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 12:08 -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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: SVMDO |
| Version: 1.10.0 |
| 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_1.10.0.tar.gz |
| StartedAt: 2025-11-18 15:49:12 -0000 (Tue, 18 Nov 2025) |
| EndedAt: 2025-11-18 15:58:38 -0000 (Tue, 18 Nov 2025) |
| EllapsedTime: 565.8 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_1.10.0.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 ‘1.10.0’
* 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 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 ‘1.10.0’ ** 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 4.5.0 (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: 7292,1185,51316,3351,241,104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84987,5092,5836,8600,2597,84300
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7350,6932,1803,51206,940,7036
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56938,6354,51204,1497,51094,10999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133396,79934,8660,2309,4012,5009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255231,574447,5925,54805,5970,7220
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7100,5365,156,23411,140803,708
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2947,133,3551,10642,2746,2548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5350,23369,4040,4718,4854,2548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4318,178,6647,2314,6548,3673
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200186,516,5078,640,779,9559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3158,7048,4040,1201,7498,341
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2584,5789,479,4035,1906,1992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1490,821,2878,2593,5122,10159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 32,5286,51601,2934,84947,9414
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83693,80347,55753,617,10008,2548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29881,2785,7292,6833,5346,54902
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51052,5442,665,55699,8945,590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4338,5617,9968,1027,7048,5265
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3382,203068,5660,1281,10008,151306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 212,6448,406934,6390,9698,54600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5211,9095,407021,1493,4758,9919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51601,7295,3773,3423,655,7019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10195,241,2689,4694,2310,216
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 138050,537,51083,55630,339,2348
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4656,9365,10019,56652,2785,10686
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 432369,3250,3598,25915,7424,4967
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5507,9779,5473,11222,9969,1558
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4299,3251,844,2806,10000,120227
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 427,161247,51608,54106,54982,255308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1812,2064,3304,788,2878,5631
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3553,1373,55670,4502,650,585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4594,2762,3117,29843,5346,1347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6515,5370,1645,2243,10911,3931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7422,2784,5744,162417,6262,3145
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406947,3295,22796,6492,1080,4318
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6402,265,1244,79661,89866,11093
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57107,5805,6513,5798,4702,2118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3875,2335,6324,5194,1650,644974
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51478,123099,3077,5286,596,3091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2697,664,8431,181,51128,4357
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5702,358,6391,406906,2878,338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28951,2791,85479,231,5250,3480
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1585,2200,353,79731,2157,22852
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 558,476,253559,5257,4968,9445
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2643,5274,7350,2158,217,406906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80070,3174,7019,151306,2161,6550
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5184,175,2639,2597,26119,64689
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6906,92935,51167,3077,11132,5805
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2760,26521,5592,1555,23410,2593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6261,5825,27235,189,55526,3312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9479,23543,406934,51293,79053,53345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6198,10643,54552,3329,5091,6934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5792,5967,6182,2876,3309,2760
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 150,9021,51116,51204,29926,84300
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3489,4149,3952,156,2592,51079
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3293,54210,84557,54901,3373,479
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9377,1650,7840,1394,148738,84340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1734,5562,432369,4125,3375,1675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84274,130120,5723,355,1508,4313
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6263,221935,2244,407045,1621,10
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 563,1649,8202,51103,2119,3554
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84239,5826,10965,4594,2776,6721
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23163,5243,7347,120227,728,2876
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2792,2243,54210,22820,4967,5019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1346,1201,213,197322,140803,10062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 208,57505,5919,83884,5967,793
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4319,54982,5805,341,5175,2787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4846,1672,123099,9332,596,790
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 166785,2944,7841,51204,191,8694
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3283,55343,9479,840,221458,708
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 432369,6898,316,51024,56729,6262
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4722,1968,11095,6925,158,7284
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81570,6374,5256,9445,9076,1641
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56848,5967,6999,4889,388753,3242
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4697,200186,10935,4149,8932,111240474
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1869,1340,3034,1075,54896,104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 650,2646,6579,4780,10537,1508
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1186,8842,406937,2834,7528,4089
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 130589,491,5373,79001,537,353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9630,3159,407021,4879,29926,407009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2334,55858,54575,5444,64900,239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2155,694,5830,201305,5584,1409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8560,1351,64689,7409,10682,5476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55967,5241,155,7172,867,57017
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 389692,1268,56623,5563,537,10295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 506,3122,1022,23395,4683,7422
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2710,84317,6403,3945,3081,53905
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80267,3060,5447,160287,56922,5506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5972,376497,256471,5367,6522,406937
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407009,2334,1672,211,1583,1644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 356,4318,2166,255308,3119,2335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1200,406922,253559,338328,27125,6833
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64919,55532,10,2745,54901,133522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3482,11132,124454,2335,6648,2729
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9380,51024,1230,1347,64689,1789
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8842,5745,4128,6517,644974,2063
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7325,1353,3382,54931,7018,958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80267,389692,432369,5562,23369,10226
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 729238,64900,728294,5261,5507,3290
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6934,7355,7424,1815,8504,27329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3293,284958,54809,406937,11093,1281
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1571,10537,56652,3172,154,2998
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 655,488,11132,10730,5369,6182
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4153,30061,4716,50484,5473,644096
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 335,55163,285,6789,3440,3291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5315,4598,5167,266,55902,336
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 842,7248,9054,1409,1348,336
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2119,79587,518,128486,5962,728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3081,948,5744,145264,116150,4288
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7391,3934,4724,406906,51099,388753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7431,4160,824,26191,1436,5306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3460,929,2487,7840,231,2693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55283,4299,1543,112817,2767,490
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4306,7056,8243,383,9507,26119
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
245.540 2.392 248.646
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.715 | 0.053 | 1.421 | |