Mustafa Erhan Ozer
| Snapshot Date: 2025-12-18 13:45 -0500 (Thu, 18 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 2025-12-22 12:06 -0500 (Mon, 22 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 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4673 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4607 |
| 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 | | ||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.7.5 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: 1.10.0 |
| 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_1.10.0.tar.gz |
| StartedAt: 2025-12-21 02:18:46 -0500 (Sun, 21 Dec 2025) |
| EndedAt: 2025-12-21 02:27:09 -0500 (Sun, 21 Dec 2025) |
| EllapsedTime: 503.0 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_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.2 Patched (2025-11-04 r88984)
* 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 13.7.8
* using session charset: UTF-8
* using option ‘--no-vignettes’
* 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 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 ‘1.10.0’ ** 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 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"
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: 2787,4247,148738,1234,54575,2668
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6569,4656,2184,8604,9560,11035
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 293,100130015,48,1675,7225,3667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338,4502,3284,6938,3552,2934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 811,517,8600,1374,8604,85479
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 655,4012,266,5345,7391,1588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28951,5346,91452,2668,6439,572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3899,644974,10842,4318,860,9388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4899,54798,1371,4023,55065,79602
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4654,51316,2157,10116,5723,84062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9377,3988,58528,2799,50484,186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5257,152926,5442,6009,5588,129787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60386,153642,2115,51204,2572,1072
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6804,147968,4887,2875,5327,5161
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3992,2588,10891,1621,113235,56052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5096,5241,6554,53335,158,2542
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10580,239,9759,11132,5631,79001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 150,2487,65985,4713,406982,3101
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7350,23395,3992,1230,284958,9572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4159,10559,4299,929,51083,2055
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2760,6811,471,7466,6648,8678
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84275,57215,2646,3813,949,5092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 345,140803,5832,122961,10724,3700
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 373156,275,123263,3570,30061,87178
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7450,118,10157,6576,4541,1950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51555,4357,2517,84987,596,150379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1815,2932,5071,640,6182,2152
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5476,6616,406938,10841,406982,7388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80070,175,111,54968,6868,9104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3418,92483,5160,4627,9388,1675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 183,629,55486,952,55863,10965
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55343,8564,51079,134,137682,6772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10102,593,64087,8651,3920,7319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1028,6009,169026,2314,1636,3710
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 58528,81027,5789,407021,6341,6472
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5621,6462,7320,6794,586,4508
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91949,3507,4922,5828,34,1595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9167,1312,4351,388585,5447,5345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 253943,1373,8651,123099,8854,100130015
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3425,6199,3065,84902,83439,54205
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10891,9969,2314,1443,1802,3717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29078,28951,1636,150379,79053,9779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1019,2697,54901,52,7035,5579
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7124,572,291,50674,10466,1593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3098,208,353500,51555,132001,9388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56606,56302,57380,3486,5071,211
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28957,5592,6772,26762,5499,231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79736,3606,8648,7386,11255,1678
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6261,2864,8517,84557,55034,9868
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84061,9409,25974,4668,3930,6927
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4312,506,1769,2688,1056,3481
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3995,2805,81034,3375,9051,728294
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6584,1607,5068,3159,7026,6392
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9997,54578,968,345,113263,10000
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84061,120227,7841,5950,9370,7035
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3667,83439,2159,9526,2990,1601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6715,123263,1803,7381,54600,5175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160287,3417,4299,7352,10560,205327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50507,776,1728,3066,51,10874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10094,6925,90865,56923,1524,3066
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5184,118,10599,54567,5744,4023
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54148,3339,3624,6262,6391,7372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1548,54704,351,7248,10,7347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1581,116150,121268,4828,1644,2592
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 596,51092,6582,5331,6789,79661
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3293,4598,22868,7422,3062,149775
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2712,100303755,51117,84274,64240,53632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 582,3060,7407,128486,6948,1471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 132001,4566,6317,84693,728,2992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5193,7077,84239,929,26119,56729
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1232,3552,55503,2539,85446,7019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2475,5313,3569,5590,5230,11213
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23417,113235,760,91574,6262,824
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4922,55270,5159,79133,5122,9445
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10667,355,3991,2998,148979,3423
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29958,582,64241,308,587,2159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6403,3482,7037,5770,7157,10000
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4973,7450,115286,53346,4860,1621
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 490,9131,5702,51004,5243,28958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54806,5211,4539,359,2584,3382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27249,5625,5189,3791,129787,197322
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 538,517,26175,6513,5950,253559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6582,27247,6523,55065,4852,55863
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9575,7388,84705,384,25974,8772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4594,596,22901,2161,8471,5256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7248,3779,197322,64432,51604,3645
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3356,4719,3170,26060,6329,130120
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3312,6602,4846,5331,50484,83548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9607,2109,2729,551,1376,3074
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54575,7428,93587,3174,2878,1363
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7082,3709,54476,7037,4535,84340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6448,84275,685,122961,5789,5825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 162417,8854,6715,2752,6556,586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2055,8567,4709,6523,2878,367
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7052,4846,9076,2314,790955,3576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79736,38,3673,4547,2785,23062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27329,5970,9498,3293,868,5740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3295,55970,471,56259,8714,2646
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4089,6772,23400,407024,177,685
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2516,12,4524,6609,2155,1497
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7078,2790,3779,5745,79602,7276
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 583,5601,3596,2643,1072,25839
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9945,999,153642,93587,5625,5621
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6556,5442,5019,4508,81793,599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 435,2875,836,406937,2936,355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8243,56848,26291,3480,9409,3673
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1356,2118,3813,1906,1757,29881
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55532,471,9575,1356,2169,6261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 760,3795,80207,9663,5095,128486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1281,9630,1717,488,4543,6182
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8471,2641,4669,84062,56919,8884
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 89777,64240,3122,8639,51117,56922
--> return NULL...
2025-12-21 02:26:56.008 R[10414:355460340] XType: Using static font registry.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
72.073 1.440 104.801
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 2.300 | 0.109 | 4.550 | |