Mustafa Erhan Ozer
| Snapshot Date: 2026-03-09 13:45 -0400 (Mon, 09 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 2026-03-10 11:58 -0400 (Tue, 10 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: 2026-03-10 04:37:46 -0400 (Tue, 10 Mar 2026) |
| EndedAt: 2026-03-10 04:42:53 -0400 (Tue, 10 Mar 2026) |
| EllapsedTime: 307.4 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: 340024,113263,3703,823,160287,57128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255027,8862,5428,51052,406982,29960
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6748,7097,253559,3552,26060,153642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84902,23590,2597,123,5053,275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 539,1234,7320,9663,7916,4512
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2572,27010,8564,23530,64689,91869
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493753,10295,7054,364,158,196385
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1327,2587,7274,51478,283459,54809
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 825,23600,788,285848,4899,11231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1798,6403,4256,8722,5447,26517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5631,2571,205327,8564,4338,4879
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1889,9021,583,1859,387082,1738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5096,1075,54575,640,10911,89778
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 154,26191,5331,4720,440503,183
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9076,5740,54658,9420,5054,779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1268,3065,383,147007,7057,1471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 130589,9414,29958,6811,79736,6556
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4089,51081,3658,768239,2581,3710
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2115,57761,6517,153642,7056,627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7036,23400,4724,563,101180976,10857
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3663,2890,23175,79087,80270,6890
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79783,57570,23600,134,2798,2395
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3066,3073,5571,4598,9365,6932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 617,1621,2647,942,6602,325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54577,255308,27235,64788,5346,316
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7025,4049,793,4311,4724,2260
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 113220,5501,160287,4286,138050,2689
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3240,6804,5068,8942,7220,6584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2729,1843,4973,9051,211,640
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5159,51555,64801,64900,54106,4886
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 350,6445,587,5789,1436,285848
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6356,2835,50484,3645,801,2820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4337,3066,401,6248,10221,406991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6616,1491,6472,6811,5744,513
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 590,7096,3684,9377,9066,51176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123,26088,57128,2944,492,28958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23062,4716,9131,177,2590,1493
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1544,6522,129787,10999,5551,100131801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 959,7407,54931,8841,85365,6341
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 89874,2717,5239,2244,7915,2487
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2592,255027,10000,101180976,8564,6906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84557,55034,1543,959,326625,1185
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2180,51083,999,5256,10891,124454
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100128525,7076,1769,4351,567,10911
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10577,2752,350,2034,3485,1594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55863,26503,162417,100303755,3717,2158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 65080,2940,105372280,1277,358,5214
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 345,6352,3795,6462,6811,23475
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1584,23556,3570,63892,2305,92667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10642,6521,5078,94235,91869,3308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1548,130120,3074,5255,8772,358
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5962,5723,142,5189,10059,10580
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2740,1634,1586,1594,4313,7099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55278,27249,632,10999,124454,79776
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54968,336,56923,5713,509,821
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1514,63892,229,80201,406,1586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29960,4656,3988,5331,6789,116085
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3728,1022,51004,6391,123,2303
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84300,55788,11255,4286,80347,2200
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50814,92935,55970,29078,284434,3251
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 32,2919,5618,650,3309,8799
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55858,26227,9868,1234,3630,2632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23175,26517,7450,8942,2776,51
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2539,570,3123,4540,3418,3784
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26291,1581,7919,1116,33,7450
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2694,796,338328,81033,9415,54344
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 89866,4314,23236,2030,27344,4758
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6554,160287,133,6579,26060,6319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 432369,3949,7056,3373,84447,10269
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26275,3945,2584,6715,79934,1594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5538,285,2064,1716,27010,2108
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4040,858,1585,2166,1555,875
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3791,5315,28951,3481,51,5261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 644974,387,1339,3117,2787,1436
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 351,2952,847,10874,6834,23462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85446,4256,26088,79949,432369,9507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5428,9056,55186,92483,9507,55065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1149,2100,285848,1636,53346,3034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10999,79776,3709,5621,1436,6788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1555,3357,4282,3032,152078,929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55768,6811,219,158,2639,440503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4040,27125,7096,4760,54798,7098
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51422,490,6341,4508,123263,4899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7124,1644,5193,51116,3552,54539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2739,5919,5295,3565,3418,1340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1203,79661,5327,7167,1175,406938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3030,1806,3065,3717,9969,6772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7037,3767,5832,6341,821,643181
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7220,5595,3312,10999,840,3562
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 284184,116085,6569,5370,7409,3565
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2990,56259,3931,3283,1650,8408
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5167,5257,116150,5211,81027,2332
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90865,54576,4012,11213,84334,5498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6382,1559,4846,116085,4125,51119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23600,6448,585,7275,2158,151
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 207,5787,406937,54931,29947,1843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10102,2169,132,51738,51144,5498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1718,79572,50674,26275,9365,1641
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2572,1801,51611,3759,23236,3157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5071,150,2678,51083,4306,1234
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5467,84693,22820,105372280,2584,114548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 387082,2052,10,2119,9332,6389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7167,2948,8841,123283,8648,5836
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 811,1186,5345,25915,6351,23400
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255738,2260,847,3700,5824,549
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6938,3423,2878,6338,2055,1394
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6718,348,54901,407004,27010,57380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4899,64805,341,1557,5306,27125
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84061,563,116519,53905,27235,57620
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5832,1786,55753,388753,1373,57128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28958,572,5160,406937,6439,2788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2538,6182,4726,2516,2587,3945
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
62.940 1.932 65.127
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.707 | 0.028 | 2.018 | |