Mustafa Erhan Ozer
| Snapshot Date: 2025-10-10 13:45 -0400 (Fri, 10 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 2025-10-11 12:04 -0400 (Sat, 11 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" | 4864 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4652 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4597 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 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 2148/2346 | 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: 2025-10-11 05:06:25 -0400 (Sat, 11 Oct 2025) |
| EndedAt: 2025-10-11 05:11:26 -0400 (Sat, 11 Oct 2025) |
| EllapsedTime: 301.2 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: 4780,2834,7466,27249,5860,2820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8678,8659,2166,477,10911,6934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10128,7098,140803,26088,10991,6183
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3098,2108,959,131118,1589,2632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116931,5162,2739,2495,33,22978
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6338,8877,6720,57678,4282,728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5315,8714,216,22978,558,4311
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79587,43,6696,54675,388372,11019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5617,7295,22845,5139,338,55863
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6714,6342,5139,5346,5745,8309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6401,1757,5122,4286,9498,150379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83548,3250,26762,253559,100506742,958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8431,4312,57176,3489,6554,57048
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 31,506,64087,10874,1029,5265
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3034,54600,7412,572,1373,8772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5728,1348,7347,407008,31,9054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3087,10911,4358,6248,1737,7076
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2581,1798,132,3423,407006,100506742
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2243,131118,92667,4524,1588,4716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1175,5091,6716,8462,132,7412
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 656,2166,29078,83985,92609,3700
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8932,29928,389692,389,4700,5161
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8675,31,5467,596,81689,538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54896,6535,23054,1373,796,1675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26175,51441,3596,9779,4313,6890
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 335,57817,285848,407006,350,80201
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10724,2847,56999,57085,26762,56729
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5194,56923,498,7295,1444,8722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5618,1718,54148,100128525,10379,27125
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7167,5770,583,2495,27249,57176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2572,84947,3291,121268,1071,51555
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79731,9420,2184,28957,101180976,11136
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3358,197322,1593,2571,51601,388372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 665,4594,5162,3643,9630,23304
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4760,3357,7274,364,51604,10059
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1185,389692,5293,84342,30061,583
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1208,6888,189,9698,5442,160287
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3240,409,1282,91949,4702,5372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6356,9388,1717,55343,10875,7390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84275,9388,5069,55503,1644,54896
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1392,2539,3034,1393,2717,8802
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2166,54968,51478,819,642489,83548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 859,124976,7100,650,1558,498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6356,80222,6908,7167,1634,133522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 197131,999,4285,89874,4724,1208
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51181,6329,790955,2587,2266,2791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388372,23395,790955,8675,2115,64788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5295,9429,3991,407011,5770,5370
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8504,7422,1185,57128,859,1650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5594,4915,54567,7320,6716,26503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8799,54658,51052,2876,9056,3351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6347,316,6720,1645,91452,84274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3418,27429,5270,5194,5580,51103
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 208,3685,2647,5828,3115,5190
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11255,406938,7319,1361,3559,3066
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22868,85569,84889,54798,3099,948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23054,51441,84340,2740,1591,7879
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4982,5096,3791,5241,5213,23062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 587,1490,728,6554,4609,2932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27141,5967,253943,5009,79001,64900
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3358,824,11095,355,7167,148738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7289,19,79796,387,5713,868
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 161247,4878,3643,4704,3250,6517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6775,2864,50814,868,51082,1149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6236,4718,54575,132158,23400,29928
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 654,3624,308,2629,4853,345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 48,291,22933,3658,3159,116228
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3375,445,130589,6566,5824,652
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64801,2308,2314,2696,1950,487
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10316,1893,4729,2739,3728,1802
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8660,1582,91942,284184,8799,284958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3159,708,2697,6356,2157,10157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51422,131669,4319,9429,29843,6352
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 819,3065,219,388,9131,2587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9927,509,6927,348,539,2335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1588,114814,389692,133396,387,2100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2524,51660,5184,178,9692,5255
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64805,1718,132158,5837,1442,5189
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2588,5743,4846,7376,7915,1544
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5321,1968,160287,22845,367,26291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5730,8504,4159,2717,593,9388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51649,10094,1230,6772,83854,4760
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60386,7019,1230,2653,3685,156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2516,1185,57192,10724,4137,2804
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 498,374291,3710,3938,340024,2919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7325,339,2647,2864,28951,9607
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7319,10935,55753,2310,5581,23291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55788,229,3485,493,539,868
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53905,10991,10250,32,1244,80267
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1337,54915,6341,255738,79796,9559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1371,5162,90480,10875,3250,51085
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1182,2696,1786,7941,3978,8813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169026,2235,2760,23411,255738,5468
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3479,6382,81704,3953,5228,275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1718,506,55670,84833,5621,37
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54802,407045,51548,1718,3565,91452
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1802,7941,5787,7025,5365,6714
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9759,2784,1843,29947,55163,6774
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5538,10682,3636,23175,5239,361
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407010,1499,3784,6402,1537,1734
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1786,401,7038,728,22978,3948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4694,79644,85476,111240474,197322,1589
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1019,344905,55186,56606,10642,6261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1992,5745,8813,51204,3460,5329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5264,84705,23753,23410,1737,6401
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51081,57678,239,6714,134,2713
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1586,221458,353500,6715,1348,6339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1435,2876,5274,819,26175,285362
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1348,8462,8841,5836,79585,292
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6927,7916,6352,1646,23409,2588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9498,2101,57817,4719,6932,55644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6794,54148,5967,2950,79731,3065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6564,5330,10382,57511,4337,84274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10157,4843,2203,221935,1728,3250
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5594,867,10911,4337,1728,55163
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
64.547 0.910 65.591
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.667 | 0.049 | 0.872 | |