Mustafa Erhan Ozer
| Snapshot Date: 2025-10-13 13:45 -0400 (Mon, 13 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 2025-10-14 12:06 -0400 (Tue, 14 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" | 4864 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4652 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4597 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4610 |
| 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 2148/2346 | 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 12.7.1 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 | 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: 1.9.0 |
| 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_1.9.0.tar.gz |
| StartedAt: 2025-10-13 22:04:51 -0400 (Mon, 13 Oct 2025) |
| EndedAt: 2025-10-13 22:06:48 -0400 (Mon, 13 Oct 2025) |
| EllapsedTime: 116.5 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_1.9.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* 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 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* 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 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 ‘1.9.0’ ** 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 (2025-09-10 r88807) -- "Great Square Root"
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: 154,5250,79776,9919,7386,434
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10935,120227,650,6925,1734,27235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1798,10379,1992,28958,4702,336
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8877,5971,145264,6448,7038,9919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2475,26088,23411,644096,3087,6901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6354,728,476,186,844,3717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7035,1203,2309,9945,8462,54704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 129787,5860,132,2064,435,23062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 685,54982,3283,8818,27010,4726
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2683,2572,10753,50814,3170,7078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160428,587,51548,84447,265,3703
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3440,1339,8818,9131,123099,1080
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6774,81704,55037,488,2697,3598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 149461,6198,6387,2820,8195,27247
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1376,1815,4669,11093,57128,4925
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7287,2950,2588,7528,344,11222
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8050,27235,10643,5331,55503,1339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 463,55186,5571,8722,8942,200810
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6579,7097,27429,2169,79602,4878
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 885,7287,6522,4702,51079,148979
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57570,7942,56938,57017,27089,4125
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3596,2310,2638,80207,1436,3293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54915,2888,361,81704,5467,5078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6382,79587,4705,3559,4852,5193
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5211,80347,6890,153642,5230,5139
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1345,9377,2932,4069,132158,116228
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3489,824,8678,516,56652,3157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25828,158,3034,2643,52,599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5270,123,518,3172,5350,105372280
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2950,3586,9607,7345,91452,55753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3119,11231,3552,2694,5346,9414
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51204,3636,506,2878,6383,1374
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64689,3712,1672,5019,5053,5799
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5925,84275,4712,8473,7099,64240
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,1444,2792,339,22820,8504
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26227,65993,3293,3145,5264,538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 158,7320,7325,81704,593,121268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2847,56938,6714,4842,4942,2591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3948,10316,842,1734,1409,5054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7098,4126,1312,2653,64801,1581
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9091,3576,3636,1339,5562,7431
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406934,221935,383,1543,5236,5592
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7132,55343,1312,1589,22845,160287
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51099,8504,55034,55902,4012,4843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4852,4715,2646,54806,3156,18
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2118,57017,9692,5713,4159,729238
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1593,9692,3995,255231,3784,959
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2643,3600,1468,406,57001,1029
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5195,3759,11095,2990,4729,26235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1601,7038,3373,23129,129787,8722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1277,790,4744,197322,644096,1789
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5276,6901,6928,407040,3479,79661
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5350,9479,60386,316,537,10165
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9507,2793,55788,875,8050,2776
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 355,5967,1175,361,6602,162417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50674,54809,6535,55750,26354,10537
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22796,29078,10094,3159,1435,79776
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4143,54576,1116,55967,5563,7515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3481,120227,345,133522,3158,219
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 35,5967,341,54931,23417,5590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407045,3356,7376,1337,80224,4358
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1524,6339,285848,80070,9507,2280
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 627,2710,51119,3485,7466,6402
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 292,7157,1401,1595,92935,10062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4718,104909134,1029,790955,54148,4285
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 105372280,100128525,3988,4713,10116,6351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10857,80331,56997,6392,6720,10128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407011,55902,5126,18,463,353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3295,3992,847,9415,11035,686
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 858,596,60386,2639,57128,859
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3784,90624,405,4846,284958,1393
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57176,116931,316,56606,199,54576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6948,5313,2271,338,4285,64919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10135,266,55768,9479,55331,221935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3460,5329,26521,7431,7026,513
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4705,3710,2729,221458,3703,6897
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5194,55186,54896,8462,84706,2110
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2690,6833,30061,23400,23474,1636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 574447,2820,148738,266,114548,6556
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6718,54802,29880,6341,10269,493
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10250,4695,1559,640,5730,498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56259,4357,844,10382,133522,4035
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1186,133,5293,26762,9560,26517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3158,7428,2155,81704,5345,2908
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5176,7325,256471,57085,55526,7352
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10891,5730,1584,249,5447,5264
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2169,11095,100128525,492,1116,1369
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3670,7319,2932,8799,23054,4695
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 551,149461,84987,563,153,132001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5092,2653,266,27247,11254,255738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 148738,1268,407021,4143,686,56997
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 486,4967,29880,6794,9380,50674
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1716,1363,10221,2948,11131,63899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6262,7941,5369,56938,1376,3710
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6564,8694,92935,7879,169792,10423
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406938,1200,79731,55644,3557,10999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4695,54675,1348,84572,6448,5592
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4547,7347,57511,6948,4306,197
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2712,8567,9868,4683,265,7054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1636,4232,153,2638,9968,10000
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10874,4669,8604,22852,2305,407024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27125,3304,948,80331,6262,4552
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1493,4684,25915,4023,2820,563
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84572,1080,819,406937,56923,7295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6821,1606,388753,1629,6648,83884
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54968,6391,84902,10875,51181,55486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 18,63892,116228,51167,1672,200539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406922,2157,6492,590,1392,5105
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2628,1559,6927,2950,9526,9630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79633,1992,549,10965,15,5702
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51441,3308,1374,5331,2695,1606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 112817,10195,353,493,8473,4312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1806,7352,1029,1182,216,1116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 283120,7480,2944,1489,3949,506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 821,2673,5250,655,2752,5654
--> return NULL...
2025-10-13 22:06:44.867 R[30346:456068586] XType: Using static font registry.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
24.169 0.407 24.973
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.304 | 0.012 | 0.528 | |