Mustafa Erhan Ozer
| Snapshot Date: 2026-02-22 13:45 -0500 (Sun, 22 Feb 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 Build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-02-23 11:58 -0500 (Mon, 23 Feb 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" | 4890 |
| 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 | | ||||||||
| See other builds for SVMDO in R Universe. | ||||||||||||||
|
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: 1.10.0 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings SVMDO_1.10.0.tar.gz |
| StartedAt: 2026-02-23 05:00:54 -0500 (Mon, 23 Feb 2026) |
| EndedAt: 2026-02-23 05:06:39 -0500 (Mon, 23 Feb 2026) |
| EllapsedTime: 344.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings SVMDO_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.2 (2025-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/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 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-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: 8799,83854,2305,6009,221458,440138
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6517,2591,54968,79133,3899,84572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9382,56919,4519,2798,5313,84342
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79731,5126,3066,55268,64788,373156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4982,6182,8678,89874,83884,57192
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26291,10991,7471,383,558,148979
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51181,3559,1028,1185,3551,1490
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29881,7941,6403,1270,81689,1524
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 617,3159,793,1075,55937,51206
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1282,3507,7052,5563,1514,51738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56606,10965,6716,10457,284434,10295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 148979,3356,2063,821,221935,151306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5071,3158,10229,156,29929,22820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26191,2786,1497,9104,81027,336
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5159,644096,79602,28234,8722,5860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4040,355,330,85569,5443,4669
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1646,718,462,11232,79585,205327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5444,3490,330,3054,65993,1337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2908,3991,2799,7076,23054,9498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 517,9575,31,131669,10842,9663
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2587,2308,5594,3692,11222,7275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4842,1786,3920,2890,9512,148738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7494,540,87178,868,486,2639
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 353500,6338,344905,10537,5805,2591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10269,1593,387787,64689,407008,4537
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1807,3115,3586,60528,538,4716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10020,9451,3030,84342,129787,5579
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23274,5787,2949,4137,2695,51293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10000,2690,2952,1019,1346,790
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80222,4023,7325,2717,4714,4319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29881,28951,563,29960,3559,886
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1351,2063,7347,406938,406934,4282
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4723,29968,152078,5213,3920,23163
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27089,729238,6383,55065,2260,1646
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6389,6470,3709,51052,7276,5241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5236,2235,8842,3162,91452,8567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81034,492,4700,1956,9759,1312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4056,823,12,582,3627,3312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3490,83693,134,6354,11213,101180976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2639,1629,6403,255027,10243,1650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3074,5194,2113,5507,4700,4712
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5236,170302,6774,5406,5330,51316
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 341,5092,6696,51083,53345,5261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1282,55630,105372280,7528,540,10333
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3480,3032,7428,3559,3712,80270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4968,4012,5286,406991,517,3357
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9095,114548,10730,2308,10116,84061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7078,640,57380,6576,124976,6868
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1080,949,125988,3308,4351,7325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3954,2592,5728,8841,1555,4887
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4040,10159,2034,1072,4128,2169
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51477,55937,2052,5275,4828,64241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22901,434,3030,640,3485,374291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85365,3065,493,113220,6897,285
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5092,6530,51094,2936,275,54576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2006,940,1588,4319,169792,8639
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160287,26227,479,952,23163,11095
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11231,128486,388743,51092,5970,53346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7428,367,2591,64900,8675,3034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4842,5367,2308,6901,407024,10524
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 790955,6317,768239,5255,53632,4137
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1353,1200,10686,7424,51,5365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7220,23389,7078,1595,34,4925
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3312,249,55970,256471,79776,4314
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 356,3627,4247,7084,5261,10642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5193,2243,4851,643181,11231,587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 131669,4922,5832,31,6262,5702
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2919,3174,364,100,3939,7019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2678,84340,2194,2820,1347,7287
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7096,567,868,325,866,3939
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 35,4123,2548,316,506,7345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2348,51478,1363,186,7036,6582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 490,3875,5313,5315,6616,6775
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81570,160287,5444,9332,11231,24147
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4915,219,6566,5239,151306,255231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 151306,1543,858,3483,54798,5498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2739,79796,1629,463,4358,5189
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6564,2947,4143,2804,2745,80331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2878,11255,10059,885,1636,3119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9429,2052,4760,5473,6472,2109
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3357,10116,140803,513,91647,6263
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3945,3358,63899,2878,4879,5188
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5122,1807,6834,3728,80267,27235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5860,7038,1769,2308,3356,640
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6566,6548,64788,653509,3157,1056
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84300,4598,1801,10094,55186,7276
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54539,8722,1208,256471,7292,51082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116228,6374,5571,64788,405,10616
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2998,509,7275,51604,55902,4285
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5250,3375,5184,151306,3552,84334
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 344,5191,56623,5207,11232,51300
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 138050,391051,2940,64240,292,4886
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6389,1234,23475,55065,91869,2987
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7350,6811,50484,5741,6470,4541
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2108,1559,3784,5184,9388,115286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2696,51167,9759,149775,4828,5261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80070,1436,7391,509,1371,2787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55902,7942,9066,6582,23054,111
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2890,949,6714,1028,4539,26762
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7351,177,11136,6932,7038,27235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6448,2581,5230,10423,596,653509
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2110,3479,60684,2161,3030,84706
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91949,6649,6774,5315,26517,7841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5442,9365,1471,1716,2639,4704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 389,4540,54901,25828,4247,1557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60684,1027,3949,2643,9997,6833
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8818,9474,9104,57215,4306,6462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23475,2798,10753,2516,2731,4968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3480,8710,5625,4537,8202,1798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3329,3065,124976,5741,2668,1340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23543,5832,1906,847,875,4860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8813,410,1022,23590,1559,2289
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
107.727 1.345 109.584
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.684 | 0.030 | 1.235 | |