Mustafa Erhan Ozer
| Snapshot Date: 2025-06-18 13:25 -0400 (Wed, 18 Jun 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 2025-06-19 12:06 -0400 (Thu, 19 Jun 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4810 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.0 (2025-04-11 ucrt) -- "How About a Twenty-Six" | 4548 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" | 4528 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4493 |
| 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 2111/2309 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.9.0 (landing page) Mustafa Erhan Ozer
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: SVMDO |
| Version: 1.9.0 |
| 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_1.9.0.tar.gz |
| StartedAt: 2025-06-17 12:27:38 -0000 (Tue, 17 Jun 2025) |
| EndedAt: 2025-06-17 12:34:07 -0000 (Tue, 17 Jun 2025) |
| EllapsedTime: 388.1 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_1.9.0.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 ‘1.9.0’
* 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 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 ‘1.9.0’ ** 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 4.5.0 (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: 7879,1589,5770,5211,4780,5950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 34,3992,6248,1075,7052,6476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9180,4233,2950,1586,7157,55024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64432,34,5190,6517,574447,8772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7030,2516,364,1910,5830,330
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5372,6183,9507,4654,6464,2642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5264,37,84572,57017,55331,1277
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84705,5189,3423,56606,1435,285126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4878,7352,9241,56729,2641,5744
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5465,178,29968,3416,2099,22820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 434,514,112817,22845,3304,51204
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2308,23054,1401,1369,57570,201595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1282,2776,410,80070,2200,539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51021,50943,23062,338328,4846,405
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 186,6794,10845,4089,5571,7037
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6834,3712,435,7352,3636,64601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9512,2309,5054,7100,3552,101180976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 427,7915,479,3250,1889,6009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6554,1208,6340,788,10911,203
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2055,253943,3703,7345,4852,55788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6891,5629,79633,26521,84705,6565
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79144,3557,4137,3783,844,6402
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84317,54896,120227,51738,22845,652
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1356,22852,28976,1056,3636,344905
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3250,1769,2517,3552,84902,5345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 291,6569,5799,6263,64788,84902
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5193,55699,3460,4758,231,2729
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23274,1558,1186,3159,9559,5193
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5160,4337,942,122961,6908,57678
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10102,9692,1022,6492,2646,7841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 148979,3425,5447,1312,7276,4337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55340,6999,2712,9429,2113,2063
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4023,55331,64241,57818,3795,3062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 583,219,498,5052,84693,54658
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4668,6569,7038,6770,5588,3098
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54578,29928,6351,283120,64601,6564
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4744,6571,29843,2056,33,7345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90480,38,4015,2099,4337,1373
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1369,266,2642,3559,1363,6789
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1348,5009,3251,4982,1559,5236
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11213,79053,4000,6329,79731,3700
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5350,383,57215,116150,57817,574447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4118,160428,3779,387787,48,3073
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85569,132,406,5328,2697,477
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1593,10560,10730,3553,3440,116085
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 706,90480,2864,3759,9479,1346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6616,10938,123,1409,5599,56623
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4015,5972,116931,6342,6948,196385
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28976,8932,407008,1815,406,1890
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6821,10195,56938,3383,51206,51608
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5825,130589,10000,5373,2693,7350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3099,29843,23409,4851,7350,5444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7295,23530,10166,6476,6548,650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123283,2184,57620,100529063,4683,1471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4828,1644,4842,8818,80270,33
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7078,7386,10062,3606,8877,3709
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 643181,7225,795,5770,23236,4702
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133,1802,55034,10935,3658,93587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79602,8648,1340,65993,53335,5745
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2834,9076,51004,10616,316,8854
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 155,55270,6445,3700,3339,65985
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9759,4125,1347,486,10857,3113
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5745,84572,56606,5019,133522,2646
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4288,7167,2166,2678,29078,7287
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3460,3700,493,5239,7100,6648
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51422,3032,7347,1436,84274,7409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5837,2180,5293,406938,54982,3991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 345,3157,54344,23654,5372,572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 170302,344905,3098,2628,51300,81704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4023,4311,9479,5950,8877,55753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6833,4694,358,6579,51206,203068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 212,498,2932,51555,353,1346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 593,7035,221458,7076,57176,6392
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3481,5167,3066,131669,26191,6649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55340,26762,5409,55034,27010,1369
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10891,3240,2063,3728,5176,1022
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1585,336,6833,51094,1281,5447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51601,3098,2712,4668,540,10599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 253943,406947,4023,1490,5261,118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406922,4719,213,4846,7915,355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84572,387082,2695,3643,51024,4842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10667,364,54658,2243,4338,440503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2588,574447,2581,4718,356,338328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5745,2793,92609,54802,5498,7295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54106,57192,7026,344905,7421,3767
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5538,3953,129787,1497,100130015,3066
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 111,7376,3054,5241,25828,490
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203068,6811,10020,1490,285126,51608
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54798,3708,54552,401,4718,54576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23038,137994,79068,8517,406,8431
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9692,60,60528,1353,1345,196385
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5139,518,1591,10019,23411,3357
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4973,3638,6263,5365,241,694
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1468,23274,79585,493753,55863,26227
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2799,54931,836,54476,140803,23410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2731,9919,8642,266,23129,7498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 685,4288,51738,125170,5551,7450
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2115,8517,7350,9054,406947,3712
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9056,7084,2787,821,2653,2152
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2647,4012,137994,283459,8932,340024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7026,22852,18,351,4828,1859
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2835,6513,11255,85476,10128,292
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3382,353500,5971,2524,653509,4143
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57761,490,196385,1348,10560,6772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2034,1028,4854,7345,1582,148979
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 650,1339,26227,5257,150,104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 217,4338,779,4973,123,1435
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6579,339,3710,23543,6932,10991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54600,51316,2591,3481,7248,64432
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54901,2673,5189,353500,7879,1801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 790955,23400,3351,376497,1201,6716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2673,80339,1353,2100,79731,239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 94235,539,7275,686,60,275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84274,540,1356,3157,115286,6319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54552,5211,5713,3931,1056,3113
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
76.858 1.882 79.294
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.752 | 0.031 | 1.335 | |