Mustafa Erhan Ozer
| Snapshot Date: 2025-10-17 13:45 -0400 (Fri, 17 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 2025-10-18 12:04 -0400 (Sat, 18 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" | 4887 |
| lconway | macOS 12.7.6 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4677 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4622 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4632 |
| 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 2155/2353 | 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 12.7.6 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: 2025-10-18 05:26:09 -0400 (Sat, 18 Oct 2025) |
| EndedAt: 2025-10-18 05:31:52 -0400 (Sat, 18 Oct 2025) |
| EllapsedTime: 343.4 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 Patched (2025-08-23 r88802)
* 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 Patched (2025-08-23 r88802) -- "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: 6602,7381,1608,53335,5971,1789
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 694,6183,793,686,51649,83884
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60528,8694,27125,1027,4357,3123
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3948,2593,4594,79572,4695,3034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 34,3416,2890,10094,23369,359
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5330,1649,7320,5631,2101,58528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2516,116150,9575,6341,7376,84340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10891,1468,1337,9420,1347,116150
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 129787,9968,1585,8818,9507,115286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55065,3708,27429,2166,1803,5409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 490,161247,2588,4149,1201,150379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10019,3383,4049,10724,51079,64900
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5836,493753,3938,3728,55024,7274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3123,2937,406934,3081,5825,6571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5972,406913,8517,28958,6445,153642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160428,6571,111,5369,5406,2641
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406937,55699,1493,91647,2992,1281
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3339,55024,7431,19,7252,1906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1281,2328,29947,51300,1514,2673
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6401,6550,2948,54902,84239,51092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4760,941,7132,4543,581,2592
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5096,55024,3490,84300,8600,1027
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 409,199,1436,64432,6199,6476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406922,5741,6928,6352,5213,4143
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51660,54931,293,22796,6517,5925
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1582,308,23129,401,3630,655
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5972,5286,4160,293,54675,7054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7879,51601,11231,1641,80222,1361
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1801,28951,7345,7424,1029,2908
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2908,3141,51548,7381,1586,85569
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10841,1232,55644,10559,57048,27329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7381,4878,50507,2310,2475,89866
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 115286,3709,7840,5315,51738,6248
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10159,26521,2919,2717,875,52
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3113,2790,3708,29928,63874,56259
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5369,56848,84693,6387,3375,265
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6891,64240,407008,2159,776,55768
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79783,8714,1491,3490,3920,406934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3242,1581,1634,3557,80270,3554
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 132158,83439,10221,9091,22933,6775
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6999,2990,3630,10166,4843,840
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9380,7284,434,4319,1312,51052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84447,952,999,3308,4889,587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3308,6521,91574,1636,4854,64131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28976,7035,81704,91574,2712,1490
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4724,5373,3293,5184,1950,53346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5276,91574,10013,3060,3158,121268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3375,1232,958,1376,57001,3074
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26175,5330,596,6786,6236,5581
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1594,8651,498,9971,5194,2159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4524,23543,7388,2147,11231,5798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55967,1605,434,4709,7019,91949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 513,6392,54210,29947,285126,1394
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2056,655,65993,3490,6319,7421
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4718,3606,7431,4314,54802,22820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1376,197322,2055,11131,23654,3554
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 376497,54600,5328,207,10102,4887
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 685,8504,4338,846,292,4714
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9919,60528,57104,1910,5805,2740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84649,401,64087,55270,3172,26291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5828,1346,150379,4288,1910,6774
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23062,56919,22797,4012,406906,81034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55753,4967,5563,1645,23417,162417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2642,6833,285362,2693,8639,2235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5727,10643,5160,84557,1645,2677
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2784,79068,7077,3651,5286,5826
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7384,6439,4312,3708,55532,341
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2717,53346,3507,90480,1149,440503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 410,2099,142,435,1734,7038
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1491,643181,6786,6505,3606,7275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55818,1728,23600,54658,1557,57176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79133,640,9374,3557,54148,156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7057,959,10,7098,51167,55750
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1803,6521,55503,23462,6908,6476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2745,37,7347,7841,210,55278
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5506,7407,3483,53345,55486,463
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8471,2799,51441,5506,6556,142
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1277,3284,5365,2720,5019,52
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10094,51119,285,3627,57511,79944
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4758,844,3081,1185,7040,1080
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7297,5288,29968,1815,5805,1649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26291,1629,79731,1571,7381,1869
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27247,401,6550,3373,6789,51458
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 655,6374,4299,790,1786,1594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 284958,23516,389,125170,6464,3636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9607,388,1589,4012,3948,5972
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3373,2778,537,4842,5406,5256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2998,10682,3060,255308,2683,3958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3159,487,9365,7056,81704,5599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5327,1644,216,5409,3630,4318
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1149,80270,4887,3643,11136,513
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 788,7528,79776,4137,116228,3630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7391,23369,4758,6550,55699,4854
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2030,10874,842,4744,28951,51117
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2673,5826,80222,10875,6772,2597
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 686,3174,3995,5167,407004,1327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 842,5826,5727,200186,859,89866
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2932,131669,7390,6774,1557,2937
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3569,27232,84693,1588,407004,406
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7528,4697,54549,203068,153,8560
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200810,406934,4069,9663,952,2793
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3174,7388,406,285126,4552,6569
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407045,627,656,5824,2805,1369
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 594,7038,7025,5207,2309,4299
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1843,6999,1581,3624,56848,6569
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5092,3290,84274,5825,50814,55526
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2158,5230,4311,64801,26191,51004
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3155,10667,3312,25839,3779,54331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 89874,427,50674,51293,7915,1950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56052,795,79144,4718,5962,11213
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6901,6262,335,56652,79644,842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 491,2908,5741,8659,6390,427
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5799,9698,7295,132001,10642,63874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4976,1374,55163,5213,1490,51128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10724,2948,1027,5442,2538,54915
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
114.119 2.008 116.515
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.763 | 0.048 | 4.012 | |