Mustafa Erhan Ozer
| Snapshot Date: 2025-11-24 13:45 -0500 (Mon, 24 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 2025-11-27 12:04 -0500 (Thu, 27 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" | 4876 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble" | 4656 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4602 |
| 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 | NA | |||||||||
| 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: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SVMDO_1.10.0.tar.gz |
| StartedAt: 2025-11-27 06:53:09 -0500 (Thu, 27 Nov 2025) |
| EndedAt: 2025-11-27 07:02:25 -0500 (Thu, 27 Nov 2025) |
| EllapsedTime: 555.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SVMDO_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.2 Patched (2025-11-04 r88984)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 16.0.0 (clang-1600.0.26.6)
GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.8
* 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 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: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/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 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20
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: 2946,3710,191,9415,55526,92483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 128486,1080,9779,3954,170302,3685
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3565,5286,11222,582,54968,2395
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5836,2944,5190,10094,91869,19
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4855,29880,57215,4925,79158,158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51660,5167,3663,3507,23530,100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3170,10229,1646,11136,1893,2760
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1282,2166,2119,2712,27141,5798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5730,79133,6602,130120,2244,3032
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6616,54600,11093,6342,54344,1675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2876,2305,54552,2696,2919,9241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1497,113235,51181,2793,6929,4719
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23236,3920,6554,387082,55788,5192
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91942,9451,4688,4035,5506,6934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10643,1803,7100,2746,1869,8945
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7220,55768,6897,6932,201595,347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3082,3073,5161,2791,4864,119559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4627,84705,10,9526,3123,3099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203,2203,64432,51204,1072,197
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10559,84947,6821,158,54915,6347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1950,2101,1071,2952,10841,5313
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 486,2157,2064,2159,51300,57017
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6566,4879,4695,54205,2548,5092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6340,389692,9374,4137,275,411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2712,388372,338821,51601,2992,540
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1950,6565,5327,590,2063,7422
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6262,6566,551,5330,4502,1373
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4860,5293,57085,7019,2591,130589
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 199,54205,3783,6834,6789,1392
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6351,54901,268,4000,185,4337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3098,114814,5052,24147,51608,10938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5727,51293,6901,10842,8932,3074
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3030,55163,6579,6340,79133,80201
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3813,341,249,85569,5860,50507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2475,4684,3082,255738,83985,2984
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7030,55340,9414,653,4864,7347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53632,23163,6492,2864,3339,8862
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7528,3351,2629,1373,100,161247
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9575,6556,1468,487,8473,2696
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5256,10845,4728,150379,51081,26517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5741,107075310,91869,5444,4967,1798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23516,79944,1595,821,10524,57107
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4594,2746,2063,1471,1644,3101
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4544,5092,5799,2280,6648,63931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6513,406991,112817,3958,84274,4338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133396,7052,54539,79144,4654,3949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5702,9445,2696,51024,84572,55186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5618,51004,5713,23304,3483,54968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5291,2653,107075310,8803,10382,790955
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6834,5741,1586,5257,29968,51555
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2712,91869,6794,8942,178,10157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2590,221935,7480,2180,91869,3767
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407040,1182,821,4288,51601,22820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 330,10157,6262,292,10580,9054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2588,9377,26119,582,51082,1185
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 217,84062,4879,1409,6390,10295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 952,56923,9380,28957,10128,840
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56259,203,384,1634,28234,5745
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 89874,54798,7424,2793,51204,2571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54915,1789,1557,5236,29968,4843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 574447,7099,3685,401,26354,2820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406938,3458,7275,9380,285848,8648
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3658,151,2717,383,308,91942
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2767,3159,4311,4842,617,718
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9512,7384,359,283459,51094,57505
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9420,160287,1559,590,6248,7388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6445,1802,3115,5919,1436,8813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2947,6932,7424,57511,1200,8600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5629,5919,406947,212,9868,4688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 885,3250,3123,7942,3507,55186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57817,2064,8642,1499,5350,2538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5078,64689,463,23291,6342,2064
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1374,5092,51206,5068,83854,3073
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5092,3356,5207,335,8842,160287
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 487,2052,116228,4357,6374,7019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2834,4715,1373,8648,7355,93587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1282,79087,5654,4854,5563,4722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3122,2180,2147,585,3295,3373
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4942,488,84317,11254,4023,9572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3034,537,1339,9575,540,1585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 440503,7052,35,4851,2056,55902
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 207,3651,291,212,2677,9969
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3709,9868,10599,178,3553,85476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4627,587,1393,55699,4319,5743
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6263,4683,7351,3073,7919,4860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1393,15,2495,129787,26235,9409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4314,29929,55630,54577,2740,57104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5365,364,5122,56945,3779,6565
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55644,9091,5506,55670,1584,5919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2717,28957,6338,796,64116,23304
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 486,9380,216,3767,8842,4654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5350,3308,406934,3949,51176,29078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6382,51441,2944,4609,5599,83884
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3709,2548,857,7386,642489,6263
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64900,201595,64805,241,10891,384
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1815,1490,2888,1737,5445,7407
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2590,23389,177,6329,65993,6556
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3980,941,84902,81704,55343,539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2052,160428,840,6833,5580,5327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7372,57380,87178,79053,6948,51021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2702,23129,406947,3308,347,29968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 875,100,31,4306,406937,2834
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6236,57176,7057,51092,55503,5594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29929,7030,3988,3174,1650,6462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7038,6329,3440,5160,9607,3293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3115,5971,490,6340,2055,1029
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3373,4889,9420,1555,54576,153
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6929,6514,844,25821,152926,23590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 152078,83884,57192,5068,388753,3077
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 462,207,2592,9575,7372,434
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3576,177,2876,1497,2932,123283
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55630,6928,196385,1594,1559,7450
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26291,3440,81570,239,5328,5256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5465,4049,112817,6445,476,147007
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255308,80201,1392,5618,3158,9451
--> return NULL...
2025-11-27 07:02:09.945 R[25700:106328434] XType: Using static font registry.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
76.279 1.335 121.245
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.959 | 0.042 | 1.909 | |