Mustafa Erhan Ozer
| Snapshot Date: 2025-12-08 13:45 -0500 (Mon, 08 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 2025-12-11 12:04 -0500 (Thu, 11 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" | 4879 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4670 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4604 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4669 |
| 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 | NA | ||||||||||
|
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: 2025-12-09 04:37:24 -0500 (Tue, 09 Dec 2025) |
| EndedAt: 2025-12-09 04:42:25 -0500 (Tue, 09 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: 29843,85476,10295,2908,11222,7026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2998,2495,197,3645,2308,3156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5595,101180976,5139,85476,9868,1493
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 284184,177,5264,2542,364,1906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200186,6338,84947,388372,53905,9370
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50674,7450,6584,2752,5211,4023
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8714,2587,51004,57085,685,4709
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407024,5250,268,3990,23530,50484
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 344905,1392,8675,6262,4726,91942
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 652,23038,5236,1327,3117,1737
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5792,34,197,84902,1509,57620
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 197322,55343,4128,4860,644974,570
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2310,2645,2878,2745,5184,91949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1584,132158,50674,5345,1537,7252
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2638,4159,7471,3658,868,51085
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 217,3980,7915,5730,4684,3122
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6647,4118,18,2158,2115,779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2113,824,26227,6715,4723,85365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90624,790955,1508,1491,1312,796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2592,145264,22978,1802,57128,9498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2820,4351,4976,445,4137,79087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7841,1558,1232,1607,1906,3416
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22868,1072,22901,4128,383,53335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1029,999,406922,85446,10580,3481
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 885,594,22796,1769,2952,3938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5625,3596,1363,56052,9968,1594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2538,84693,54798,212,1806,90865
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3551,2788,599,3992,253559,6356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51649,5291,4702,65080,2919,8462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3174,153642,29928,2539,5702,406982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493753,7428,4548,123099,92483,4828
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407010,153642,462,51241,2646,54205
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5740,2184,11035,4351,55768,9927
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3423,1537,3074,388753,57176,6262
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 183,124976,10221,292,150379,9968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2495,4700,790,87178,2805,148979
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5618,89866,5443,4719,50484,728294
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2056,4318,2247,4702,2731,1543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25828,65993,1175,7466,31,4069
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406906,57192,9104,51021,10019,22845
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79587,57570,60528,5211,11136,23062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3119,55503,4668,5901,10643,80267
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2244,1591,5162,5264,124454,2932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 128486,1591,563,5654,2158,4843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7287,5236,3416,22845,129787,729238
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23516,91647,1950,6374,359,5741
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7941,91869,2984,5538,5728,8600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 486,64240,51099,2063,3081,6262
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2688,5241,1355,1968,4702,54704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1608,1629,1468,10842,255308,3930
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1650,7355,10644,3565,23462,383
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5744,79796,488,3382,85476,197322
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406913,51649,2147,10059,5372,57678
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54106,1489,2632,2642,51,3557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1444,8243,4313,201305,6519,5599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5972,407008,2115,5230,51092,7018
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6584,10599,5176,4973,1029,5105
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 538,2581,123099,1649,2904,55532
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7431,29880,347,2100,940,5595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9507,26291,9241,2689,3483,54577
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 145264,1277,1394,664,4282,5091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7384,51241,8841,6821,3554,2788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8772,4313,5631,10000,3486,50507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8471,212,1029,54106,7840,790955
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 632,3636,275,5192,4552,407008
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4668,9445,56999,5617,4942,5274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56923,84334,9663,2790,2949,6505
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29078,9377,4153,55644,4049,7388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 476,55818,7386,9868,10466,57215
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1373,3875,2949,9095,6821,5175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5367,5825,10891,6566,432369,2791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1071,9332,10642,83854,5447,4988
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6999,596,3357,5618,2592,2632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1376,123,11132,2678,2835,9095
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5345,1340,4144,24147,3158,65993
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5805,1585,9382,2712,4854,6439
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64900,54576,26088,54805,7098,54896
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6513,207,10423,5369,9560,10062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 518,405,3875,54576,3293,27089
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7325,2792,79158,1508,4233,3658
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27125,1992,3991,5468,55818,265
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10642,6183,131118,8659,1200,22852
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2119,10159,2571,3172,401,130589
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2835,1675,2760,134,3553,26175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51116,10020,407024,60,10379,285848
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55750,340024,32,1497,23590,145264
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5068,9180,653509,2538,2934,7030
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2629,84062,3416,30061,50507,1716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7352,2697,407010,15,3460,6571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81570,1718,886,3948,2559,846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10874,1802,406991,9560,2034,6891
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1595,51206,2056,185,92609,10857
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 410,5972,200810,54577,221935,4089
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54896,825,4358,80070,10243,3557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3703,10911,1201,55768,6341,9382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116931,6383,2702,407040,5787,7391
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9131,5972,1436,23590,3627,2702
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84317,4780,2984,11232,3709,4843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407045,29928,181,11231,493753,51181
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5095,599,92667,4358,6999,2645
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23556,6391,79144,8050,4712,51092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 383,6748,2875,1312,7076,558
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3663,1282,840,1116,686,5243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10724,8462,6401,5315,84693,5799
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 537,11255,54806,10269,92935,23410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 344905,3065,8639,52,57678,2516
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23304,5447,1340,291,2944,4729
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1906,2778,1468,22796,1634,2690
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51181,29843,7381,161247,2152,570
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79661,119559,629,1244,7424,196385
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1393,285126,23400,51548,585,151
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5122,3988,2739,7350,5826,1508
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54344,4714,212,121268,1353,7942
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2158,2948,10560,2767,2109,3930
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26227,91574,6392,5091,6548,22978
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
66.323 1.167 67.691
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.720 | 0.033 | 3.756 | |