Mustafa Erhan Ozer
| Snapshot Date: 2025-08-31 13:45 -0400 (Sun, 31 Aug 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 2025-09-01 12:04 -0400 (Mon, 01 Sep 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4824 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4615 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4562 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4541 |
| 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 2122/2320 | 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: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings SVMDO_1.9.0.tar.gz |
| StartedAt: 2025-09-01 03:44:22 -0400 (Mon, 01 Sep 2025) |
| EndedAt: 2025-09-01 03:49:25 -0400 (Mon, 01 Sep 2025) |
| EllapsedTime: 302.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings SVMDO_1.9.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/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 4.5.1 (2025-06-13) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-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: 55670,3717,1491,351,10911,54802
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1363,51649,640,55270,9241,54805
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9365,3284,6535,55699,2695,203
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2158,406982,4702,2584,54476,10841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1200,35,5068,2572,340024,10537
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5860,1789,26762,57818,3779,4337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407004,2694,3091,10935,100529063,150379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23474,506,587,1401,5445,51021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1186,8678,7030,51116,9945,55967
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1185,2034,10157,149461,10644,4089
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57678,56729,55768,5901,356,4724
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81033,6794,6521,325,1027,3087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6582,3569,54106,2260,5571,1636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5792,10226,476,1585,5213,665
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 686,11213,23462,653509,7355,26235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6392,1268,491,3783,3304,51128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23590,8195,5228,3482,570,255308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1585,8431,231,284184,4714,3073
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 581,9131,196385,54106,7099,4780
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3425,84902,80224,2688,9056,6811
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123263,7292,8945,9180,10382,2118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3383,6906,55937,196385,200539,1890
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26088,6354,3284,54982,4144,23417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6554,27141,5787,7037,7841,7450
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5409,27232,116150,4125,1608,664
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3562,5618,2110,4594,2271,7124
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4543,6390,54902,338,1558,1675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100529063,6319,7840,2584,55753,2890
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2157,2063,55163,1621,23400,56848
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493,8813,2785,4035,5184,629
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407009,3636,120227,64788,4035,185
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6505,1678,148738,8818,79158,84062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10352,133396,844,836,2932,642489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1508,3685,11136,55630,221935,358
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2244,1312,1734,4702,6678,54675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 344,55818,54106,124976,4125,10013
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 153,4668,5167,6609,55858,6648
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25813,256471,56923,203859,148979,1606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2475,1373,6382,5563,149775,2109
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406938,80347,51555,54931,57001,23516
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3598,54148,56652,3710,9575,4594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6908,55768,7480,345,253559,686
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5161,8813,9429,2944,6009,2688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 389,3145,8517,5243,84902,3920
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4724,84693,2159,1606,84701,410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 217,7077,1757,1491,10537,293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1629,5617,55037,3953,213,3557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51181,2053,148979,4306,65993,55937
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2653,63931,2115,5538,92483,2878
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10135,7295,5563,2934,1072,80339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5967,84557,7172,2778,7124,2271
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51300,84705,6566,326625,509,4654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1022,11232,6182,1589,64131,268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3673,4547,54539,2710,6929,22796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 284184,57215,6888,1244,29960,10965
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5728,1339,1582,4842,255231,1601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3060,200186,51458,653509,5581,6351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84902,10157,6492,7076,23417,4598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55503,5826,1312,79053,10642,1270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 130120,2243,1593,50506,5409,256471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5445,3033,2169,2170,2688,4860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 291,2677,6678,4846,5331,9021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11035,7287,729238,427,640,115286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84300,57017,2629,26291,411,5313
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10020,1859,2936,793,4744,5824
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 518,10221,6391,1843,10159,3375
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1268,79001,5789,1340,5826,25828
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60,5370,1468,3709,79796,3159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2908,6548,5406,1636,51555,100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4143,162417,255231,3489,55937,9451
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6324,29843,100303755,8050,8802,4351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5836,25839,2695,5331,55902,1436
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5236,4311,5207,5080,55065,391051
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9420,55699,9380,3558,5962,10457
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3684,200539,6579,5161,5728,3485
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 156,132158,221458,1442,7840,23175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 275,5584,26235,686,4143,1555
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3418,2516,104,5321,23556,5601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79585,3945,100130015,51083,55340,79087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2752,445,347,115286,1678,3158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54675,10874,644974,26762,10457,3554
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6324,3978,2588,5702,1029,6928
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1353,7167,54915,284958,51422,493753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200810,1581,2739,5551,50506,57380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4351,4288,56919,5467,125988,3480
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6382,9095,29880,4973,155,4702
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200205,868,2683,5476,539,1641
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2591,7167,1589,3784,10128,5728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 30061,2101,3486,268,131669,2847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8862,1968,9498,6341,7297,8517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4879,5091,3899,2776,5631,2308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90480,2280,4688,100,583,55283
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 93587,4982,5092,26235,4942,6391
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 596,3329,3988,1606,5837,140803
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54331,3958,1468,54806,1029,3418
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 132001,2767,3600,5160,3507,3559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5213,1558,768239,7347,5293,8841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56923,1282,5321,6261,7252,958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7038,10875,3162,350,640,11131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2790,952,8772,6531,1586,84947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7376,1629,1282,7528,1056,10019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,1786,241,6392,283120,2064
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1588,2194,359,6932,4803,596
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23417,203,2990,3066,3600,132001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388585,1557,4713,239,5188,79736
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 221458,5825,488,197,83884,3700
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3692,1869,1468,6389,4879,22796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7480,1340,2152,1634,79068,154
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3570,2235,776,2904,5654,29947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 846,5188,6647,2745,4668,9414
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 374291,80222,1644,29929,1859,5126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5781,3482,107075310,2064,10269,3645
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1815,9332,51021,51548,4720,1201
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6897,29078,1489,26354,2746,9054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23543,2063,3358,2203,55065,2713
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
65.259 1.042 66.427
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.661 | 0.079 | 2.007 | |