Mustafa Erhan Ozer
| Snapshot Date: 2026-02-12 13:45 -0500 (Thu, 12 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 2026-02-16 11:58 -0500 (Mon, 16 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" | 4889 |
| 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: 2026-02-13 06:12:34 -0500 (Fri, 13 Feb 2026) |
| EndedAt: 2026-02-13 06:17:31 -0500 (Fri, 13 Feb 2026) |
| EllapsedTime: 296.4 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: 55699,283120,6515,9927,1393,3417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51052,1493,5188,6927,5728,109
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51300,7084,9607,4524,22820,113235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5230,406947,55644,5095,788,53346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6464,6324,471,1489,57586,28951
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 440138,3358,125988,406,57085,3251
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3417,2118,4718,9420,5367,9968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 170302,5860,3990,2348,7018,51293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84833,1277,51004,2542,26119,3630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3073,9429,3670,338,1282,4758
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2572,23038,6571,229,868,4040
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7038,1361,54809,2990,55750,8050
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2950,435,4544,8722,572,25974
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5970,4724,26119,7389,1798,133522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4887,4089,57678,128486,516,6317
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4306,6576,10000,6505,4149,2740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2731,4968,3708,181,3312,4306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4855,51117,29960,84275,7038,6554
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 12,11213,8842,7025,5367,2710
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4688,5126,585,5442,183,9066
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26227,3156,2584,27329,1394,1230
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6198,7407,4144,4719,8202,1499
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7052,2984,285,868,10842,4502
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5713,4512,132,2064,6517,1737
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5723,51021,5743,9474,1738,29947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6821,347,5625,3953,5617,9526
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 471,596,2639,5350,8473,1606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7035,5507,2788,56302,64689,10352
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3795,3899,28957,10874,255027,79602
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1802,23038,5122,10379,80331,2243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1718,5702,23236,1589,23062,4513
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26275,55768,56938,4537,29929,1230
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1468,5741,3082,406913,6472,196385
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 432369,255231,2948,6403,968,1392
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51293,10577,7942,25839,1675,23410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2108,5445,339,2166,1859,1583
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 125988,2904,84902,7030,9945,2740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2745,55486,2591,55343,3784,4319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6519,7412,6794,9365,4338,7025
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29881,1351,411,463,3692,373156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 506,2932,54806,101180976,3115,3658
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2180,3425,84833,56997,5275,10116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5468,6928,29929,79602,5122,2762
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55644,219,3240,3710,1645,3791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7942,2161,5161,407004,8945,5328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51128,5228,844,29926,3357,2950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493,1277,131118,10,2683,23474
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1230,51094,3645,11096,51021,5265
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8675,79934,6834,3553,2752,22797
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6382,1352,2903,200539,6521,1369
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 111,9868,694,79587,55283,2169
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2348,166785,57511,406913,79587,3099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 326625,253559,5406,2695,6556,5122
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4566,5330,255738,361,4922,4790
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2628,760,6351,25839,11112,5507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27010,3283,2762,9051,5069,55331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10116,1892,26003,596,509,729230
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4049,5515,27249,1268,25915,119559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2572,23590,2194,5563,123688,22978
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79133,27249,8087,407045,1312,1443
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2678,2587,29928,26060,84300,112817
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169792,10221,79736,54331,200205,407010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56999,10195,3030,60,440138,8431
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23062,435,836,8195,149461,2110
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8087,9663,6389,506,3948,145264
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1075,81027,1394,10616,29926,6569
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1608,4879,57001,10999,28234,860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23409,407021,509,55034,137682,8932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1208,25974,84902,493,7916,253559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9560,401,89778,6571,1499,2787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64801,54675,664,2947,3978,91574
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6383,2119,10135,5741,6906,4508
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3559,617,56999,2888,7036,7412
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2896,718,7097,8202,57620,6445
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2590,3091,2702,2260,440138,407004
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5188,8651,28957,1371,2992,3708
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6439,2593,284434,3978,596,5428
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27010,3958,1992,51176,1443,151306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54809,23274,644096,2717,53335,51
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1028,183,729238,2115,5192,8243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5805,169792,285126,4312,50943,79736
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3645,100506742,2950,64241,6182,3703
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3358,409,3627,653509,116150,2845
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79934,2752,53345,5644,4790,54806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6521,3930,2548,2147,6389,55670
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1893,80070,113220,7319,79644,56997
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91647,27089,4853,8087,54576,1815
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 353500,3709,949,4976,2305,27239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 105372280,2184,2678,8202,2784,64131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5257,3710,4976,54205,2161,55065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 632,5321,3554,2334,1950,4887
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9919,79587,10965,6868,53335,79949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 858,64801,795,133522,359,5515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2632,1394,8842,118,2888,847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10102,5069,93587,842,3712,10269
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2984,3934,84701,124454,1353,846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6932,409,29881,959,56729,29843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55768,664,53905,728,5644,3416
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1393,51081,8818,594,6609,1585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5265,2746,9451,490,440138,3920
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8471,1185,8659,6616,1489,3117
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1353,3667,10269,359,9575,63874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55970,2571,3949,1629,5498,4118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3141,186,3339,728,10159,197
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51316,3157,23556,627,51092,3156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1347,3934,1716,6403,6789,1329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3703,642489,7515,650,132,2762
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1645,490,2109,10020,4128,111
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123263,7292,26354,5126,6531,1801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 836,1906,79001,7919,57107,123263
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3115,23054,5321,7082,79087,3308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1646,582,1497,2647,54552,6009
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
61.912 1.441 63.491
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.654 | 0.031 | 0.863 | |