Mustafa Erhan Ozer
| Snapshot Date: 2025-08-18 13:40 -0400 (Mon, 18 Aug 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 2025-08-21 11:42 -0400 (Thu, 21 Aug 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" | 4824 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4604 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4545 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4579 |
| 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 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: SVMDO |
| Version: 1.8.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings SVMDO_1.8.0.tar.gz |
| StartedAt: 2025-08-19 14:45:37 -0000 (Tue, 19 Aug 2025) |
| EndedAt: 2025-08-19 14:53:01 -0000 (Tue, 19 Aug 2025) |
| EllapsedTime: 444.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings SVMDO_1.8.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/SVMDO.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS-SP1)
* 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 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 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: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-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 Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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: 8050,7347,4144,100529063,105372280,1588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2990,55270,55644,359,5191,406
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2944,7276,54331,7840,57215,23409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7471,7289,5799,330,407007,5515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2310,846,2791,166785,6999,6462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5950,4319,3938,2847,170302,1815
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2647,694,6908,5781,201595,91949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3242,857,51004,26235,1361,339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2184,4842,8471,1444,5095,2944
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9572,5080,1910,5465,1813,706
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3358,4543,5629,8642,10243,23530
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 101180976,345,479,9479,344905,3382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9575,1268,79644,7916,411,3062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338821,1607,54476,3995,2101,5053
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3978,6356,6582,2064,407021,125170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4684,358,2110,768239,85569,26088
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1593,338,125988,56606,345,1149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3624,5315,80222,1672,3284,3565
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54901,8648,23410,4828,7052,5409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7407,5053,3717,5243,7252,4288
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3489,819,10059,10911,9526,7040
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7480,55486,7099,4709,7388,3339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3636,1312,5286,32,116150,23175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 585,80222,6341,2309,6248,6550
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2305,6648,4846,1813,4716,1347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7036,6464,4968,3091,440503,4886
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 387,2689,3958,9374,91452,27235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 656,1232,24147,4723,5723,56052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2006,9968,4543,56999,650,5176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2243,28976,407009,51478,388962,2934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6649,100131801,6403,51082,5009,4724
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 653,185,2949,1442,84833,7275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5230,291,3562,27010,335,268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4715,84300,7078,10616,4942,1393
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84061,105372280,119559,2475,1436,64432
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5740,7078,151,406991,2539,89866
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4089,6721,3073,51478,54205,91647
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55340,55503,26175,644096,4684,5599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1361,6927,25813,3576,2932,55902
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2739,84340,1608,56938,10616,26175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 283459,2697,2673,941,8050,2760
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 153,6198,8877,2109,2034,5211
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4724,64131,7407,23304,27141,55937
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55526,130120,85569,1022,6374,4758
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2119,8202,477,492,471,57380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3978,1175,6522,6786,3283,2597
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23409,53632,6999,5261,10577,2787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1075,6927,5702,8932,6775,7275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7037,79934,3663,1586,1490,1201
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7037,6531,7220,2804,1641,26354
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 359,4828,11254,1468,1185,1028
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 518,2203,200810,90480,8243,5444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2487,10295,3033,51611,55270,2919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1329,2629,344905,203,130589,1786
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5331,8841,4879,3992,8694,1436
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1956,23038,885,348,2538,407010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5071,55024,2876,330,4942,1281
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5962,80339,63899,4668,10295,3440
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79783,5068,156,587,5195,383
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2055,3717,10019,6403,153,407021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27344,91869,1588,1629,471,6550
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2720,3784,729238,844,7026,1591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5286,27010,10730,7320,3980,26191
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4069,3934,5188,406947,7098,54600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5713,5571,255738,1558,388372,1571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3980,1509,3460,5329,8309,8879
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1803,5214,23400,359,4967,356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54901,65985,8309,3066,3980,6716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 796,6341,7097,23590,7225,5617
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57511,5167,55750,23417,6714,509
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85365,6932,410,2904,1537,10221
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5971,2688,387082,3251,10059,5009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5071,9409,105372280,5080,6329,64432
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 153,3658,551,148979,52,3172
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4683,10935,63899,10524,8862,2161
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8942,285362,1737,5781,1672,821
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51116,5584,51052,3155,23395,857
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 886,7025,5617,6248,3155,2539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64919,3291,509,4314,8639,4233
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55331,517,79796,133396,1588,275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 539,1890,10616,1571,3703,9429
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5743,9095,132001,407008,50814,84239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2950,9380,1244,2713,177,593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4709,8050,1201,326625,79068,2271
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22978,9104,7528,7100,84987,116519
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2908,4715,26762,347,138050,5579
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 87178,9698,7450,348,4851,2937
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6775,5193,3813,133522,5442,3158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 958,2110,177,6721,407011,5306
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3156,104909134,9332,1371,5274,201595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2646,2689,9572,1116,153,84334
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3703,5207,22796,2952,795,2739
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4887,729238,4552,5288,5625,388753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5925,10157,583,4842,22845,4853
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2305,50674,91647,5176,1337,55768
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83854,6678,1436,92609,51293,388372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 124976,1649,7157,1786,55572,4683
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2152,7376,1593,100,28951,153642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57678,4704,2588,22796,79633,22978
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388962,150,5214,4544,1029,5228
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56945,5465,7319,656,51099,91647
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2118,4282,383,56052,199,1443
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3122,54577,10667,10316,104,4716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4758,50814,4351,2949,4313,1584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8714,2785,3899,3553,55278,4337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3813,1022,3309,2642,23400,4543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2688,5660,54802,6517,55788,3098
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91942,116085,6602,5213,51555,388753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7057,3988,1491,51548,132158,356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50814,10159,5621,3712,2646,2308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5538,285126,57048,2113,3032,55753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9332,2875,170302,26119,2804,1595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1588,3156,285126,518,3779,2266
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10644,4668,1757,149775,1813,10102
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6714,2314,6476,57511,665,4705
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
136.869 2.131 139.525
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.949 | 0.020 | 1.458 | |