863,4846,53346,3948,5313 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1910,1608,4886,9021,389692,847 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6938,627,231,7941,51092,2790 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10008,116228,58528,9759,5515,846 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4314,7274,38,581,6354,335 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 112817,10059,10094,91647,340024,2305 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4728,83884,5264,91869,5092,10157 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 729230,2587,5293,27125,166785,387787 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 79633,7274,3418,10938,2835,7026 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 434,26762,1392,2776,221458,54658 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 819,5740,8879,79572,7386,10379 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4089,2786,22901,6342,5207,3939 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6928,708,216,23590,3117,5971 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2184,811,8772,2314,3767,5295 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4843,6354,216,84447,64601,6261 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 80331,51293,411,29843,1203,2799 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 796,10682,197131,1893,6464,80070 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1327,5190,388,3562,10159,51004 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1401,5068,285,1346,54600,211 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 84334,2645,6517,3091,3054,81704 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 255308,115286,1208,56999,5581,518 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 57505,5255,150,9692,10891,335 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 84061,10128,2834,55630,407008,84317 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4843,5617,5950,130120,2646,23530 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 55343,3440,347,23543,4358,3558 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3172,23411,406913,824,7450,1992 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5745,137994,79602,5798,1537,1813 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2271,7409,5563,33,367,10524 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3980,1588,1678,63874,156,160428 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5581,842,116931,1234,8942,10269 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5291,627,2740,2952,3554,4724 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2170,3791,84340,6522,51144,376497 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 9672,9429,2184,10,10243,3931 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1232,2643,5315,514,55753,3779 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 81034,685,632,8877,79585,2328 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 79736,26354,10059,79572,7407,55967 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 57570,6602,148979,23410,27247,4860 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5727,1843,3155,5498,54931,3779 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 958,2645,57818,4925,2118,116519 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10874,729230,5188,4853,4855,5618 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3773,5214,6786,1581,26175,4780 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 57380,9414,4313,491,3700,57570 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4728,5971,435,9663,1543,819 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1801,23474,55970,8678,140803,3480 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 55186,476,491,1555,6714,10000 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 51099,4694,51206,27141,28958,55503 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3553,3356,3351,406938,90865,7879 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 203068,3953,23054,2697,3663,2184 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 51660,5730,4524,239,10643,285126 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 355,54577,10682,6833,216,64601 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6908,2696,5592,656,776,55970 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5329,183,2516,407009,308,6576 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5962,51079,142,6387,9131,5828 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 514,644974,4726,9054,490,5740 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3728,2653,5236,9630,6339,842 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1080,2166,356,80331,79572,2712 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2591,5241,7498,9056,90480,5194 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3033,4313,54539,203068,5538,255231 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4049,2034,64601,4714,6550,729230 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10221,387787,9131,54344,7471,388753 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 941,5293,2696,3074,1075,79587 --> return NULL... [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ] > > proc.time() user system elapsed 80.400 0.990 81.718
SVMDO.Rcheck/SVMDO-Ex.timings
name | user | system | elapsed | |
runGUI | 0.763 | 0.043 | 1.291 | |