Mustafa Erhan Ozer
| Snapshot Date: 2025-12-11 13:45 -0500 (Thu, 11 Dec 2025) |
| 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 2025-12-15 12:05 -0500 (Mon, 15 Dec 2025).
| 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" | 4882 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4673 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4607 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4671 |
| 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 | | ||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.7.5 Ventura / arm64 | OK | 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: 2025-12-12 05:32:19 -0500 (Fri, 12 Dec 2025) |
| EndedAt: 2025-12-12 05:37:20 -0500 (Fri, 12 Dec 2025) |
| EllapsedTime: 301.4 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: 51241,6248,842,824,2115,5967
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4851,3938,10400,3638,1072,11035
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3710,1968,3030,6383,11136,2638
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3569,80347,3483,2948,335,2052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3930,54476,4724,434,1339,7320
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53335,2693,4313,338328,51103,8678
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407040,54331,54106,255738,3930,84833
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91942,50507,9445,2169,3673,51548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4149,2688,5551,2940,112817,3600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100506742,1591,11136,27232,348,6901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9131,1594,1080,79736,197,650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3418,6445,952,5468,5277,3482
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64240,844,9507,175,5191,2990
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9140,2791,5211,11095,3813,55065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50814,3082,3992,3570,7471,28958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2266,51024,2180,6531,23054,353500
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5660,6948,2334,7052,3717,54901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27429,63874,79783,212,25839,3703
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51116,90624,8854,4878,55902,330
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3066,6390,8818,55331,119559,5447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5214,54539,8604,367,124976,2348
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5291,292,5313,8660,585,114814
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8604,7351,2798,2597,2309,4508
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3416,196385,4716,11232,3636,5824
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 126328,5175,90624,1175,11232,496
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 376497,64805,54798,4256,6248,92935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 48,92483,7376,5161,175,5345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84340,6938,7248,6775,5159,11019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 788,6357,5167,3708,1734,2155
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 151306,9380,5192,6716,284654,9779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4842,3157,498,27089,6382,26517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4694,9607,4159,2052,5313,5194
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5195,10842,3643,2653,492,4358
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4035,406938,574447,7841,1909,3703
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91452,19,65080,3065,5580,6317
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2335,4860,2166,1950,5286,23389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57128,22797,23590,79934,4714,4899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 836,52,4669,229,2548,56922
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6472,3283,83884,5250,6341,7084
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5798,2875,212,5592,10379,1022
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3712,654,7385,4846,4976,10116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5071,55818,801,292,5551,55699
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169026,55005,23274,2332,285848,5727
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9076,7422,23417,6391,208,1352
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2593,8560,5730,23129,2152,83548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 325,1075,729238,8309,3091,2799
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1270,8651,7372,10682,2266,1605
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7390,5192,5563,5730,596,9167
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51649,211,1859,4540,284958,79053
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2119,10008,6582,23409,4714,860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81034,51079,29928,795,55630,3141
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51181,3170,7124,3717,2108,3813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 440138,7056,2495,3291,1339,5195
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6324,104909134,83447,83854,5009,1645
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 567,3557,27344,5189,5162,10891
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 886,1738,5919,50507,3931,1282
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1815,3992,26003,5595,1728,64116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3357,1056,54798,10580,3670,28976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60,795,80222,407045,3600,462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 358,81793,57001,2653,1806,5189
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5792,3980,7466,2166,5365,63874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2788,4973,53905,284958,5644,7388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51660,153,3123,6788,53335,9370
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2119,84693,6391,1468,51555,2235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 150379,64601,7082,1029,54896,3507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10019,90480,5925,6602,6374,1594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2146,84987,2876,2147,356,942
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 101180976,407010,1869,134,6338,91949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5275,10226,3141,241,2194,8694
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 125170,2683,582,1581,6821,3930
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3557,26003,650,351,3773,212
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10226,493,5321,63892,3098,137682
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3565,5781,7057,8841,335,22901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 506,2184,3123,11131,1149,285126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25974,51458,10243,9241,2475,128486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7355,2693,9559,2762,54896,51021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57048,35,4729,3030,761,169792
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388585,91949,54549,124454,406906,10935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4338,5162,513,6472,4035,10891
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5629,1409,655,63931,219,5176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3065,57001,23236,3703,2063,3663
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83733,5551,821,2702,54982,54806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1672,84572,5962,128486,4153,10682
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3598,427,25828,1277,2712,506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2678,760,6439,29929,790,538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 344,210,133396,6789,348,3767
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 89874,54600,5195,3074,6531,640
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84987,116931,3065,80347,1558,860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 652,344905,1803,940,4780,25813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4023,10999,6535,256394,56945,55270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8694,2760,9420,2888,92935,4758
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8862,490,7319,10221,3875,84274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 265,6352,2702,407009,6928,57107
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7225,3553,5967,1436,80331,2713
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54968,2030,2639,1769,5789,728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8431,64805,124454,5476,54552,1491
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1812,5830,23410,6715,26354,9474
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51079,2778,3483,585,2944,325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6354,4899,3060,79731,1442,1340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2984,6390,5192,130589,9445,6584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5468,2677,63931,5091,3250,517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3773,2006,169026,128486,3312,2592
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 779,5501,5207,10243,83439,10457
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1594,3673,81704,2155,2642,10059
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11232,112817,22978,9104,1636,11136
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10000,56938,89874,3551,9507,84334
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9969,9021,205327,2591,361,84693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83693,3670,79731,221458,374291,2335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22933,4126,5071,7376,1812,4535
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 348,6554,10524,1950,54576,10008
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4887,5588,644096,4879,54675,2100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6248,2919,4713,113235,211,84557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 109,4668,5499,1318,11255,5264
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
60.869 1.002 62.094
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.714 | 0.048 | 3.904 | |