Mustafa Erhan Ozer
| Snapshot Date: 2026-01-05 13:45 -0500 (Mon, 05 Jan 2026) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_22 |
| git_last_commit: 86871da |
| git_last_commit_date: 2025-10-29 11:23:08 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-01-08 11:59 -0500 (Thu, 08 Jan 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4883 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4671 |
| 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 2163/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.10.0 (landing page) Mustafa Erhan Ozer
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| taishan | 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: 1.10.0 |
| 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_1.10.0.tar.gz |
| StartedAt: 2026-01-06 16:04:36 -0000 (Tue, 06 Jan 2026) |
| EndedAt: 2026-01-06 16:10:51 -0000 (Tue, 06 Jan 2026) |
| EllapsedTime: 375.7 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_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.0 (2025-04-11)
* 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)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.10.0’
* 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-4.5.0/site-library’ * installing *source* package ‘SVMDO’ ... ** this is package ‘SVMDO’ version ‘1.10.0’ ** 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 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
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: 929,3375,407004,2694,1075,7480
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51079,2639,5629,8600,9474,10537
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 836,728,57176,253559,80222,6515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 156,54931,54809,162417,94235,3929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55768,350,6329,2998,6821,5313
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8877,51548,6531,10333,2194,2760
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29108,4744,6901,23543,51300,4299
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406934,212,54915,6786,5702,6811
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11035,55902,6521,6576,3958,4712
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55768,80270,5126,492,6319,6317
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 63892,435,2100,131669,57001,1601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1234,2548,3293,84572,80267,4718
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 152926,55283,1374,9779,9051,5331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28234,89874,130589,140803,6932,6789
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 760,55005,5194,79133,23062,7297
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6564,5644,3098,55343,868,5443
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 664,7412,9945,4513,1186,10
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406906,7347,384,7422,5798,1201
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 118,2628,33,1893,203859,6387
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 155,3708,3098,84902,7098,10644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 113235,1672,1056,84504,57511,338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2694,4118,56848,119559,3425,51601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1401,4125,539,1490,7319,53346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9131,7480,2588,1175,5834,64241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 115286,118,1353,6772,4828,7172
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 101180976,3709,1409,6891,2641,3559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8802,9927,2990,7409,6564,60528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 253559,8087,3250,6536,2638,63874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54344,2053,2896,114548,760,57017
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1555,2194,1021,5329,6648,85365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51085,5236,3082,3123,2673,140803
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3553,7480,4697,10229,1559,3141
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4256,256471,1859,56919,3552,6536
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6515,23411,5506,5256,5581,121268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1601,7388,7287,7292,549,203
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2260,91942,8504,83439,1312,373156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 201305,5255,10000,1650,1493,3383
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6908,255308,50674,1080,9445,6390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 942,358,2713,29928,8431,1376
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11131,10423,10643,4982,427,4669
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51085,53335,860,90580,1571,10102
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4513,7528,6472,2888,221458,83854
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 138050,7919,7320,340024,2638,694
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 959,2110,1509,54549,54539,1956
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3958,151,3351,8772,5743,119559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123099,2157,6774,958,790,7388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57505,7919,113263,5069,4700,1606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3483,80201,57107,4714,11096,29108
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5194,9868,29880,5372,84572,2055
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3673,60386,999,6356,3709,1348
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57176,2791,1815,64240,2702,6582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2100,148738,4714,152926,5373,5315
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2944,2101,694,7048,5962,2731
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57380,84902,407011,5584,685,80207
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85476,50943,2689,48,200186,7026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6571,8309,1509,3240,51094,10577
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1390,4502,5473,79633,3980,6775
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3606,8841,4683,53335,5581,23543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1586,81027,3077,153,84889,407008
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9692,3562,2876,54658,581,2593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51116,7422,23474,84447,26503,2787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7172,3485,94235,26517,3065,407024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7054,55331,1409,7391,3145,84447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29928,7038,5257,10580,2194,7450
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84902,185,51119,4089,6198,3553
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51649,6472,4566,3899,123099,1646
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406,5126,55283,2760,5798,84275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3700,516,4312,3309,205327,2244
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100,3759,3692,6492,29947,79572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51300,9759,51458,2101,134,1182
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1369,2739,3156,51119,2475,4779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3490,3934,1508,4524,23400,51144
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6927,338,5191,2303,1363,3795
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6514,57620,133,6517,1071,9507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 325,3507,50507,2944,100131801,1641
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4780,10013,7325,388,54896,353500
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5629,7319,6794,23475,860,440503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10730,4846,3356,795,9572,23543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 339,10457,2109,55970,1352,3559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 231,54576,846,5465,7409,2834
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10094,1029,3033,7841,6888,5327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8431,123283,2646,1369,1339,54210
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2244,7284,6925,55503,7319,6833
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2806,1508,153,768239,4594,5189
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56922,432369,3486,23410,55858,9415
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3170,54901,6569,50507,23274,4705
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3636,6357,3692,2348,7319,6464
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1869,7389,3458,4790,10128,79087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10841,9572,51241,4502,316,3717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3123,338,8517,7389,51,285
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3624,51085,185,8651,405,2588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5590,51601,158,1201,10116,1595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5798,51079,23530,2760,5071,5122
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4311,644974,29108,325,2597,2778
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1571,942,1351,283120,2572,345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160428,5372,55268,10577,2952,406938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4864,9663,5625,56623,2778,55630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 351,2697,3552,1339,5551,1489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6401,25821,10116,10221,6556,4684
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5442,5629,1583,55532,9415,1589
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54106,338821,3123,3170,25974,406
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9575,7019,2099,1544,5447,6929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2638,1606,3479,4656,3557,2936
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3240,3091,2055,83693,476,7018
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 558,285848,181,406991,4537,796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29958,84062,100131801,5713,8560,8600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4160,118,6182,1813,79949,55270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4337,477,4967,4126,3779,2115
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1588,4684,7098,6351,2767,599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 217,4654,84706,2835,9241,3779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 635,11035,158,5594,64805,6464
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 32,90865,6536,115286,1337,3351
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
71.047 1.640 73.062
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.760 | 0.111 | 1.318 | |