Mustafa Erhan Ozer
| Snapshot Date: 2025-08-07 13:40 -0400 (Thu, 07 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 2025-08-11 11:47 -0400 (Mon, 11 Aug 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4823 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4565 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4603 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4544 |
| 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 24.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | 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 | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | NA | ||||||||||
|
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: 2025-08-09 12:59:47 -0400 (Sat, 09 Aug 2025) |
| EndedAt: 2025-08-09 13:05:28 -0400 (Sat, 09 Aug 2025) |
| EllapsedTime: 341.4 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: 18,434,5095,79661,7019,83548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6647,57380,9779,9451,344,1149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3115,6514,3440,51082,3091,8504
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5330,84300,6390,54902,79144,539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29843,5313,7252,23411,9997,4502
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 58528,268,11222,3066,350,54578
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57017,2244,4744,1716,51604,361
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 824,2864,7320,5369,1801,847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56259,539,2539,2746,5468,5409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26191,2348,54931,3685,2740,6439
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 145264,5515,796,3358,3645,7035
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11231,5255,8567,6342,3551,54675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4128,790955,5781,490,7498,4049
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7841,1401,4247,2790,200810,3087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6329,8799,7528,9698,4118,2820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407008,1621,9414,2710,5230,8567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 387787,6261,706,7056,1489,3784
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23417,9498,200810,3791,5501,57818
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 115286,9698,23062,23304,6571,2548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85479,79158,5190,64116,51206,2688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 113235,1346,51204,6262,3295,3101
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5428,9526,5860,5599,2805,2581
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5789,694,3158,2776,3630,3141
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 708,3460,407004,23129,5162,650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4713,57085,2878,664,79934,84902
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2731,462,3598,149461,1435,384
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5592,1813,8659,4012,10667,10062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85446,22820,5950,330,10135,7124
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7376,55034,5798,3954,79736,3700
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 558,5581,3440,1072,51052,84447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91574,2572,4709,23400,3101,7100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5499,2864,7037,2063,406913,5727
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 728,4695,23274,51079,779,2064
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 268,2542,87178,51092,821,1606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54658,10874,79644,3920,10560,5193
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23274,9180,1909,1203,65993,383
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9415,4338,1499,5581,9698,6522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81689,55970,2696,23400,590,4842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5727,55037,5192,1636,54331,3988
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80339,2593,4852,5364,5702,5442
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3717,27329,55967,43,6774,1371
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4722,7466,4351,2639,867,5629
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4713,50674,858,5274,29078,10195
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6339,1361,7287,6464,8600,11132
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79587,339,7038,91574,55630,790
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4656,9971,407045,148738,54931,4143
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2587,6352,80224,846,4233,10643
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2034,3931,6248,376497,886,4669
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5162,4524,4729,33,4988,4716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6721,2673,54968,3717,406947,80222
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8309,1843,10019,239,216,212
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5122,79001,729230,9409,9698,1442
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4780,84572,1537,9968,81034,51082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3082,56997,3710,23175,4609,1508
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64432,1815,3054,7289,4149,1356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7915,3293,132001,133522,5702,10560
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7297,7879,2934,440503,3995,9779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4035,4889,2784,63899,3643,6834
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5191,1544,51738,8945,2266,4351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51206,7390,5515,90624,3077,1348
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10537,3624,5581,26762,3952,84557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5781,2798,5702,64116,30061,9498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6382,1371,134,23038,54802,64900
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1593,3099,1636,10559,5329,64788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10102,4779,4015,338821,3663,2063
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2100,54552,7428,11232,7048,23654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 867,1581,5264,11231,4723,23590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5095,5787,5805,23543,54901,57761
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1737,60386,2641,2516,5295,1182
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 152926,316,2266,1339,26175,60684
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79602,5270,3945,5261,29926,7471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51660,100303755,8639,10269,1234,29880
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3700,2632,2712,1393,4358,7076
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3767,10682,3557,1607,824,788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 170302,116085,54577,407045,1329,6925
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8639,1436,56919,652,5476,563
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5052,197,1371,23530,10730,25813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6948,4726,27141,29968,23054,948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 140803,6462,2638,999,3155,51555
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1409,1208,1374,114814,7037,115286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3554,203,2309,2645,3174,7471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5270,2805,6183,200810,558,81704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4886,2395,6439,10020,10965,57176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2113,374291,50484,409,1812,7351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5095,170302,84833,7225,5188,1232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80267,4803,9630,124454,1649,2903
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1514,123099,2876,53345,28958,3158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1728,25828,4719,477,1584,2475
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2587,6531,80224,2542,1672,284958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27429,7030,4012,3673,4860,5730
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5571,3929,162417,29843,10537,462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1608,4719,2113,5538,25821,5069
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 140803,406937,208,5330,284958,149775
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8879,166785,1116,7132,1717,10019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7252,3712,2052,3630,7026,3356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 201595,4851,55818,5306,6556,55630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10195,2147,407008,6319,6550,23304
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4700,2762,1071,793,2055,347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 339,8309,6389,5195,2548,3417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60528,51024,9370,5176,5276,9927
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5792,389692,23411,80070,229,23543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 496,131669,5830,10524,2597,493
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5972,2247,2052,5515,7292,51649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5256,2678,4702,2713,479,23389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2180,4729,149775,506,50814,142
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6374,4144,64432,388962,5792,80347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2629,51300,54148,388585,6934,5277
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3784,5276,3172,840,23462,79133
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26354,642489,120227,10157,2992,2582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54576,2166,308,51649,875,1806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7355,6464,6718,10250,5740,2643
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1071,4144,596,4547,293,4915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2099,7040,1586,6890,2348,55970
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406947,844,3558,656,463,4654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5444,4544,2990,2903,2696,2776
--> return NULL...
2025-08-09 13:05:18.110 R[2888:286001814] XType: Using static font registry.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
73.741 1.280 76.759
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.852 | 0.041 | 1.808 | |