Mustafa Erhan Ozer
| Snapshot Date: 2026-03-27 13:45 -0400 (Fri, 27 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 2026-03-28 11:58 -0400 (Sat, 28 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" | 4893 |
| 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: 2026-03-28 04:31:29 -0400 (Sat, 28 Mar 2026) |
| EndedAt: 2026-03-28 04:36:31 -0400 (Sat, 28 Mar 2026) |
| EllapsedTime: 302.4 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 24.04.4 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: 118,10102,5551,60528,8659,57128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4598,3995,10000,7124,25974,253559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2776,517,5286,5268,11136,790955
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6318,1118,6789,9091,5019,3692
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4744,5189,388962,29078,4089,7275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2990,7390,6811,84701,3773,2992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3978,2890,847,353500,22901,1716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 685,359,3122,2845,23054,205327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3098,958,9374,4889,63899,406982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4541,2542,2113,154,8243,6811
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10753,1268,3358,5236,2157,7284
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 33,4704,25821,2904,581,7132
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6718,776,51117,4668,6248,6531
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116150,338821,51081,2309,593,84061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1815,2155,6934,5052,4358,6649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2642,3032,5330,2152,3034,407021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8431,6932,3115,160287,23175,1555
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4256,347687,56623,85365,2645,5919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5745,201305,25915,265,5092,239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 686,1508,9971,196385,104909134,80267
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1118,4879,650,9969,28957,5447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1869,79796,7386,463,7879,493753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7048,1557,650,2063,3651,1491
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5970,3145,10159,4012,2113,7351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3958,5230,8564,137994,84705,113235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8818,2653,55572,64919,55967,2582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1345,5213,2805,3034,2689,407024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 490,6891,30061,56302,345,355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8202,4144,8408,11222,6009,5184
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7274,1270,6860,1029,339,9104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57380,5562,2590,4548,1717,119559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54576,4879,55283,54106,3559,551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6470,213,65993,406938,149775,285362
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10423,56652,4338,22852,7274,22933
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6576,7385,583,7428,23038,387082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9370,221935,728,51206,2731,1072
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7284,26060,5579,84317,55768,54567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5069,23062,87178,53335,162417,6772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6583,19,10841,8842,7019,3990
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 158,4723,56919,1802,11132,25915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79587,2677,517,2746,3953,2646
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51167,3240,1769,3627,255231,2180
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 824,147968,5498,5967,64919,7274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29843,54148,29947,1118,6341,169026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23516,91647,886,487,5286,125988
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 875,10008,2798,5329,22901,2194
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5329,4539,1571,138050,29929,83884
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2804,150,344,5053,6403,229
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 339,2787,4853,6402,2053,6794
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28958,5743,1080,1234,265,8772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1435,9167,6383,3931,10013,8471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 506,25821,3162,1075,23474,1435
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7351,516,83884,221458,256394,5328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 549,80224,665,8648,2157,338328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54205,1798,5618,7421,114814,5428
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 268,31,6521,1329,3934,1606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5730,5230,3486,4724,10537,213
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3991,10935,84987,100130015,3329,5971
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81793,2934,55283,8842,5579,10559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4543,885,4012,3767,27344,471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3034,4137,210,19,29928,5054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3899,643181,22820,388962,9474,538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160428,25974,10616,23753,2101,5646
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5139,3032,256394,7048,83985,51316
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6521,5507,55863,9474,29929,1559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5824,1555,3351,4536,572,5832
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55331,353500,3773,4306,9380,83733
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4726,4536,145264,239,2571,51116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81027,1802,132158,50484,5832,4012
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 129787,84239,175,585,11096,3717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4159,3710,27429,2739,10165,4286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3813,6868,1636,92609,875,1353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54931,31,7287,9663,4704,80222
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6774,1435,6445,3054,65018,178
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3643,3115,7941,6448,1361,3596
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1649,3930,2767,56938,84693,1149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 999,5594,5538,55037,3312,3920
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100506658,7284,80207,2113,1371,23417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5194,63892,2767,391051,9969,255231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4853,2109,6583,811,868,6834
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8639,7355,795,4779,344,55753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7471,581,79572,253943,860,2582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4160,291,51119,26003,4144,3636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5054,1029,1200,23654,7097,5962
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10577,7421,27010,5499,38,2271
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 572,2155,4143,356,84889,134
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51094,4552,2643,54205,348,3141
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54675,55270,2949,1588,56052,3157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2702,50507,6833,593,656,55186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3145,10599,6198,128486,1678,241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51092,5584,7038,3791,4942,6374
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 652,54575,129787,100131801,1906,823
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3425,142,113235,435,4864,5406
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 653509,7494,7320,7391,11112,65993
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51128,7879,28976,9672,6616,63899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 140803,8600,427,4282,142,4519
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11019,3060,9672,160287,10094,811
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55005,7351,7132,123099,9051,6262
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116228,5447,1208,9056,1737,2834
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2593,8504,859,6583,85446,125170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 177,1591,28958,55670,54802,5286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5660,148979,7099,1571,335,7840
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57176,9380,387082,6583,338,7422
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 131118,2717,9445,3643,407021,125170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388,617,407008,122961,55037,3920
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3636,506,4594,5595,8675,3460
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11213,5741,517,285126,100,1591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7252,6804,132158,65018,3065,51241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2762,27249,6716,10102,796,4860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2524,7372,1601,51004,5562,5193
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3030,3899,1244,6391,84334,7098
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 330,729238,3284,1281,2548,6382
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
62.784 2.826 65.750
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.651 | 0.018 | 4.928 | |