Mustafa Erhan Ozer
| Snapshot Date: 2026-01-12 13:45 -0500 (Mon, 12 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 2026-01-15 11:58 -0500 (Thu, 15 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" | 4886 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4672 |
| 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. |
| 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: 2026-01-13 05:09:39 -0500 (Tue, 13 Jan 2026) |
| EndedAt: 2026-01-13 05:14:39 -0500 (Tue, 13 Jan 2026) |
| EllapsedTime: 300.4 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: 5122,28957,51204,7026,6462,4000
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7026,7287,79661,7390,1029,4723
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2950,3645,4654,2919,5787,4718
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2584,4654,2647,4159,5321,10157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388372,50484,3329,4502,5315,80207
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54901,492,147007,4594,4056,63931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200539,506,9180,64689,2147,6182
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10195,79087,2591,2835,2740,10295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4000,2597,25839,1593,91574,1234
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3636,114814,4988,7025,7450,5601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3119,23474,3929,3240,50507,4286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51601,353500,406906,336,158,4899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9526,10730,353500,125170,23163,285848
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388962,407040,8678,4744,5068,158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54704,1493,84701,3159,3113,56945
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64131,125170,1636,3242,51094,1992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2845,23163,114814,1645,54902,586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55937,2762,55902,7390,8408,5579
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 440503,3958,56922,6351,539,83439
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4973,6382,90480,100303755,868,867
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8408,1369,6198,3062,11035,7436
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1351,2590,1672,80224,7347,51555
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7275,7436,84572,51477,104909134,8675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79949,5792,2115,10842,583,51099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91942,5091,4519,3356,5080,627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2200,4688,51119,490,7355,8877
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10841,347411,2697,3645,3062,1798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26235,7471,5588,3600,81570,5901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 275,6890,79144,51478,2767,84987
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5950,111,1634,6402,1806,63899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1678,57107,958,100506658,229,2055
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2591,9429,22797,4541,23395,5970
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3700,5792,10667,2740,3978,9575
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79068,5373,5515,3417,4000,1394
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7345,54805,2053,51608,2169,4889
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1327,6616,2169,367,1361,5256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2588,56922,3709,6678,2806,1508
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29960,56652,440138,55572,7471,2487
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8408,4137,6387,57380,18,83693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56652,19,5515,5291,57818,4338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 325,6329,54600,2998,2950,1390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2538,9474,3938,1244,81033,92483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9370,5745,5501,4000,3054,1116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 708,1605,137682,1230,1910,3551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 239,10559,83693,6584,55331,55753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23600,5618,80331,29928,593,80222
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57128,4056,1608,308,60386,1075
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3339,348,3952,285,53632,7345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56999,1801,27125,2835,1390,22796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6609,1490,217,8772,353500,54575
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7056,10686,27235,8659,3065,2784
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92483,2034,7018,7030,53346,156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2243,2628,3507,5830,91452,1353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3784,345,268,6583,7498,51092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4513,23054,7355,51441,2110,26119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51081,867,2629,5139,183,5257
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 540,1347,283459,5660,55967,6515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2875,653,587,85476,471,268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3065,51103,10059,54600,353500,23590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56052,241,51103,1869,3375,1769
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 177,7436,5406,1072,221458,768239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57586,4723,23462,570,200539,51204
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3490,23556,2936,2539,6715,5286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2710,23590,26227,210,7528,4541
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 694,84705,201305,4853,11131,55967
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84557,221935,7351,7319,3554,126328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 285848,5207,9414,2587,6898,2804
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56922,85569,405,3032,440138,10938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6582,54106,10616,197131,4724,10226
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7048,9374,790955,1318,4128,55163
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1737,80222,2170,5346,9180,2788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11132,1593,131669,3383,2632,551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2820,3700,1786,54805,3060,5741
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57380,406947,2638,7428,51085,6536
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2919,9927,9180,7498,80222,6891
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 387082,6821,84706,2992,4508,1373
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2798,6571,3172,1769,1968,55340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90480,1182,6794,1080,3708,7421
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27329,2695,55486,121268,10221,23400
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5837,2628,788,3934,4724,1803
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2646,4758,2984,10062,6383,1277
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2100,3458,89866,148979,151,5498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7355,3685,54806,5009,4803,8877
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57570,4000,5092,51,197131,952
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51206,23129,1544,6536,2109,8722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5268,440138,57818,80267,11222,7325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7350,6351,10642,80207,56945,3030
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22820,7385,79053,266,197,137994
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90580,54576,64801,83884,5467,2591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64601,4705,509,54578,2280,55163
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 949,6183,4118,4537,5836,4541
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 706,5293,1277,407008,4306,6616
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2947,2108,2791,3930,358,24147
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4726,3060,358,56302,221935,1312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3553,7096,492,51116,6927,9759
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 229,84902,3033,3673,10243,23410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 183,790,1075,79053,63931,1786
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2516,5350,885,26521,50814,60528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3507,2538,2629,6556,1352,2280
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7916,2904,4537,493,55037,596
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,26354,4942,5236,1644,6868
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 162417,1737,221458,9868,3606,10524
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 249,2948,55526,239,6602,3507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23600,5830,4683,148979,54658,8772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79068,203859,2571,8932,540,84275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3054,25821,51293,81034,55186,3157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5193,100303755,3099,7019,154,5625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 131118,2348,54552,23175,9056,7436
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407021,54552,7052,51660,10165,149775
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5188,389,1557,23474,26060,4968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1889,8408,1339,9380,5660,387
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3240,3980,7167,2890,6356,8675
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
62.583 1.243 63.959
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.674 | 0.041 | 3.767 | |