Mustafa Erhan Ozer
| Snapshot Date: 2026-03-02 13:45 -0500 (Mon, 02 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 2026-03-03 11:58 -0500 (Tue, 03 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: 2026-03-03 04:45:38 -0500 (Tue, 03 Mar 2026) |
| EndedAt: 2026-03-03 04:50:38 -0500 (Tue, 03 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: 1339,471,2147,6199,9365,5646
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79068,10019,4853,9997,23163,126328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8564,10295,6517,7220,1992,9560
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7385,383,5792,6786,1813,1557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1493,6786,169792,9474,5447,3552
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4125,1401,1509,51204,55270,1312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 249,104909134,151,411,219,1586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3329,84987,9409,60,3066,6934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1606,768239,118,51004,2495,7026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5409,3309,4508,2328,85569,1022
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1802,358,124454,91574,1471,4899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3945,1327,5563,768239,7919,5257
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4137,4552,79944,387082,213,6445
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83439,3375,5499,50674,3460,6906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54575,54901,644974,583,11131,4609
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4760,4719,148979,5563,23543,350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11254,7841,51548,3712,859,6609
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 539,231,51167,7942,5770,4846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 126328,4889,407040,4357,89777,56848
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 265,9575,6387,79001,4878,3073
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28958,120227,5095,570,5345,285126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2100,152078,54575,9513,5191,3954
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2184,10724,858,57380,3458,2786
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10911,51738,5967,644096,5291,1678
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85569,22978,1277,7035,8517,5601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 389,7942,3170,3481,3684,2517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90480,5581,406,23400,2787,1798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9451,2628,161247,4536,9051,4056
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123263,3712,2690,7289,3284,3091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 345,10891,1646,6721,6860,51441
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7292,104909134,3990,1906,51052,2334
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5428,2788,115286,5096,821,22978
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10135,57380,119559,28951,5646,51119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57017,4128,64689,1718,6199,1757
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26503,10935,9332,51144,1019,249
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9526,253559,200539,28951,2542,2334
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 585,84701,3417,2516,56997,23395
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1583,55699,5730,26175,5447,686
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3098,100303755,80224,407009,196385,55863
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 37,54902,160287,92667,4842,64240
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 18,6721,4709,9971,29960,4843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26354,6531,2548,1348,37,440503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 346171,7942,2180,5702,2166,113220
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1675,229,463,5465,581,3953
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51458,2101,84062,7319,132001,325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 340024,2235,1650,56848,5126,590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55753,5730,6928,63931,2778,2992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6890,2052,10116,7056,4851,10524
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3507,35,37,3485,7386,2678
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9759,2934,5629,7319,407006,1509
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54798,1019,53335,5571,22978,6470
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6329,635,652,6715,7057,1584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9607,2690,811,29929,6009,627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4724,7098,6579,5832,3383,7390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2937,55967,84447,3117,1594,3995
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5369,353,10020,10013,6834,516
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8678,284184,3482,2697,27232,83733
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22797,3490,100303755,116519,487,1869
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5740,4716,9498,1584,150,1021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10019,10165,57380,3952,186,5723
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4256,4889,5770,406938,2548,142
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 795,116931,406937,6908,1281,51649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3553,886,2495,57678,57570,9759
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11213,617,10466,51300,6248,6198
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6329,7225,5621,4049,64919,1436
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4744,2762,2791,4247,84557,89866
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3460,388962,655,2820,5291,7018
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10000,6357,89874,5365,5080,57017
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23291,2990,2790,1555,10577,1644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51738,3060,6492,1950,6392,92483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7515,7407,440138,1555,513,6530
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51167,2949,57176,4351,4694,6569
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 768239,1028,2055,200205,4720,255027
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 38,1992,7480,8841,3065,23054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1369,338328,100506658,51548,1606,1738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11096,7098,1393,8675,57215,51176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2934,2303,686,54902,25915,26235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10333,57380,5621,4513,2592,26088
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23236,6519,4976,3553,6319,9420
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3054,958,3383,9560,1555,10013
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23411,53335,406991,1606,9056,3773
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6928,6908,406913,100130015,819,3562
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 152926,5563,57817,7841,10000,929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8050,23753,83693,2785,316,132001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6513,4669,9241,4233,4704,8651
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4744,121268,2712,4544,9507,153
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4669,54896,7450,1392,7048,6609
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2334,8879,6770,6009,124976,5792
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4899,51316,23395,92935,4548,5625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3554,8854,7172,3570,1489,162417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5189,241,10,25839,2632,2170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23600,26088,5189,2158,11093,4669
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51441,2731,1607,653,9104,156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 355,1595,54331,3952,5275,7096
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2934,2052,3562,3703,2947,875
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1910,23516,2949,54205,1019,51601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 410,5192,5644,6929,491,7076
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3638,539,5644,6571,54577,6774
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85479,3703,388,81034,80070,6927
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 842,1394,79587,1555,6317,132
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133522,60,5080,4988,6571,2992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7386,6908,26517,203859,4541,55034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10580,4012,857,516,84572,2697
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4535,4843,118,57570,2159,5617
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4656,5069,10524,1186,5365,4012
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 155,92935,4543,80331,387082,157848
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1374,7376,28951,2308,57620,189
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5901,407006,9414,440503,2052,462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1369,8678,5207,471,3312,2845
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57104,7471,4544,64601,26503,10911
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3712,51081,133396,9140,51167,9779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4855,7916,1392,6470,3949,4709
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
62.315 1.833 64.294
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.721 | 0.028 | 2.053 | |