Mustafa Erhan Ozer
| Snapshot Date: 2025-10-13 13:40 -0400 (Mon, 13 Oct 2025) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_21 |
| git_last_commit: 8259124 |
| git_last_commit_date: 2025-04-15 13:15:07 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-10-16 11:40 -0400 (Thu, 16 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4833 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4614 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4555 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4586 |
| 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 2139/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.8.0 (landing page) Mustafa Erhan Ozer
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.7.5 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | 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: 1.8.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SVMDO_1.8.0.tar.gz |
| StartedAt: 2025-10-15 14:45:48 -0400 (Wed, 15 Oct 2025) |
| EndedAt: 2025-10-15 14:52:39 -0400 (Wed, 15 Oct 2025) |
| EllapsedTime: 410.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SVMDO_1.8.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.1 Patched (2025-06-14 r88325)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 16.0.0 (clang-1600.0.26.6)
GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.8.0’
* 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 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 running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘SVMDO’ ... ** this is package ‘SVMDO’ version ‘1.8.0’ ** 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 (2025-06-14 r88325) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20
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: 133522,3159,4982,5277,201305,1075
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 958,1208,940,63892,9104,23410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4697,60386,7412,729230,4023,10599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92609,3596,51601,126328,1968,3636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1798,844,2948,8309,4547,4627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2030,10195,3651,116519,79783,105372280
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4760,212,50674,54915,55270,130589
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3174,1497,3554,23054,4704,10466
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3382,100131801,6009,26354,4524,3978
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 210,138050,152078,7076,111,1409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55065,116519,3485,23600,2653,338821
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5744,1277,2030,80070,10730,2804
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 942,10195,55699,4688,3624,1203
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7036,239,2720,471,493,4143
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 859,846,4656,7287,158,83693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83548,6439,5901,23291,3636,6263
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79133,376497,6770,27125,203068,5584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6616,1442,211,5230,3990,148979
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27232,5261,8841,6890,210,10226
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 435,4720,9507,3101,3670,30061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60386,2308,54552,6522,4000,6324
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53335,29843,79783,9759,3948,1910
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79661,3931,5805,22978,2760,3673
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5330,10062,6888,4049,1022,9091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3684,3158,51092,10008,2790,255308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9698,1801,22796,5364,627,6339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7407,2309,3242,79949,217,7048
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7037,83439,4552,7035,655,4357
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64900,2678,7172,590,2739,8473
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5618,9021,23411,268,5277,51601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81034,33,1490,359,5276,84062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57085,5243,9388,3062,4842,56923
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5293,6748,875,5365,859,5162
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10874,133,55644,84557,137994,7498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5860,1355,23054,1080,9759,8818
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2760,34,7919,517,10135,5830
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10059,3954,6715,11232,8473,6521
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4285,795,407024,7407,1281,132001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55699,1893,213,7157,367,790
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91869,1508,1584,55902,2787,54806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3569,1869,650,406938,9526,55670
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1591,1950,51103,2524,10165,63874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493753,51548,6571,5350,1869,1491
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 479,32,4878,8714,5580,3460
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 594,79776,55024,5053,5261,80224
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55486,537,583,5230,2760,2948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169792,118,406938,26235,9512,142
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4311,3992,79633,1071,4704,7320
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4285,211,2678,491,1595,1582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81704,149775,221458,7412,4144,4925
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2834,348,23274,10269,1584,200539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6556,132158,3759,50506,26503,540
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85365,7099,5787,54968,55937,5331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406947,9868,2875,85476,26517,10226
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57001,7078,64689,374291,197,217
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1591,391051,51021,54658,1508,7287
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3980,5730,268,8050,55630,7077
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 836,4988,9365,4351,7347,5621
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10457,54675,7325,10991,64116,2791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4149,51099,1716,79001,4723,80224
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 149461,91869,2495,2571,2787,123263
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4358,388585,3030,1843,9575,2308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4023,84706,123,9526,275,2992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51082,4855,2693,120227,341,5286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5644,57001,56919,5019,868,23400
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54148,57678,9420,55532,9414,10842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6550,10875,1734,3988,1401,493
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 596,1442,7030,177,407040,83854
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9779,1200,3658,2303,132158,10243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4311,5192,83439,7030,1629,4247
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1906,4306,2731,549,5836,57128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6602,551,4358,54600,1909,28958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7345,5702,1802,79796,265,4012
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 581,3482,2936,9021,4853,23462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406991,2118,1802,2348,1361,6263
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6392,4299,79572,114548,6515,5781
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10599,158,3624,91574,4015,10019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27344,79934,84833,316,123,388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7919,4889,406913,551,6932,6505
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100,5830,2538,844,2752,29881
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1629,824,51144,43,5571,85365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23389,1650,2820,5629,207,1786
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28958,3658,10166,1374,152926,85569
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5250,355,4543,1717,8567,886
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64116,768239,1346,2799,388372,25828
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1232,4712,7840,3978,83884,9919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64601,8604,285126,790,7097,3627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5071,26503,10466,29968,7037,1802
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 493753,3638,3990,91942,91574,5345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10559,7840,64805,1607,2950,326625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51441,5009,51116,55331,3159,3082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79158,23038,8799,2712,7384,6556
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6811,55902,200186,1268,5270,5950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4594,551,2180,4319,23556,56729
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51021,51204,3952,9698,5328,1232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4232,34,5328,9919,790,81034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11096,85476,57505,28951,1270,10599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91942,407008,7025,3708,4126,85365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4697,2053,7248,10269,2395,253943
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5306,1645,406982,4860,54539,5515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4547,3920,1558,4015,1282,9104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3066,570,9388,4723,10102,3329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7385,91942,8772,140803,81570,434
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10875,3356,4988,3291,1493,54798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2632,65985,406913,54210,358,5068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2158,7915,27247,5617,4729,7916
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 348,5631,6387,128486,942,1019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 124976,488,1363,4285,374291,80222
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1672,1027,84833,8678,1022,8648
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28951,152078,6898,6718,2056,7376
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3939,5207,790,92667,5723,4879
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 145264,133396,5740,844,26291,7385
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2260,5590,22978,5265,26060,178
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 345,5740,4668,10059,3295,25828
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3945,2542,54896,55278,3091,64240
--> return NULL...
2025-10-15 14:52:27.866 R[94557:459779939] XType: Using static font registry.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
130.233 1.685 135.335
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.842 | 0.043 | 1.292 | |