Mustafa Erhan Ozer
| Snapshot Date: 2025-10-24 13:45 -0400 (Fri, 24 Oct 2025) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: devel |
| git_last_commit: 7851a60 |
| git_last_commit_date: 2025-04-15 13:15:07 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-10-25 12:04 -0400 (Sat, 25 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4901 |
| lconway | macOS 12.7.6 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4691 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4637 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4658 |
| 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 1.9.0 (landing page) Mustafa Erhan Ozer
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | NA | 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: 1.9.0 |
| 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_1.9.0.tar.gz |
| StartedAt: 2025-10-25 04:47:11 -0400 (Sat, 25 Oct 2025) |
| EndedAt: 2025-10-25 04:52:17 -0400 (Sat, 25 Oct 2025) |
| EllapsedTime: 306.4 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_1.9.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* 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 ‘1.9.0’
* 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 ‘1.9.0’ ** 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 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root"
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: 11136,3054,160287,8945,79068,796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1634,6550,3293,120227,55670,364
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1491,84062,57104,6351,1555,11131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 93587,6263,28957,23410,65993,1716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83548,9560,2792,2516,5601,3033
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5443,51167,55967,10965,1605,23395
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5293,6928,5805,5971,51081,55970
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 37,8195,10580,22901,348,8517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 212,5723,10991,89866,3308,1393
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4846,124454,10250,5184,3295,2034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2628,8813,708,79572,5330,28976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2904,265,793,130120,3586,3482
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6464,5499,181,10991,4942,4715
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50484,5507,5825,57104,8879,9420
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10911,9498,2582,4886,3663,2064
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54567,147007,5167,2643,7037,353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2745,4232,6183,389692,22820,123263
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7284,50506,5442,5345,3170,1200
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8642,4855,11222,486,55331,54931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 629,2200,3486,640,1200,5837
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160428,1471,26191,22933,6602,2495
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4878,1734,868,2689,8772,5468
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54331,54576,9560,51293,487,582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3949,1672,6908,3283,5191,3489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5239,1608,1906,5781,2690,60528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1075,56999,129787,9445,51478,54539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 811,3606,51021,5799,4878,2308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2673,3553,170302,84693,2776,4726
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3728,265,1348,80222,148738,29947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5442,9868,54798,653509,7297,56302
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7018,1524,57001,7274,6391,5515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51204,4552,5069,26175,65080,51024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3651,7019,3667,952,1806,3673
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3065,779,1803,796,2146,7407
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3309,1116,5265,132001,5599,9779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6927,23543,3242,1493,55788,4878
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4925,4715,4843,3098,6514,84947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2642,2952,10157,51316,6352,6199
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 132001,2952,825,11093,3667,54896
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6582,6648,221935,391051,5176,3728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54915,1508,175,51082,29929,5068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60,3312,2806,63899,4886,6948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83439,5798,3954,790,8471,84342
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7220,90624,2169,9076,43,1371
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 350,4886,145264,10911,585,43
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85365,387082,367,5970,1869,2952
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11232,7248,23395,124976,54896,2638
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3034,768239,6340,89874,1409,5239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22845,9104,57818,1312,10524,3795
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84342,7840,55753,283120,84889,4656
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54148,384,3759,868,3899,100131801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3767,3251,10457,4728,7351,3309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 24147,51660,65080,5096,169026,160428
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7048,3624,875,10352,1312,249
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2752,4760,54809,539,1185,2571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55572,6536,5019,2271,642489,51316
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7431,266,3995,4718,26521,2335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80347,2990,2947,3158,1029,80270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84706,1789,23753,1282,1442,1116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7220,488,4312,8675,3117,2690
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3606,27141,3988,1392,186,55343
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51176,207,51738,516,137682,5175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5257,5476,80267,6906,10116,5068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9672,5243,9414,5551,6786,1234
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27429,3065,2710,1149,617,4232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51117,56919,4594,8818,5370,4854
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1149,9498,1789,6390,1490,23516
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 801,7099,2184,718,6948,51128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28951,4851,574447,3290,4358,2348
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407009,7351,435,55005,5321,2677
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7386,2767,6387,10295,779,2597
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5594,23062,5184,929,506,407009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 793,4069,6929,5860,2903,55699
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7057,3600,4915,6514,406947,7048
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7225,2166,4232,9054,10383,84693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1869,23530,8694,216,10102,5009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23556,4716,4319,3551,126328,51052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4967,5590,3145,84902,56919,56999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3357,440138,6906,54809,1728,1646
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6584,114548,29881,6513,200810,81689
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1634,1369,6833,10686,2952,1230
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2934,1716,2158,130120,5660,2334
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2235,3596,64240,5078,10667,55630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22978,253943,9663,181,10841,89874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1717,84701,10020,350,4015,5498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5276,27125,79068,6535,51660,3784
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4720,52,7248,219,55037,7409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 405,79796,2113,3115,4720,4697
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84902,3440,2524,885,64601,9451
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4694,640,4719,1675,7515,5444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10938,3242,6775,8567,51021,1363
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91949,100131801,540,3507,5730,1468
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9968,3779,2632,5787,5781,83884
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51604,56302,64241,27010,90480,5625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6569,9672,2110,203859,29843,51144
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7276,3779,2693,23291,7431,2113
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338821,2314,9559,10935,8799,7284
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6521,3685,181,2590,51241,2767
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51738,1588,427,6811,23474,6834
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7132,7084,5191,3358,1734,57128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23654,347411,5599,7038,54915,846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6696,6772,9968,19,7225,6392
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2280,2673,729238,5160,824,3486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11095,81704,55937,3952,23400,284958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4982,51119,6550,6721,364,1373
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1029,3113,5837,6647,23417,151306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 115286,3157,2597,351,2641,7942
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7355,7030,241,407040,1394,7274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10935,4683,7407,55670,1649,842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5625,355,3958,3485,91949,3978
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5588,440503,6789,3091,5365,4128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3062,7424,948,1815,5970,23410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10991,84947,6584,80222,53335,1543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4716,776,590,3458,9382,25813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406991,3636,5654,2548,706,2157
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
65.717 1.143 67.025
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.677 | 0.049 | 3.937 | |