Mustafa Erhan Ozer
| Snapshot Date: 2025-12-18 13:45 -0500 (Thu, 18 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 2025-12-22 12:04 -0500 (Mon, 22 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" | 4883 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4673 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4607 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4671 |
| 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 | 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. |
| 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: 2025-12-19 04:35:43 -0500 (Fri, 19 Dec 2025) |
| EndedAt: 2025-12-19 04:40:40 -0500 (Fri, 19 Dec 2025) |
| EllapsedTime: 297.4 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: 1374,10269,81027,1075,5745,4654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493,3065,6999,3113,4541,5370
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6357,4351,4547,64087,4519,239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100131801,2834,56302,2638,1605,64805
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51738,10842,361,10875,253559,4318
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5798,4654,858,3170,79633,3159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4536,83733,85569,4089,80222,114814
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8862,7351,54802,7084,89866,27344
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3978,9056,25828,22901,2787,1022
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5275,9370,5372,353,10616,80207
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 387787,5192,3645,2587,801,5256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1769,435,5175,5019,2588,79053
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8431,210,83854,54148,64240,5207
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55005,847,1371,7352,3991,7390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51176,8932,134,836,3066,84062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7082,29960,6789,1641,3418,3141
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4015,338,80070,2571,728294,33
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80331,7252,119559,1734,824,4035
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50484,8842,7036,4899,9054,3606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 330,6514,3312,79068,26354,1738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5702,57107,54968,3356,9945,57380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6748,201595,3240,338328,6531,29078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 335,389,361,8560,8842,1558
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3651,91452,132001,133,89777,51478
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54658,706,4695,406991,6999,9415
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6522,84572,6925,3958,2180,2517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26517,5970,4780,635,285362,22796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6748,10226,8854,7389,4712,57570
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9969,10019,506,6906,26521,2157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4855,6198,1363,2677,5078,8473
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 205327,123688,6833,92609,25915,9180
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84705,10457,4536,84340,56623,10269
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1234,2243,5581,43,2678,2100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100506742,11131,405,388372,2890,2948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10935,493753,55343,53335,51204,79087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 760,3098,28957,5126,2108,5901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5743,3554,2990,7879,53905,151
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 650,574447,29929,6382,406906,4149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1890,4159,1468,6906,406938,2653
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2559,590,4669,3458,60528,339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23474,1906,5230,84706,471,23753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2348,640,64601,4683,2109,11095
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5798,2475,9507,2328,83693,2064
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 594,2720,10686,6183,84062,56938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2309,57107,581,4544,2109,2638
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54578,347687,795,5825,7078,347411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3576,57511,4627,84557,3425,84572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10682,10229,506,2729,3066,5584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85569,5080,1806,4319,3098,54802
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3312,191,6198,718,89874,4723
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3980,3486,26503,6439,10999,406982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6888,6720,1557,9388,518,9445
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23417,133522,3172,284184,23411,538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 201595,10094,1588,201305,3155,54331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10000,4535,308,540,9056,153
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 213,407010,825,10753,23411,2645
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5122,968,3988,197131,10165,5625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9388,23129,2940,4853,570,3423
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2646,10221,384,92609,100506742,51079
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4123,2693,57678,1281,3684,2101
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 89866,3703,1558,1641,4925,2904
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 241,9380,5515,6928,5588,10226
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4524,10059,169792,1493,374291,84342
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57085,1968,55670,1803,1339,2314
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 793,124454,4311,6387,492,87178
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 796,9056,6513,2593,8722,445
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1436,201305,9997,4899,55753,8639
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2798,1950,655,642489,498,7409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9382,7295,1312,3087,567,1182
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91574,29958,4976,2688,3552,572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6535,407006,9945,1230,840,3958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3954,811,4718,2647,137994,57192
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3953,1786,85569,8818,4700,498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1201,793,9607,119559,54577,10333
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 868,388753,409,5241,2487,627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4566,200205,151,4544,57511,2646
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 860,57817,1728,5618,8803,2158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2588,166785,653509,2110,2697,27235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4973,5507,48,5331,2791,27232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5805,55967,7466,948,374291,6770
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 498,5160,3482,3251,2784,26060
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1490,142,5193,4825,1769,201595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5444,1737,3779,5901,3123,718
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10857,2890,351,130589,8648,9919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1200,2587,35,6576,6928,197
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10400,308,3667,84693,811,23038
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91647,5239,1493,6492,2952,4594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2762,599,148738,1401,293,1186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6338,4887,7019,2934,65018,4256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5799,434,2395,6770,79934,54704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4137,6897,133396,4842,1345,3767
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5054,7841,26003,1353,55863,3709
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54205,3712,364,2100,120227,866
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 121268,4286,5241,9868,2934,5723
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80347,57048,3710,2694,1636,51204
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4566,54798,5599,388753,2890,54210
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2864,27429,574447,4128,6445,7385
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3624,53335,796,1843,9241,583
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2990,104,3060,868,4539,1581
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2395,407009,4547,101180976,249,3795
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3658,57620,84649,6319,824,7422
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2947,125170,388585,3899,3351,4598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1186,3483,84274,491,166785,84239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25821,5592,8309,3425,43,3562
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 656,51300,1356,53632,824,6906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51092,104,2695,2790,5213,9968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10316,56945,3339,26354,6901,5781
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55486,10857,6647,25915,3113,255308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1588,7035,8842,1355,51092,4598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83733,7057,148738,7424,653509,54982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6821,1355,56999,3309,3558,4338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84987,94235,4535,2119,54809,7157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 594,6564,55818,5579,5599,1555
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
61.123 1.127 62.382
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.692 | 0.058 | 3.884 | |