Mustafa Erhan Ozer
| Snapshot Date: 2025-12-01 13:45 -0500 (Mon, 01 Dec 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 2025-12-04 12:01 -0500 (Thu, 04 Dec 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" | 4878 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4624 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4669 |
| 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 | | ||||||||
| 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: 1.10.0 |
| 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: 2025-12-02 05:06:42 -0500 (Tue, 02 Dec 2025) |
| EndedAt: 2025-12-02 05:12:34 -0500 (Tue, 02 Dec 2025) |
| EllapsedTime: 352.5 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_1.10.0.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: 23530,325,25839,6721,8813,2034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1347,2645,4843,197322,3783,104909134
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6392,5276,4524,3559,1371,2495
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3034,10616,6354,56999,22868,959
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8842,51293,2688,493,6515,51608
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3170,2119,364,81033,80331,105372280
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4878,432369,1361,79144,3357,7030
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5467,54902,5507,5770,3290,1468
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2760,5919,92483,123,29926,5744
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7407,2166,27329,582,83693,6550
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 344905,1591,6888,7038,87178,2878
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6579,3980,51604,3066,51099,5599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5617,2804,2739,3295,9054,1489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6182,5592,7350,10352,9698,1029
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1634,3460,5618,216,138050,90480
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 640,3953,8932,728294,6714,6347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6339,5193,217,90624,796,4656
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6319,150379,4285,4654,3728,2834
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 119559,3087,6564,3423,118,200186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7320,54658,2305,55768,22820,155
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4069,3458,57017,627,3375,5184
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7409,28951,4704,3483,3073,2157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56606,23411,83693,291,285,1499
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2834,4779,293,79585,3638,51144
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4722,4723,3486,4143,4684,6338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 120227,3312,125170,2998,3157,2100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6354,3170,23062,563,3990,2064
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6647,4668,2587,57380,3065,51611
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27232,5713,7097,156,6401,2475
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7498,1471,129787,1728,7132,80267
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 37,2155,6788,6391,9382,123283
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4779,3291,151,5369,10000,285362
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4723,2934,10559,4319,4160,3958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11095,5188,79158,26119,1559,2063
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 175,1374,819,64087,9630,8841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8877,58528,4502,6898,2739,7386
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53632,54675,28976,2158,2639,3784
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9512,7384,1443,7942,2786,5191
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4144,51206,6514,567,1401,9698
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3357,55967,387082,162417,432369,23400
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2101,160287,26227,1557,2100,51204
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84334,9095,3949,2932,9559,7037
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3291,10935,5741,7320,26235,5214
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91647,632,3703,1345,211,4313
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6716,3663,5078,4159,9104,359
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4338,241,10524,253943,11093,130120
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3978,6351,8743,1348,53346,100131801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4704,55753,2731,4668,5465,2806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2593,8799,650,113235,54802,2903
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 401,23654,5369,3240,1606,325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3304,2475,4337,7172,7077,539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27089,410,7376,3339,51021,84889
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3630,28976,1029,3030,326625,4803
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2260,5195,685,60386,3553,81570
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1345,5588,367,2314,7295,5962
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55788,285848,599,5053,2524,5291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1075,56302,51082,308,2271,10644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4144,6262,2820,119559,26119,583
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3416,3949,2305,2030,5728,1347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84693,6748,55278,1182,83548,1893
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3988,407007,6906,440138,23543,308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 335,116085,2158,407011,1641,203068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6535,341,359,1340,54806,23543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 308,1859,7386,11231,1717,3073
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23417,53335,341,4843,57176,5601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 275,8675,1071,7384,632,84447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2947,10157,3791,7422,1595,7409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6948,83548,8567,11254,2308,51081
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9414,5243,336,5588,335,867
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5744,1352,2584,643181,652,1644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8560,10857,51117,3645,56302,241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5594,84701,51052,3157,85476,2597
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 121268,1200,4846,5654,1444,57620
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6576,3293,6389,388585,9365,4705
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83548,5507,8504,26354,83693,353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92483,7025,85476,2998,1629,7076
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3728,4779,1080,3759,55037,5207
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406906,1442,124454,353,2876,885
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26119,64116,8659,4695,84706,123
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57107,2203,388743,3382,3559,22820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1594,11035,51004,80207,27247,7350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9559,7428,170302,3460,7076,3155
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10094,53632,7157,665,203859,5499
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 216,2745,1234,3141,3170,410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1355,406947,7078,201595,729238,5580
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8195,2266,8567,10559,847,150379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4069,1555,539,5506,8743,5563
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22796,432369,9377,51649,729230,28957
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3489,6521,181,7056,6339,9409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7498,1801,175,7319,10059,94235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7422,57176,80070,23163,100303755,9429
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2581,405,2936,7037,10724,5621
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29947,9382,25821,801,2934,201595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7284,4314,116085,479,3767,2693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10577,51167,8050,3980,2052,5594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1348,4313,56938,133396,8195,7276
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406937,1644,100128525,4803,6351,3141
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1621,11093,129787,1968,54575,6248
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5654,407010,585,4720,5584,65985
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4843,4669,2572,388585,6521,51081
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 285362,53345,5195,5207,325,3099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 213,10599,6579,1369,2030,7450
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3875,5373,2590,7076,51167,3717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 353,5373,4925,10457,10243,10159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8651,5824,2695,858,6236,1559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8195,5925,28957,3569,22933,55024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83693,9498,6515,9572,5571,5184
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 886,51092,54600,2746,3480,4233
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6868,1497,388585,9241,55937,23389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10128,9498,2582,2804,1629,644096
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406947,5571,2118,5498,3098,9332
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9630,6382,1356,91452,1559,10682
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55340,6786,64805,583,6374,10
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 821,2064,2696,3101,952,1634
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7422,7350,2052,6342,79776,2677
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
117.447 2.274 119.854
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.639 | 0.024 | 0.911 | |