Mustafa Erhan Ozer
| Snapshot Date: 2025-12-22 13:45 -0500 (Mon, 22 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 2025-12-25 11:59 -0500 (Thu, 25 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" | 4883 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4671 |
| 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 | | ||||||||
| 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: 2025-12-23 05:06:34 -0500 (Tue, 23 Dec 2025) |
| EndedAt: 2025-12-23 05:11:34 -0500 (Tue, 23 Dec 2025) |
| EllapsedTime: 299.4 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_1.10.0.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: 958,1281,3598,1581,2784,11112
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56999,653509,57570,6513,1843,3339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 819,51085,6319,85479,1270,2244
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5264,5562,4976,5162,9445,3627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116519,644974,2987,7289,434,22797
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3570,5787,5329,5465,64432,4694
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6514,406937,79661,9512,574447,1909
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1675,10891,462,11136,6338,9779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55503,3356,63899,3598,133522,2588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5193,3553,728,401,3375,3123
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10753,5745,867,55283,5787,2161
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81027,5644,51083,1734,640,2689
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4056,6391,23389,80201,6748,116150
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 846,2805,26291,23462,8560,355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84706,7320,407008,2593,795,847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5241,3357,10195,56652,5962,1608
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 708,7099,118,3170,4668,7019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4915,160428,3667,56652,109,1075
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5071,4539,5579,6401,9927,2776
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64131,2101,1352,8243,23530,84300
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 517,132001,151,22933,3552,2876
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2159,694,3373,197131,2693,10686
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6938,3958,8604,5740,10226,6576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8772,3283,7376,84504,79944,3122
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 350,7347,632,8243,50814,1356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2063,3586,4232,4853,6550,5295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123688,8803,26354,54704,51083,796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27249,3791,4720,51167,7040,5009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57570,292,1559,940,10730,23411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1601,2118,2791,4548,63874,8651
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6772,2063,476,2584,6519,1585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4137,10911,4313,56945,558,15
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 137682,51649,6908,6999,4524,50484
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 105372280,84889,10730,3329,23543,440503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8504,4282,4716,2110,5507,60386
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5193,9382,10891,2115,3875,7078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79731,83854,409,5105,4609,5507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 113220,2542,8408,6868,1789,283120
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5241,8714,26119,6554,4049,79053
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4288,4700,3250,6182,6492,596
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9498,51024,65080,2729,57192,407008
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 563,200539,6833,3242,795,509
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 487,79144,1641,1019,79944,6897
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2539,2712,51099,25839,5832,388962
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 885,4351,253943,150379,1443,28234
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84504,2053,2517,1869,3091,51092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 253943,1355,2689,9692,51117,1757
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6788,6317,5590,101180976,8050,5052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 594,5798,79587,4598,2950,3293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10250,55630,2752,3373,213,10616
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4123,8714,10911,1641,54902,407007
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92609,4843,116519,1607,92935,345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 130120,5315,463,2878,1444,8642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2495,55818,5789,3717,940,811
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6999,2673,2632,160287,6891,2582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4233,6351,3991,79934,7172,4915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54576,4915,92609,9630,340024,5805
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3813,1718,1277,5445,1636,80070
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5770,57570,57586,406938,596,6716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6535,51082,5919,23600,1607,23753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6236,9415,2690,7038,7431,241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3329,51004,56259,5350,9779,3033
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 643181,6716,8504,51083,9572,3586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7841,156,4669,9382,9104,56652
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5277,54577,2876,4023,5590,3156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1201,54476,2937,7389,7076,3990
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3813,55644,112817,57817,54982,48
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255308,761,131669,3077,2641,406913
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3630,10059,54539,795,2332,2788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3606,10333,9575,4318,54106,491
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1436,5805,2495,2030,2395,5660
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5211,27329,2235,3596,55034,4851
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123099,401,1893,3576,2147,3145
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2936,6550,89874,2582,189,92667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 940,2118,51555,81027,1340,1716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79783,2516,3460,811,6583,4232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6521,57128,1363,8408,5445,875
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8431,89778,23530,540,48,5068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2710,406991,7384,2697,57678,5346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8813,2932,177,2908,9526,132
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 189,79158,100506742,51079,10062,8651
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 846,3791,388743,5860,6476,3486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1203,1361,7355,8560,4609,153
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10560,8087,407008,268,201305,335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9054,338328,56302,3170,255027,6531
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85365,1185,5781,9420,7030,9572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100128525,4714,5713,2638,4288,123099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4716,2538,153642,388372,3357,125170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4718,4790,26762,8195,4285,116519
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92667,654,407007,539,1889,54675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9672,1524,3034,383,5207,275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2949,6523,203,51601,4149,346171
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407024,4502,23410,285126,10269,7057
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 563,138050,1559,9377,175,7422
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8567,9374,23274,3638,51649,100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9021,5792,22845,462,83693,22901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10221,26521,406934,6391,3356,1950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1555,2712,7840,7388,539,1234
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7388,583,79949,10352,496,128486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57380,642489,4149,130120,463,5727
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4541,10991,7528,10841,4758,116150
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54931,5644,5741,87178,3995,2152
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3479,55902,113263,7167,4702,410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8050,200539,5192,54578,7372,2305
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3145,9575,4715,57586,5799,57215
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 241,2688,29880,2835,708,253559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6772,9415,8884,4779,432369,5161
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2908,2200,4040,7319,6564,2720
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9104,197322,152078,53905,2752,5551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4712,6556,29881,842,3596,92609
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10062,5740,7157,56999,353,57128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84275,5306,4552,3308,3685,8471
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
60.781 1.035 61.948
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.751 | 0.082 | 3.888 | |