Mustafa Erhan Ozer
| Snapshot Date: 2026-03-06 13:45 -0500 (Fri, 06 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 -0500 (Wed, 29 Oct 2025) |
| Back to Build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-03-07 11:57 -0500 (Sat, 07 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: 2026-03-07 04:59:27 -0500 (Sat, 07 Mar 2026) |
| EndedAt: 2026-03-07 05:04:27 -0500 (Sat, 07 Mar 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: 92667,83884,6564,1634,6522,1442
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57128,866,2184,326625,5919,28958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6550,1019,15,2984,942,27344
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4544,9076,866,387,57192,116228
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5315,5277,6342,79776,6352,1444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2063,407010,336,57761,5330,114814
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5193,7421,1548,8945,115286,6715
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3875,64801,51422,3251,518,50674
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 842,2697,54549,948,1393,1593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7390,2638,3569,6402,4915,2158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2108,116085,3155,5195,1339,7498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83693,410,84987,7054,7450,440503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5601,7471,2694,1591,3934,84557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9370,10008,189,6402,26060,406991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2678,5052,8408,1950,3284,3598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3630,56919,9076,3991,1890,148979
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 19,4697,6554,27010,1769,133522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4540,6550,7389,7297,2200,6505
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5579,85569,92483,65018,9380,54982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2643,54577,383,7295,7167,19
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 157848,178,10857,147968,5498,124976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 348,406922,1950,570,4288,10379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3953,5467,51103,1557,3351,5465
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5830,858,56938,6513,129787,3141
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7084,51024,53335,1803,1601,26275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7407,54658,2147,6535,9969,1608
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1992,432369,3156,6318,51085,6696
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54575,81689,4704,5799,5192,239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2590,1318,4311,3479,284958,5092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4709,5370,6356,3357,7056,57511
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7494,156,4314,5052,768239,486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 132,25828,6236,7289,2791,84902
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6927,4712,56302,2280,50814,2118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 19,2998,79934,2629,847,373156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2694,9167,4704,2785,7528,3091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79602,2677,255308,54576,54809,3486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1543,4000,85476,7409,2158,7076
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 153,3673,55970,25839,3032,1175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6898,487,1508,284184,10533,7409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3091,3638,567,1369,793,1558
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2949,54106,407010,2876,8087,391051
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4543,11136,2642,2335,3920,5052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10000,7099,87178,387,253559,64919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51477,6938,84769,1340,134,4247
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79796,11112,113220,1728,63899,25821
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55699,4723,2947,56302,51611,3351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5275,1737,823,80331,2641,10537
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6927,1175,266,6357,4729,124454
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 265,463,7471,3418,8504,7097
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5313,10195,6356,3489,1649,5825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6519,85446,4299,685,5445,54539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84061,51081,153,5728,2702,1634
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7389,2690,51300,7424,1327,353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388753,5972,406906,53346,18,51103
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1595,7428,10991,388753,6890,55037
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3155,6263,407011,81033,1071,7355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 585,4544,87178,6647,3155,5507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1369,6811,384,27429,84447,4726
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2697,51024,388753,490,186,18
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4853,6584,8675,105372280,1634,376497
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3423,63931,19,4040,1645,84705
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79001,5444,23129,54577,93587,407004
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 718,54552,84572,3670,3899,83447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5329,5584,407021,10841,27235,51117
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22797,7471,4780,56919,162417,5860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7480,3156,91574,5971,54806,3087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6341,134,1807,9370,6182,7372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 627,5702,27235,7428,968,8462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1757,1390,9415,6648,2932,6338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91647,2820,968,344,2590,284654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2348,55278,64241,3958,22796,10730
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6948,3783,4915,4232,3162,3119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10999,5832,5327,80207,4153,64805
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1376,1906,10008,5970,2244,6402
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51601,5286,2632,10891,51300,2653
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3692,5364,140803,3685,23163,1489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6535,11132,1347,6714,4668,6811
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5579,10116,3931,3329,3373,8648
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4015,3358,5428,498,345,84889
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 336,627,5445,685,3552,5745
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9054,4512,8803,4524,2752,4318
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1361,538,84649,27247,6775,2739
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29108,2538,26175,25915,6602,51204
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6602,3673,1812,4508,617,2155
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 374291,1028,8722,55037,6648,5256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6927,1471,643181,2305,133,55788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9414,80207,84557,406,54331,8714
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3304,5787,84769,2629,79602,4049
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23054,7450,3174,7019,6788,2762
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2053,6522,255027,9479,1208,9607
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 256394,105372280,7428,8854,1634,356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 149775,8854,7292,7320,4925,26235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5291,10559,64601,2908,2642,7916
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6890,790,57085,6338,10682,2653
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1718,5594,2118,79087,9021,84987
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4552,111,1629,7498,1345,5507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10466,3507,445,116150,5702,3684
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8660,7295,10580,1071,4852,949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5286,5745,56652,4729,8202,84947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1621,2689,7037,90624,8772,326625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1968,2158,3485,10841,6774,51548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5409,6261,551,2034,4313,587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5228,590,2335,341,1508,339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6715,83733,2950,4886,151,5096
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 572,23411,868,9056,1029,7879
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6774,4843,1345,9560,1409,5257
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1675,788,2998,151,1571,55037
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2597,3242,6383,3170,846,811
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 653509,664,8642,7841,84300,2847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3875,2790,1080,57678,7450,8799
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5175,292,6389,57017,4357,130120
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4089,3250,4669,26191,4015,6009
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
62.702 1.723 64.617
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.653 | 0.040 | 0.839 | |