Mustafa Erhan Ozer
| Snapshot Date: 2026-03-12 13:45 -0400 (Thu, 12 Mar 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 -0400 (Wed, 29 Oct 2025) |
| Back to Build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-03-13 11:58 -0400 (Fri, 13 Mar 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" | 4892 |
| 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: 2026-03-13 05:06:26 -0400 (Fri, 13 Mar 2026) |
| EndedAt: 2026-03-13 05:11:24 -0400 (Fri, 13 Mar 2026) |
| EllapsedTime: 297.4 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: 5160,1186,7916,1281,4720,5288
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7098,79633,1356,10466,10857,6531
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9091,54552,1028,4828,162417,23062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2713,56945,940,241,3373,4351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 405,8877,5444,22901,4123,7248
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4541,10059,7289,208,493753,53345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4311,55486,79934,57511,1277,5211
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 191,1718,3099,79133,1734,100303755
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2572,7466,91574,5962,376497,538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 409,4508,344905,4539,761,3065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51241,868,24147,3295,7172,406913
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1497,3710,549,48,201305,92483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2592,5071,3113,79783,5241,8517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3082,6932,8710,492,19,23600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7287,55644,7942,26291,6948,1352
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3119,27089,10243,1394,166785,2119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407006,7347,7076,2702,5588,10466
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79144,84274,7275,83693,2934,23038
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10333,4351,2702,26191,54549,1588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 142,10911,4319,3576,5971,1906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4889,4149,4967,10166,10644,57761
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2155,4232,90580,55818,6522,3630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91647,2629,57511,5176,694,181
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 635,5601,6519,664,9575,2639
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3624,6770,9607,6009,5538,7421
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50507,5832,8803,4519,6338,2740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3074,10062,3636,81689,1678,586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57104,221935,3339,3250,5096,517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2118,6934,9388,388753,4128,825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2110,3759,6602,8050,53905,51021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5213,1409,29960,25813,8945,776
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6476,91574,6530,116931,54901,241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3066,1182,1351,3759,6329,567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6938,2592,486,345,26191,374291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55486,8722,84317,79144,1869,57380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116519,5071,406938,5350,56302,5468
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8431,24147,2146,1346,10135,7471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4942,8942,7391,105372280,2395,23462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 728,2590,3119,11231,10580,4779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4318,6263,130589,1175,2875,3054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 115286,133522,84705,6505,7048,2571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9382,359,407004,79661,407011,490
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1950,4669,3930,518,255231,137682
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7056,152078,3709,407010,348,11131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55532,8564,4720,4015,590,200186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55902,5476,83854,6584,2876,5447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1734,27429,4537,5409,5743,2638
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3382,7287,54600,55331,5599,5781
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3304,221458,57104,63892,54809,629
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4318,551,11035,6584,795,158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6786,1230,7275,1471,51300,27239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8660,3717,4719,1992,1363,9056
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 644096,3920,656,100128525,6789,26275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4313,407008,1641,3073,285126,3145
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6999,93587,89874,7167,3460,30061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51660,6788,3290,1201,4976,205327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7287,6351,2063,1737,162417,10135
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51608,54704,8665,6774,1234,9997
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3145,4709,7480,4668,55967,197
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 212,2146,284958,407008,4311,2332
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255738,51204,353500,153,8842,959
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4627,31,3630,3945,3562,166785
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80331,101180976,6462,4537,6548,5740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1571,4524,7037,6932,6860,9663
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8195,5727,54806,4713,51441,860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23054,840,9429,4125,6649,3113
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5239,4716,5161,4887,2888,91942
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5972,51176,1641,1812,2629,2006
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9559,84889,53345,2590,1789,293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5442,132001,7355,1968,4137,231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2280,539,84947,2243,1409,5192
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 63931,3062,5447,4035,1769,8660
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123,157848,821,5590,5139,1634
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 339,1369,2745,1859,8722,518
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54106,200205,407010,2845,48,23474
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51128,586,768239,5228,10226,51241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 513,516,518,54331,5195,5126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169792,4846,134,538,708,9380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2146,9409,56052,26060,10938,89866
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2690,4860,5105,10062,3685,9971
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10724,5091,5901,221458,9575,6721
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51601,10686,166785,10857,79776,50506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8309,104,22845,2629,5925,54331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4704,3939,6324,4552,6804,4299
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9420,6462,3030,1369,283459,10559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 347687,383,3416,1019,6932,509
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29960,4744,2864,1347,4720,3551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50674,9095,85479,64805,2166,55331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2334,54344,8050,9021,1672,5792
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6948,1345,5345,79776,1843,51458
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80339,111,6794,654,5295,4922
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5096,2689,92667,4144,133522,5740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 686,113235,8675,3172,875,55268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 840,3033,718,5825,118,35
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29880,54915,5629,10135,4535,50814
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10686,2639,6648,181,1646,23395
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406922,7295,3099,10062,2629,788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6928,10243,8660,1186,4967,84274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5830,407008,6789,567,5372,54476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4247,2101,7471,348,4720,51478
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5328,6898,4700,5837,346171,27125
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4726,9380,11132,54805,6901,109
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8309,3060,1376,5256,7450,51024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 405,29947,5629,2628,5250,151306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7038,51083,2064,728294,65080,3283
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407004,23556,55818,6554,84701,1591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6357,9945,4023,26521,1353,113235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54511,54344,8567,6382,1544,4056
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6448,2947,3077,7325,5105,91949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3569,10935,5268,6319,51144,29958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1232,2280,6583,57192,4598,1436
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5592,2835,11035,1543,1075,10533
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
62.349 1.971 64.455
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.720 | 0.026 | 2.031 | |