Mustafa Erhan Ozer
| Snapshot Date: 2025-10-13 13:40 -0400 (Mon, 13 Oct 2025) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_21 |
| git_last_commit: 8259124 |
| git_last_commit_date: 2025-04-15 13:15:07 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-10-16 11:41 -0400 (Thu, 16 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4833 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4614 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4555 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4586 |
| 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 2139/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.8.0 (landing page) Mustafa Erhan Ozer
| nebbiolo1 | 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 | | ||||||||
| kunpeng2 | 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: 1.8.0 |
| 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_1.8.0.tar.gz |
| StartedAt: 2025-10-14 15:07:16 -0000 (Tue, 14 Oct 2025) |
| EndedAt: 2025-10-14 15:15:00 -0000 (Tue, 14 Oct 2025) |
| EllapsedTime: 463.7 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_1.8.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/SVMDO.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* 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-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.8.0’
* 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-devel_2025-02-19/site-library’ * installing *source* package ‘SVMDO’ ... ** this is package ‘SVMDO’ version ‘1.8.0’ ** 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 Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"
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: 2559,8675,407008,79158,5345,10195
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 650,7498,3485,6519,10165,2303
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2919,1594,30061,10094,7351,3460
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2798,2030,4319,821,83985,1353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 942,3565,6352,9414,3552,55630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2159,2946,406934,316,91942,64131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10157,3295,5919,10559,4069,594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57511,11232,406947,1798,10965,3290
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80339,2524,493,5207,5445,5095
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2762,4000,3479,3645,9445,3945
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91949,8714,4705,6833,8639,2791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1646,4544,50943,341,10250,31
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10935,2243,1544,4312,2064,201595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5723,56259,4973,55967,7035,3172
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 132001,5350,79949,5243,51024,100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 150,10269,84340,2745,56999,9429
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2063,3767,7289,5313,2688,1270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3119,5091,10643,3813,26291,197131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5188,55753,8942,57085,3795,5702
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6248,3066,55970,229,81570,51085
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5315,203859,2572,2878,656,55065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5327,563,54344,9076,9374,3708
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11222,7018,5468,4714,5789,5265
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7385,4547,55343,10269,405,1329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 847,6492,4524,64801,2908,54576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 48,56052,563,4982,92935,3606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10560,3091,6392,9091,5447,10965
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100506742,1345,3115,2034,4973,60
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9526,4552,1641,7037,51094,5068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29880,7252,4803,1718,3636,2787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2788,7026,6383,54805,2109,26119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 654,308,3081,50674,1371,5579
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5592,7030,149461,5444,3440,10062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 201595,6261,3293,406913,5276,1595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4069,149461,2539,2243,60386,3489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4726,718,6999,4337,6898,5345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 640,1075,9512,4758,197131,5370
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5507,7879,3684,6891,2155,2908
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55278,729230,1641,8309,5274,2944
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3113,123263,3357,3562,7915,115286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3308,9429,5078,177,4543,51021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 513,5702,57192,64689,5443,3351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57678,55572,79796,26227,1909,5243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3087,3073,116228,593,2864,728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1769,4288,22933,1373,3099,5346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1910,4128,29928,7097,1409,197322
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57818,2305,652,10019,81033,53345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3486,131118,359,2266,1672,388372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6901,3290,8660,7036,2673,5257
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9451,6522,10128,2888,694,4288
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123283,350,2694,2697,5191,2804
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1346,5176,5321,1409,4338,5590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2159,1327,22852,6513,5161,6439
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8743,2695,80339,388,407040,2118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1355,55863,4846,53346,3948,5313
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1910,1608,4886,9021,389692,847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6938,627,231,7941,51092,2790
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10008,116228,58528,9759,5515,846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4314,7274,38,581,6354,335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 112817,10059,10094,91647,340024,2305
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4728,83884,5264,91869,5092,10157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 729230,2587,5293,27125,166785,387787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79633,7274,3418,10938,2835,7026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 434,26762,1392,2776,221458,54658
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 819,5740,8879,79572,7386,10379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4089,2786,22901,6342,5207,3939
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6928,708,216,23590,3117,5971
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2184,811,8772,2314,3767,5295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4843,6354,216,84447,64601,6261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80331,51293,411,29843,1203,2799
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 796,10682,197131,1893,6464,80070
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1327,5190,388,3562,10159,51004
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1401,5068,285,1346,54600,211
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84334,2645,6517,3091,3054,81704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255308,115286,1208,56999,5581,518
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57505,5255,150,9692,10891,335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84061,10128,2834,55630,407008,84317
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4843,5617,5950,130120,2646,23530
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55343,3440,347,23543,4358,3558
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3172,23411,406913,824,7450,1992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5745,137994,79602,5798,1537,1813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2271,7409,5563,33,367,10524
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3980,1588,1678,63874,156,160428
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5581,842,116931,1234,8942,10269
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5291,627,2740,2952,3554,4724
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2170,3791,84340,6522,51144,376497
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9672,9429,2184,10,10243,3931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1232,2643,5315,514,55753,3779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81034,685,632,8877,79585,2328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79736,26354,10059,79572,7407,55967
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57570,6602,148979,23410,27247,4860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5727,1843,3155,5498,54931,3779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 958,2645,57818,4925,2118,116519
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10874,729230,5188,4853,4855,5618
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3773,5214,6786,1581,26175,4780
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57380,9414,4313,491,3700,57570
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4728,5971,435,9663,1543,819
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1801,23474,55970,8678,140803,3480
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55186,476,491,1555,6714,10000
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51099,4694,51206,27141,28958,55503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3553,3356,3351,406938,90865,7879
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203068,3953,23054,2697,3663,2184
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51660,5730,4524,239,10643,285126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 355,54577,10682,6833,216,64601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6908,2696,5592,656,776,55970
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5329,183,2516,407009,308,6576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5962,51079,142,6387,9131,5828
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 514,644974,4726,9054,490,5740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3728,2653,5236,9630,6339,842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1080,2166,356,80331,79572,2712
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2591,5241,7498,9056,90480,5194
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3033,4313,54539,203068,5538,255231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4049,2034,64601,4714,6550,729230
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10221,387787,9131,54344,7471,388753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 941,5293,2696,3074,1075,79587
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
80.400 0.990 81.718
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.763 | 0.043 | 1.291 | |