Mustafa Erhan Ozer
| Snapshot Date: 2025-10-06 13:45 -0400 (Mon, 06 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 2025-10-07 12:04 -0400 (Tue, 07 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" | 4853 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4640 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4585 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4584 |
| 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 2143/2341 | 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: 2025-10-07 05:00:57 -0400 (Tue, 07 Oct 2025) |
| EndedAt: 2025-10-07 05:06:53 -0400 (Tue, 07 Oct 2025) |
| EllapsedTime: 356.5 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_1.9.0.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: 1889,4851,6448,55863,79736,28951
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91869,92935,22820,2647,6199,3990
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3054,2835,9382,8600,4049,84701
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27010,4285,2937,6718,3570,54600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84987,3685,55644,26521,3651,7388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 840,3948,10,4723,551,1436
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4705,347,5214,155,57620,361
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 137994,7056,729238,6340,55186,5331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85365,4915,55526,83439,2152,2559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9415,256471,2539,6582,5365,1906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1232,210,3930,5313,55186,7248
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64689,2101,51604,4547,55278,5068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3383,4627,3958,53345,407004,9575
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56997,1182,5288,2146,3712,85446
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7351,10226,4232,9759,10577,5009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4319,84889,3692,128486,3636,23654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200186,10667,4694,5468,22868,7030
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6938,4035,867,8803,25839,2745
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3304,6582,407011,57215,54476,6721
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1436,3569,6347,22852,26503,5506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2720,7225,200539,1537,6811,10157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7220,1537,8772,3098,11095,92609
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9559,3358,11132,7098,10965,1802
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6517,3373,4351,5327,7915,10935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 65080,8942,203068,5972,1650,9698
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10128,1355,100303755,1022,1277,6927
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26291,1716,558,8471,2641,5825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338,5837,200205,1909,22797,3948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51085,84447,118,406913,79133,8813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11231,5601,7167,5207,4709,2628
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2170,9971,11035,5190,10577,388743
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203068,2992,6517,7019,10841,5139
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2696,338328,27235,5241,5787,2677
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6616,54539,3162,2678,886,28951
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 124454,138050,114548,2944,2767,54798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9868,1352,84275,582,1361,4846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1789,6868,79068,2571,56606,5644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1606,65993,1595,5595,10842,57380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9380,3284,2805,11222,185,116931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7389,6789,6898,51004,3945,5369
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22901,2335,79731,50507,1435,10599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 364,10643,26060,7248,123,79944
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203,6390,23753,2180,406938,801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2806,4544,2678,2896,22868,7274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5176,3576,1558,4318,52,1798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5972,2328,793,90480,952,23236
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133,285126,2113,5799,79144,5499
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4715,25915,89874,1582,8648,5053
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1649,7084,79644,4854,847,4684
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388,104,644974,8665,23556,152926
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5629,10891,60684,8243,8567,4715
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3440,3373,4716,574447,6566,11035
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1327,116519,55037,3358,9971,124976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2688,7515,2820,7494,5228,37
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 509,8802,2108,8932,7289,6891
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2584,132158,5723,2919,729238,2335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7879,516,8879,6505,2949,26521
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3692,7037,1444,3643,5256,338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2629,57511,2348,55340,285362,80347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407024,10559,3082,124976,2308,284958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4758,7172,54915,25813,486,643181
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5919,1393,285848,590,11136,6531
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3033,2632,54210,7078,8722,358
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2119,125988,27089,7466,401,7388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5901,3074,63931,5315,56259,6602
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 162417,1786,6770,6236,26227,5162
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79068,128486,3251,5498,1813,2593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8604,5837,63931,57570,3663,1859
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4705,6535,2584,1027,9131,496
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27429,4976,406906,1757,10965,4144
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57511,3645,6888,1544,4878,84342
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2936,8877,405,356,55863,5261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 339,2950,6868,1201,5276,3293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 268,83884,4744,479,4886,6263
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6556,655,3486,58528,26191,5428
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 868,6347,221458,84987,51116,7078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10020,197,3980,350,5091,7320
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54344,4722,5329,407024,5160,80270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5860,3728,43,5644,55343,100128525
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 411,10423,868,5579,2334,55526
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 152078,7098,3559,779,10423,3329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6382,205327,1351,3551,6548,55768
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3034,6374,2584,5250,5291,54931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100303755,7384,1491,7841,150379,7097
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3098,64087,6647,3551,27329,665
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1909,350,2203,4828,5264,158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3482,9420,514,5787,6775,79053
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7287,11132,1186,3813,93587,2632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9507,26088,5369,23129,9415,84342
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79783,10616,1029,7225,4256,3779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1493,51181,197131,1230,84275,7355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3980,23474,405,537,83548,205327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51422,728294,83439,10000,80224,10059
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1629,51083,3308,2109,3784,6505
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2591,80207,6339,2113,54915,8431
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3293,2101,1491,6602,2110,53632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 463,7084,2335,718,152078,51092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7048,1675,64805,63899,54658,11213
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4846,1514,2006,92609,640,231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55503,5236,6356,7372,26503,4760
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84557,1149,1803,3290,54577,1586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4942,10580,847,31,345,23038
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 706,5053,5176,8743,79633,4982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5194,1392,1621,7076,4598,169792
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 656,9054,1232,325,83854,7057
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3952,5644,942,54576,7078,79158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4700,401,2170,959,4760,353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10457,55331,2820,3159,3418,644096
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26060,8431,56938,239,1022,84447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2745,26235,1558,2161,4233,5019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5654,123099,6389,3082,5345,9104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6821,57176,23369,3284,10682,7840
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3606,5345,3157,3570,8567,54896
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57761,1468,2309,5824,121268,7225
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1339,51144,140803,5092,5264,3304
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
116.522 1.608 118.481
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.744 | 0.076 | 3.547 | |