Mustafa Erhan Ozer
| Snapshot Date: 2026-02-16 13:45 -0500 (Mon, 16 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 2026-02-18 11:58 -0500 (Wed, 18 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: 2026-02-17 05:51:40 -0500 (Tue, 17 Feb 2026) |
| EndedAt: 2026-02-17 05:56:41 -0500 (Tue, 17 Feb 2026) |
| EllapsedTime: 300.5 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: 7036,10243,9380,2597,5972,7124
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56652,1361,7384,9498,5837,64801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7376,5473,5828,5618,8567,10019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5824,125170,2157,2203,51176,1075
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51241,5078,100,4056,8772,6464
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3708,10157,4825,22978,4012,3157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4700,160287,11096,142,8431,407011
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 694,3425,2694,5901,7275,6390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3329,89778,6554,80347,80070,51079
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1071,29929,23400,9759,64240,56945
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8945,22797,567,10059,134,9370
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1737,4713,51601,1355,5581,81027
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 345,4967,5476,27010,5744,100303755
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5328,28234,92935,5579,83439,7036
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203,7384,64131,6535,407045,92935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7076,1803,84706,6716,6462,2309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55278,5019,5789,137994,32,125170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 821,2180,728,6821,26119,51094
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8772,85476,410,3988,6566,57192
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57017,7350,793,9429,5551,325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27344,3692,664,5162,5313,3759
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1737,836,4720,3033,4513,4547
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 155,2588,5095,6182,958,10857
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2805,50484,57085,35,2864,4149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3308,2731,2903,558,5444,2495
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4709,51649,5447,6517,793,3418
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5741,64919,2820,1185,79783,2720
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160287,26291,3060,4548,9572,3630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5832,517,1909,6391,5313,583
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11019,4566,6009,18,388372,7099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338328,7018,65993,2052,629,2064
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 599,6550,6934,57176,2100,23389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 373156,23417,10352,9607,8665,406906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1606,3091,1491,5364,8803,285
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,6579,761,22820,291,3952
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4337,2260,7052,7515,1789,64601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7225,8517,1591,54806,5213,83693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 761,197322,5214,2984,538,56052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9180,9365,2798,1353,268,3773
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60,64240,1373,2006,8659,7292
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2109,65080,2890,3795,570,10008
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51103,293,6794,4828,2628,100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11231,1650,3586,9241,5080,89777
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2194,9445,427,284958,6505,53335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5096,113220,1443,1442,1182,6772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406938,154,4656,9498,388753,64432
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1356,5257,7077,1201,4247,2845
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 656,23600,253559,7098,7431,27232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 186,9388,2328,406938,2647,284184
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10991,4306,23129,6530,406991,2950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8600,6929,2919,10243,2119,216
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6616,7352,48,3291,821,1889
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55788,30061,6898,7132,3117,91869
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91949,84239,57817,6932,8862,51181
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56919,100130015,3945,81034,5832,434
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54600,55863,28234,729238,10059,1348
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91574,4089,25974,123263,5740,137682
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26175,629,1608,2790,4728,6472
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 516,9051,51079,586,2335,213
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5830,85446,7019,4609,3158,27329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9474,38,1356,6938,6794,3712
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 694,498,2778,11093,52,3423
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10466,4744,5443,9429,3329,6392
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3077,5373,54798,308,4726,7275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83439,2101,5161,51458,9969,1329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4118,56997,54809,9056,79087,5919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79944,3145,5972,642489,6519,407008
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84769,1815,51085,50484,121268,4715
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6888,4540,3598,1650,824,5507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84239,2903,29880,570,84275,688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3062,157848,4286,6338,9663,6716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 18,113220,6536,3920,8660,7385
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8694,1363,27239,3159,686,3425
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4149,79144,29960,25821,4513,9104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4358,104,1645,51021,54331,7376
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 867,4843,10533,4853,89778,10159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1234,5213,1524,3242,6770,64900
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9414,114814,3291,4318,8604,57048
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7471,90580,57761,113235,406906,10999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2717,493,4654,2243,64801,54577
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6748,5069,3624,51024,217,406982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79068,338328,6554,1859,29880,10159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64689,5295,5476,7078,79633,4311
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10524,1312,4712,5473,6929,7052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9370,6319,10159,2247,185,5409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4760,111,80222,7124,58528,3482
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 348,134,406922,79934,4715,347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51117,9104,256394,27089,3440,2940
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27329,4153,8639,57570,1361,407009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 24147,643181,885,9365,4715,3670
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1318,10874,2517,1950,7372,3643
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2878,10845,7424,134,2584,54915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51082,84769,3174,6263,11255,3119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3952,25839,2890,1508,7381,2746
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8722,7035,84701,539,2034,7494
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2516,51079,7054,64801,185,488
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5444,79661,5571,100303755,6550,9382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3087,256471,133396,9409,50484,1584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80224,3489,10135,8243,1543,2538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1789,5286,221458,79158,85479,55268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3295,7385,154,374291,308,5264
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79001,54567,197,940,407024,2791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160287,29947,5161,3728,11231,4357
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2593,197131,840,8714,3990,587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 48,4548,24147,55163,4286,2944
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51604,79602,1361,149775,3251,2100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6569,29881,4878,22933,7879,551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4843,5834,10730,5327,4925,2767
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1716,4825,5592,90865,477,487
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10295,498,2919,2147,2572,35
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 549,3087,8854,3670,121268,26354
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23291,5329,7248,10062,4125,347
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
62.283 1.224 63.637
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.673 | 0.032 | 0.865 | |