Mustafa Erhan Ozer
| Snapshot Date: 2025-10-01 13:45 -0400 (Wed, 01 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 2025-10-02 12:04 -0400 (Thu, 02 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" | 4844 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4631 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4576 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4576 |
| 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 2139/2337 | 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: 2025-10-02 05:13:19 -0400 (Thu, 02 Oct 2025) |
| EndedAt: 2025-10-02 05:18:23 -0400 (Thu, 02 Oct 2025) |
| EllapsedTime: 304.5 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: 91574,123,4828,5444,729230,4118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56623,1909,5191,5741,55503,1537
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407024,2729,6720,10577,387,7450
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84889,7466,6319,9692,7355,2063
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56999,407007,518,2713,325,7225
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 846,5122,5331,1717,728,1393
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407010,54802,3117,3557,5962,325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3123,1347,3507,5444,407024,5443
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5364,5824,617,23600,11254,1606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5919,56997,5798,867,34,3490
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 629,1646,1584,9759,84572,153642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 350,7350,3482,9332,685,55788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2169,1786,1348,4695,3710,26503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11019,121268,3117,1436,5476,1369
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84889,1581,8932,37,10580,7390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5364,5713,1493,10935,7471,5053
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10221,6794,22933,2582,10457,27010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2785,229,929,5071,3658,6696
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2539,211,5501,55526,130120,125988
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2628,266,6389,4049,2542,3158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3791,8818,51079,5265,3703,847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5792,79949,65985,1201,152078,4544
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80339,388753,885,6932,255308,7026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5069,7077,3170,7100,2932,7390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55902,3703,2593,5465,959,60
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2767,3081,4709,6236,285848,51176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3995,26354,4306,387,518,57128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4338,56919,942,23163,10466,2169
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53632,25974,5781,3383,2475,5230
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4337,26119,23753,197,6748,3293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4337,364,1374,9575,2788,1641
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85479,3373,116150,183,9663,51117
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 48,55503,3988,3759,3087,2101
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4697,10559,1270,64432,64087,8471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6319,2591,4160,3073,6714,338328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51601,3062,2053,6556,1605,2932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51079,26291,3562,2990,284958,1544
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3099,25821,3458,7038,7048,84557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 718,5265,85479,4069,24147,1409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57817,5105,6556,27329,284958,2653
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9498,432369,7345,23753,4982,51241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6324,205327,1075,129787,5080,4843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 126328,10157,11093,57017,1646,2592
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51422,10166,27089,92483,8714,5962
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2597,6347,384,5313,1595,100303755
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10874,116228,84833,51316,2235,5315
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79602,886,56945,54205,10842,186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23556,3291,582,3418,4598,1594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3485,4319,5365,10221,308,51649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 347,201595,367,10724,1717,885
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1581,64241,2548,3929,1392,27089
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169026,7941,10724,9507,200205,867
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54552,10935,1738,2260,4851,358
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 126328,440138,92935,123,8772,54600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3382,201305,8799,6721,84889,7494
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26088,2487,4358,10159,2673,55532
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 18,409,3636,5071,55024,5291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22845,151,5054,9672,57107,51316
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51204,3600,4598,5256,2244,2170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2720,4282,2934,7350,8932,9607
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 201305,7942,406982,9388,9374,2055
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5236,23530,65985,22797,3949,2115
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2646,80270,3485,65080,8604,8202
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2157,2638,5293,5581,29843,83693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2639,582,26762,2581,2101,130120
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4668,10135,10295,388753,7879,55768
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3700,53346,10382,1056,7038,4853
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80224,63931,435,3308,56999,7172
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56922,26191,9663,6647,51206,406906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1646,26119,6898,7048,51604,1801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55343,4338,8243,6566,3692,388372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 249,3339,9692,5286,3485,54552
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2628,4023,4695,217,5515,8659
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5126,336,2731,151,3123,54539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64788,1906,54148,492,7350,54552
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55630,2948,819,60684,3304,6352
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3458,506,7391,477,1906,6387
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53345,6505,4351,650,2710,27010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90865,9095,3099,1588,3174,6347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9388,2395,1571,1806,4160,90480
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56623,23129,57505,197,4688,54539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1277,3779,57176,5239,2847,8877
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54982,316,5315,7078,50506,5465
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9415,10243,6648,6492,4357,2517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55768,5860,2305,2591,1508,85446
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7284,788,5207,493753,4143,51085
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90480,84342,1606,28951,5971,10682
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10874,958,27125,3624,5160,3162
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3291,197322,4843,9054,406906,3596
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5654,84300,8651,8648,51024,79796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3728,9607,3312,10013,1203,5617
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3700,100128525,5590,64087,23590,4842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2109,57017,3156,6584,868,5286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 216,7466,6522,3783,166785,539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2950,6720,4723,3339,2235,1786
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 387,80207,5590,1029,4143,4683
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51,48,3551,11254,154,9388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55858,435,2303,3958,5071,7297
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10753,84649,83854,23530,847,9559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4723,9672,6548,2203,64601,1075
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2180,388962,55572,10730,435,51738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5428,57001,5629,4726,50506,291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1444,2030,5824,6554,2597,57215
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 114548,2878,4887,6342,8651,376497
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6341,26175,3624,100130015,6464,629
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4758,26088,558,10221,10730,5781
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8195,4232,54210,7428,3485,3600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10102,79144,10195,1634,5476,84833
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79602,2158,6584,56923,1641,3339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203,54476,10116,7275,407009,4688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23395,56052,2170,3030,26175,7172
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8517,10524,56919,4656,3030,2152
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1889,1555,384,6514,6890,8473
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55768,6569,5617,5228,5214,79068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6602,4878,55503,116150,6324,5167
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
66.792 1.220 68.154
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.712 | 0.053 | 3.652 | |