Mustafa Erhan Ozer
| Snapshot Date: 2025-03-31 13:00 -0400 (Mon, 31 Mar 2025) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_20 |
| git_last_commit: 1f89469 |
| git_last_commit_date: 2024-10-29 11:20:46 -0400 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-04-02 19:36 -0400 (Wed, 02 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4764 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.3 (2025-02-28 ucrt) -- "Trophy Case" | 4495 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4522 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4449 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4426 |
| 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 2097/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.6.0 (landing page) Mustafa Erhan Ozer
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | 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 | | ||||||||
| 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: SVMDO |
| Version: 1.6.0 |
| 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_1.6.0.tar.gz |
| StartedAt: 2025-04-01 11:11:24 -0000 (Tue, 01 Apr 2025) |
| EndedAt: 2025-04-01 11:17:18 -0000 (Tue, 01 Apr 2025) |
| EllapsedTime: 353.5 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_1.6.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/SVMDO.Rcheck’
* using R version 4.4.3 (2025-02-28)
* 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)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.6.0’
* 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-4.4.3/site-library’ * installing *source* package ‘SVMDO’ ... ** 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 4.4.3 (2025-02-28) -- "Trophy Case"
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: 9607,30061,1443,2788,1027,23062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23304,53632,10116,23409,1491,149461
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 104909134,819,8202,60,2108,5054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1337,10243,776,1544,11231,4843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7057,5346,125988,23175,4705,383
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4705,9054,6897,491,5068,846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 940,5442,2739,3479,5190,10644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 685,389692,8651,10102,5330,10938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51085,5445,2998,5579,5350,654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2100,191,2847,6199,2063,57085
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4015,6556,5277,6521,3329,212
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4702,3251,4758,5713,9388,24147
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8604,197,2702,2677,4683,10000
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 563,133396,55526,11131,7942,2784
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4311,9374,6548,9056,26354,4598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1489,50507,79587,4728,5091,3670
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255308,56997,585,5442,1537,9429
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27329,656,3158,27247,23530,7325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5826,9451,2314,1339,2767,9180
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11096,2516,1803,582,490,64087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,7494,4544,581,3480,2118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1675,54578,653,4942,2101,51052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4598,7019,5367,2271,6340,587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5195,5970,285848,5442,6811,1509
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 708,3440,10020,4899,48,7350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2739,330,51608,790955,6891,197131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 655,6888,4312,8799,407004,51206
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64240,664,2702,5588,10845,2760
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3099,133,3156,9927,100128525,2305
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6649,11222,5274,1409,1593,3651
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3482,200810,5239,3624,364,83693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2641,3423,5563,10667,131669,2998
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2309,10059,124454,7384,6521,5068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2101,6262,5193,6347,5276,4358
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4723,253559,23389,4853,57620,1559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5660,353,7515,285362,5826,644096
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9374,768239,5367,6351,79053,1812
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10911,7942,6262,2158,6948,91452
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5563,94235,51204,384,6898,23590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10616,7124,10020,5068,5069,8243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6464,3479,5239,52,3159,3953
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1409,6248,6199,25821,7099,6772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5095,57085,506,796,350,2034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 886,160287,10938,80347,801,10667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5105,1234,11095,330,3791,2194
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51103,51181,10935,27429,4015,8050
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54567,3054,3312,2314,9572,2876
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3570,152078,51181,64919,496,8202
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100130015,1352,55186,1769,2689,2720
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4069,2180,266,7919,351,9575
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4358,3082,291,4968,9056,1509
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2805,7052,1175,5184,2542,1589
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10352,1650,186,8642,8862,1672
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407011,3991,5830,9560,10642,8842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6492,10642,6347,6647,3558,84239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 350,4719,1589,55503,7098,4688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7390,3482,3600,941,2064,6929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 405,6392,3156,389692,5255,4338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51316,958,200810,10845,148979,338821
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5925,355,7389,2878,929,3559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22845,6932,2904,3425,57215,5919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 19,50814,114814,819,8659,4726
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5792,5214,57017,6901,2752,79053
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90865,5787,6392,3651,2280,84062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9663,6649,326625,3586,6584,3240
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2113,3558,56938,5970,5428,6390
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54901,80222,5447,1543,5727,347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3627,2184,126328,10020,5162,92667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79068,10000,1329,148979,79783,7350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26119,9054,2805,2786,3791,2740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3600,5364,4855,151306,9968,1491
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2876,2157,5213,105372280,5105,5901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3717,11132,81704,3559,6535,25915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 599,407006,4889,27344,11231,7471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3309,4319,2152,2805,210,4722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2702,154,84317,5236,10991,2161
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5792,941,43,10891,3630,4846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 558,153,434,1559,253559,9559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 129787,644974,6554,125988,338821,788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6352,3948,886,5194,3251,83884
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4851,2786,5071,2673,7388,350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5621,2729,28976,5837,4851,208
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6183,3773,7471,6715,63931,53345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 151306,5950,1605,10845,2835,153642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1468,2170,3460,56302,5498,411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51083,7276,8678,1593,57818,9672
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4968,3373,57085,4729,2305,5571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,10116,123099,6833,2516,10524
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2720,3240,388,51316,6582,3636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5139,4358,55340,7347,60,25915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3479,79736,1203,388753,4719,79068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 353,2100,51144,4125,31,55970
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1471,133522,4712,149461,6351,3479
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10999,27141,3624,940,7297,56606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2677,665,18,114548,29928,593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81704,185,51119,347,4232,4851
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10965,4137,1675,50507,23304,1950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5444,1401,2056,1906,5501,9526
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1636,2203,81033,3692,6868,718
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2934,6263,572,6342,1363,5194
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2166,2118,53335,9180,94235,8604
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9969,131118,29947,5901,1621,2950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6476,6788,10845,5601,7078,7287
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338328,55788,9095,84342,5444,55163
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 391051,35,10991,9698,19,51206
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4915,5501,9382,123099,54802,4982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5787,7132,29926,2581,7471,5188
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 197131,120227,26503,4716,1435,4853
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1186,3569,1645,10874,594,1312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6392,2790,10642,169026,27247,1409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3074,4069,63899,8942,338,6462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79944,2878,4719,6263,4724,427
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57818,11255,3174,718,51085,123
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4358,185,1373,7942,5515,5243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 356,842,50943,10019,5257,293
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
75.470 1.620 77.619
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.856 | 0.036 | 1.663 | |