Mustafa Erhan Ozer
| Snapshot Date: 2026-01-12 13:45 -0500 (Mon, 12 Jan 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 Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-01-15 11:59 -0500 (Thu, 15 Jan 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" | 4886 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4672 |
| 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 | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: SVMDO |
| Version: 1.10.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings SVMDO_1.10.0.tar.gz |
| StartedAt: 2026-01-13 15:06:31 -0000 (Tue, 13 Jan 2026) |
| EndedAt: 2026-01-13 15:13:38 -0000 (Tue, 13 Jan 2026) |
| EllapsedTime: 427.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings SVMDO_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* 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 running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0/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 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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: 6648,2731,57215,54106,1075,10059
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7385,6387,55037,2110,5501,8714
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5787,9414,1347,6389,2395,434
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2720,80070,10580,55750,4128,4306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10599,3554,8504,1028,8884,201305
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6720,55065,5261,6448,7466,2184
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1605,1591,22933,54210,347687,3489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2247,2798,211,9560,811,2778
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388743,4744,407024,6748,6514,10599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 170302,90865,84987,5443,6391,149775
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23274,217,5962,7048,6584,3308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3291,6583,958,2713,563,3123
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7078,27010,2791,64801,4566,151306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51604,6248,5161,9131,388585,6391
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116085,4566,23389,2786,5068,9095
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 590,85476,55750,4790,4015,8932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3552,2639,2937,7384,7320,201595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 186,5506,6548,29928,3123,114548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4988,558,6821,8813,23410,406906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2642,582,4825,7220,57505,629
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6583,3709,160287,9507,208,2034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84947,406947,84649,1401,1029,3717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 153,3728,5617,51099,4683,51004
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 491,3489,23410,844,2180,9512
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5096,8473,10580,367,6514,1376
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 570,4536,958,284654,2984,23475
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5830,1593,23410,208,256471,1444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2937,5228,7172,83447,60684,5476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9140,84701,3663,5498,5071,81027
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 558,406,9429,7409,2487,60528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5723,5213,9498,1149,10019,4723
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 344905,115286,406922,27329,5595,2949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3162,56652,9607,356,5972,55486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7355,57107,3703,8195,2115,4724
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1586,4285,2998,4712,3329,406991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64087,87178,51611,11131,8462,3158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8799,9451,2588,56922,6584,5367
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5213,23410,29880,10423,4160,1636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2159,11093,10533,516,10000,2271
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91452,6906,55283,56848,5595,5167
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2908,28957,51176,80347,8942,3767
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 581,4358,1594,1802,4878,3309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3596,112817,7466,2538,9388,51649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6347,409,64801,7515,1394,4012
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10911,6262,6401,5207,2697,1337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7057,5068,6774,2524,7084,84769
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1801,27247,819,125988,6531,7124
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3552,64805,8651,199,2194,8431
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2593,51,38,5621,79736,388585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7292,6770,790955,5743,51103,161247
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 132,7498,7840,54511,148979,253559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 929,6329,3712,9095,4286,7052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10094,26354,55970,2678,54982,6515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5195,2109,407009,3645,2876,132001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3938,10457,28234,80222,51316,355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55343,3636,149775,53905,2806,7515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1956,10644,84274,2629,4544,83447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 516,2487,948,2516,155,5286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7355,2184,125170,4878,9575,2932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23516,2752,585,57176,9180,25821
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83985,728,3479,51167,384,407011
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10000,3670,3251,166785,4967,406934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6571,5702,55343,51082,5315,5837
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54806,2847,6324,196385,407010,123688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1345,3486,65993,729238,51604,6338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 115286,3934,51021,123283,316,10999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8604,25974,6522,1557,6319,2243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7351,125170,2791,4878,8471,1021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2835,6523,10333,2517,51241,3483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3658,3598,8694,79585,367,4015
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3054,5293,4654,8743,4357,1717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1537,1200,4519,2200,65985,203
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406934,4722,2904,387,5052,57048
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3174,5625,3077,1537,4541,567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8714,391051,116228,3934,2184,5265
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2639,4160,3783,6183,776,3576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8639,22820,231,4338,3295,1401
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91949,5328,3767,1514,5092,7274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 125988,60,2166,11095,35,7390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1508,2538,3091,6616,34,7351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5584,212,948,186,11093,5743
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5329,4976,56923,7386,2348,6356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2597,6521,2159,4311,84693,2834
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4864,4825,6775,27235,112817,2693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2055,3066,6262,3992,6347,1347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5213,5860,152078,8642,824,4683
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2932,11095,5507,55858,54600,7036
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6616,51422,9498,3240,10841,846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5644,4089,6351,2590,91452,10102
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 221458,57215,7287,3938,345,56052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5825,50484,6535,406937,4282,283120
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1789,718,51099,5241,1803,100131801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 440503,5080,3553,1583,1374,3460
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2937,1807,4337,387082,2903,941
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6898,79796,4702,1583,790955,9382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5194,4233,1355,54658,22868,79644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2934,11255,3670,410,718,170302
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3357,551,344,3507,4552,2820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7528,6860,2948,5330,3240,6649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 590,54982,2646,3954,3032,587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338821,284184,56848,51024,3930,3636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5465,2731,23475,9572,3709,5498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,840,825,8471,1595,6261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 119559,55753,56259,63899,284958,2717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1508,819,5741,2787,6236,83693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5213,22933,2952,6772,81570,189
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7424,55343,54106,22797,6514,53632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26235,10221,5091,2559,23516,200539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5584,427,1442,4153,26088,7297
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55967,1789,79633,5837,7385,688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 137682,11035,8879,514,51176,406913
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1175,3240,64601,2834,51085,1672
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
125.369 2.251 128.051
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.769 | 0.072 | 1.305 | |