Mustafa Erhan Ozer
| Snapshot Date: 2026-03-13 13:45 -0400 (Fri, 13 Mar 2026) |
| 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 -0400 (Wed, 29 Oct 2025) |
| Back to Build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-03-14 11:58 -0400 (Sat, 14 Mar 2026).
| 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" | 4892 |
| 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 | | ||||||||
| See other builds for SVMDO in R Universe. | ||||||||||||||
|
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: 1.10.0 |
| 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_1.10.0.tar.gz |
| StartedAt: 2026-03-14 04:38:46 -0400 (Sat, 14 Mar 2026) |
| EndedAt: 2026-03-14 04:43:45 -0400 (Sat, 14 Mar 2026) |
| EllapsedTime: 299.3 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_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.2 (2025-10-31)
* 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 ‘1.10.0’
* 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 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 ‘1.10.0’ ** 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 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
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: 5538,2678,1606,2798,6579,4694
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10157,4537,92935,567,2936,2845
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3480,8842,57620,351,56052,56945
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6834,84334,54210,4702,4548,79796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 130589,629,3329,6356,5321,335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493,51293,291,4716,3091,116150
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123263,6319,1509,3783,6794,6938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10094,1786,825,26354,492,2203
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 24147,2805,275,7471,5594,594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 284184,407006,1230,4524,10135,51128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 486,388743,28957,539,3875,4973
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 463,54575,5095,22868,1621,654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3791,79602,3773,22845,2118,29881
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29880,5213,191,2487,6748,3458
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4256,5595,5162,3312,4825,8462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 627,867,5192,22901,100303755,30061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1843,3172,54476,55750,3953,5442
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50943,119559,55270,4779,10938,5080
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5009,5562,3673,256394,56606,79944
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493,2791,5836,2475,283459,1906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3638,4843,84947,56848,8803,5288
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100130015,1956,3553,1815,27344,9997
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2932,104909134,491,5257,347411,51293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 33,654,10457,104,56729,1027
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2194,6834,7919,9076,10457,3123
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6351,11254,3489,8665,1392,4598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10116,6908,3077,4878,4502,79133
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28951,10229,1394,3065,1892,5971
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85569,186,11231,5970,344,4825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 513,5744,3082,9415,5288,3356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3988,10128,1471,867,9414,6901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 18,4337,3929,285,6374,3062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1634,28234,5836,10644,142,11096
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4889,84340,4288,6261,100506658,208
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 121268,5830,5592,488,1182,5444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1605,1586,2158,3606,4089,4669
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55034,1072,2495,2597,4609,5501
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5971,4828,8651,83733,28957,2152
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79087,10379,9429,1650,5139,3636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51167,56999,7372,2587,133,26088
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9779,407040,10686,64087,3899,1282
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51604,26503,169792,123099,54552,4712
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79944,7841,5092,2998,1869,7347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 285126,8651,5967,55343,3700,1910
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3174,585,5428,5068,596,5972
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 760,3684,2944,6932,51601,407008
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2572,5261,29947,7841,5162,3117
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3480,3159,694,387082,1646,1149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29078,5563,123688,1021,3875,642489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5291,866,10116,10857,51441,83985
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6198,351,124626,8567,84340,120227
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100,3636,4513,655,55818,23530
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55858,7422,942,268,3032,440138
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6513,5579,4803,22978,4855,79585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3284,1185,388753,476,6649,1203
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51,29881,4889,6530,2006,389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4726,10352,140803,3562,6550,9332
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1244,3953,4922,1558,6834,4338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10400,2328,9056,5313,55503,4744
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84504,2695,8243,407021,55532,55630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 361,38,2984,8665,4524,3990
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5465,358,60528,5364,51081,760
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 229,175,4541,9241,6648,6715
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6470,91869,169792,6357,285362,3988
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7915,3240,11095,81793,358,3418
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22978,1071,406947,3174,84300,1588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8877,3759,54704,665,6609,84062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 185,5009,6198,9091,3559,1594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6519,5291,2006,177,22845,57085
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6402,54798,5261,7082,2166,5498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 283120,5787,2876,655,6794,3065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 87178,549,5092,32,2948,1075
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84504,9104,7480,9575,149461,231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5331,2739,407010,6898,64432,79783
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29929,213,728,10965,51117,80224
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4351,867,3958,7919,2787,7026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3490,2332,158,83693,1734,335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2629,2690,5562,5581,1351,2548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3728,8694,493,1270,83693,10911
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55863,160428,488,5286,23516,64601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1605,285,4143,9104,2271,22820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5250,10466,9380,3939,539,27235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1080,490,567,80331,6583,4149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1605,3113,819,5313,5080,5207
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1910,2271,26503,100,3119,3559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7351,2845,1636,2746,1345,3054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1436,1645,91949,790955,10911,5293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3949,6648,4351,23475,3460,5071
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3645,10094,5105,2559,4683,868
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26060,64241,10644,952,3113,4000
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123,29926,585,3638,29928,10686
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406937,3651,7345,7942,391051,84504
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3483,8722,94235,9971,10686,3087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 148979,2787,2159,359,6696,2934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29947,3170,2592,10935,4543,55644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1606,5191,6182,51103,2243,54658
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3485,5644,51079,5702,56606,7048
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2559,24147,11136,79944,509,51316
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1807,7038,2683,4539,23274,407010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57107,25839,796,2647,6523,516
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1312,5365,6199,3995,4684,406934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388962,51181,4256,3034,373156,4519
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7019,9420,2052,5723,51608,54148
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10935,10841,48,1950,3458,10226
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23038,11136,2053,54567,92935,2729
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3938,1203,5228,316,100506742,1149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84869,6356,7287,5551,4282,7466
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8710,7097,364,1019,5069,10991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3988,57761,4143,1555,3636,157848
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 94235,6464,6716,4705,4512,55037
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6934,7355,2760,2628,5126,26762
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 177,3293,7248,23417,203,1675
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
62.651 1.292 64.080
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.672 | 0.029 | 0.851 | |