Mustafa Erhan Ozer
| Snapshot Date: 2025-11-17 13:45 -0500 (Mon, 17 Nov 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 2025-11-20 12:04 -0500 (Thu, 20 Nov 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" | 4615 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble" | 4610 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4598 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4668 |
| 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: 2025-11-18 09:12:54 -0500 (Tue, 18 Nov 2025) |
| EndedAt: 2025-11-18 09:18:51 -0500 (Tue, 18 Nov 2025) |
| EllapsedTime: 357.5 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: 407007,197131,23400,5175,51422,119559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9104,476,1737,654,2683,1607
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 340024,10874,81704,56606,3113,100529063
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10229,29843,79736,3783,5473,55343
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83693,3250,27232,3586,7319,63899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26762,7841,79068,3373,183,3636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5744,84239,5507,166785,3339,199
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3159,7248,2587,471,486,11132
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3667,2638,4790,9507,2158,7424
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5184,594,496,824,11136,10559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388753,6564,7248,2314,1968,29926
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4718,5805,5515,26175,123099,285126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1734,842,3032,28234,1906,1340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5288,51478,5792,5825,9095,105372280
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388962,2348,23291,8659,9560,10857
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3157,3284,51083,9370,2835,3062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51611,253943,249,4357,1327,57104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5329,581,9180,389692,4899,3291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 150379,5579,6401,3440,1801,1583
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4306,5901,4758,3728,3992,10316
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54344,5563,255308,1270,5291,51181
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123099,3953,10841,5730,3065,23409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5194,4337,25828,627,3954,1345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7942,2950,56623,4306,50814,30061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55024,55034,8639,5126,203068,1869
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 389,6770,518,4288,25828,23516
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2793,10991,7025,5053,2936,2115
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3295,627,2109,9692,6834,1351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2109,55037,54806,5787,170302,51119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6338,55331,7919,3995,4547,56997
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1277,57511,5160,9779,219,374291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6535,364,406947,1346,4760,6522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 162417,126328,3123,1583,8462,2690
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5799,2588,161247,2147,10599,498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79158,7077,1201,6402,10195,54968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6897,29926,201595,3791,5727,5126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4694,2542,11222,4684,6811,7412
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4118,55644,476,54968,55630,479
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2992,84706,2791,10128,79633,6324
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9180,6616,406922,3479,23054,56999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5189,387,55024,51085,29078,2762
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23369,4889,1601,57048,23163,4973
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5443,8802,94235,6513,210,407010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8567,7036,7431,10911,7030,6531
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1571,6602,10135,55532,2328,594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2936,51204,492,6383,5265,2639
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493753,1361,217,2524,138050,53632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1514,5744,27232,5265,2806,3598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5972,9374,2244,4688,10642,4828
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3066,3551,3813,2119,1493,43
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 729238,5442,2677,9997,6464,50506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51079,124976,161247,642489,6351,8309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 549,25821,84833,367,3773,3060
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8942,2517,43,91869,27141,1028
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4544,4724,5599,5781,3685,4720
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100130015,145264,5805,5925,25915,5286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 292,5770,4842,6934,5373,27235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4854,6324,5551,1558,10229,27235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5315,113235,5825,6565,4126,7076
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23516,1312,285848,3418,3931,6324
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51604,3486,652,5599,407007,582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3033,2582,11093,2235,22796,5364
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10159,4780,7389,325,3667,10128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5498,7098,5052,51024,203,84340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29968,35,6352,6339,5971,3351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 142,9479,1489,54575,5654,55526
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1435,729230,5787,191,7078,207
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57511,2235,1277,4125,85479,158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10857,100131801,1859,3033,84239,5265
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9332,3162,4000,5702,255308,5798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5372,2064,1327,2799,1641,5860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4160,26517,3172,27249,1636,1806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4726,51738,123283,4855,1468,3304
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116150,9380,183,150,1348,11019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7252,285362,7840,10466,51103,3489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6009,79572,3670,6928,84342,9370
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 285126,5228,948,56302,656,9559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7466,5315,9429,31,7252,5444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2517,50506,6788,203859,1116,462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 210,5193,87178,79783,2932,7879
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 632,355,28957,6340,10128,11255
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3417,5588,2101,147007,54798,79158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4988,1583,5350,2159,7040,5967
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6571,1499,3481,7916,1363,5167
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23516,9451,3576,2280,55278,7528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8050,4712,1585,2587,3101,3033
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10730,23411,4700,84833,4668,2847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6925,55270,5256,779,3948,6262
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1789,3992,1571,6536,5265,6579
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4879,6492,241,1116,632,4351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5256,9429,4780,11231,706,5563
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 440138,1591,54805,133522,29947,3991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7035,2056,4012,1185,359,3791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51422,5617,6387,7287,1186,2632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4040,2888,1594,124454,56052,7295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406947,857,283459,10295,26227,156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92483,2677,85569,10008,25813,81704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5741,1491,7077,4594,867,7284
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4337,3074,6811,3559,51604,8802
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7428,2946,4543,104,83884,7422
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7019,2904,5919,100529063,5579,84705
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 284184,7915,10875,7018,5068,90480
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3251,1351,4149,3123,210,5901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60528,4543,27010,3098,2712,10128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3953,84317,5372,183,5465,84557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3174,406991,8504,2786,7352,4728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2395,10841,84987,1718,9945,5579
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5618,57570,9076,84062,4311,3596
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81033,54552,142,350,2200,653509
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11255,1149,656,479,498,2542
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6576,2169,6531,10559,391051,55005
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 351,3658,9131,359,4780,5443
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2791,5126,8665,2673,2115,211
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51204,6999,57192,445,1678,56919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100,7225,2638,51117,3600,43
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
65.076 1.035 66.249
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.697 | 0.029 | 3.650 | |