Mustafa Erhan Ozer
| Snapshot Date: 2025-05-18 13:25 -0400 (Sun, 18 May 2025) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: devel |
| git_last_commit: 7851a60 |
| git_last_commit_date: 2025-04-15 13:15:07 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-05-19 12:09 -0400 (Mon, 19 May 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4749 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.0 (2025-04-11 ucrt) -- "How About a Twenty-Six" | 4511 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" | 4548 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" | 4489 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4453 |
| 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 2106/2304 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.9.0 (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 | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 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: 1.9.0 |
| 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_1.9.0.tar.gz |
| StartedAt: 2025-05-18 23:42:11 -0400 (Sun, 18 May 2025) |
| EndedAt: 2025-05-18 23:47:36 -0400 (Sun, 18 May 2025) |
| EllapsedTime: 324.9 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_1.9.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.0 Patched (2025-04-21 r88169)
* using platform: x86_64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.9.0’
* 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-x86_64/Resources/library’ * installing *source* package ‘SVMDO’ ... ** this is package ‘SVMDO’ version ‘1.9.0’ ** 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 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-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: 51241,5713,1277,7515,199,5327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2720,2729,5167,7347,1201,5367
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10682,56259,6938,10269,2170,129787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84239,345,169792,79053,6584,11136
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6566,51422,27344,2310,55486,8659
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55340,345,6891,942,6338,3087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55750,6464,56729,2876,5445,6354
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169792,6770,54106,3098,80207,1186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7057,1728,486,2673,407010,5781
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3030,160287,5265,5830,7431,100130015
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2936,11231,80070,7351,131118,8567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 410,5192,1636,9969,3978,161247
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3162,2155,23410,7409,51004,1489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3728,7409,2159,3586,137682,9945
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7025,1815,1593,231,4143,84889
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1490,5092,37,3283,6786,407006
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3485,284958,347,10874,2878,93587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 729238,1737,56923,6522,27125,1022
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6821,84340,5825,54798,2118,27344
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83884,10062,7077,6401,57817,3115
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6811,2303,5654,4968,84340,356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4609,151,5799,3440,80224,407010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55572,9927,8648,5830,4760,5499
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407010,8803,10269,5080,335,10221
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5095,326625,5770,6868,28957,1591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6383,55768,6351,4547,81689,2690
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51,9927,5625,5078,142,5594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51099,4000,2064,340024,4780,85569
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8648,9445,3554,795,27125,353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3929,5702,80267,54982,3383,516
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1950,92935,5313,8842,3030,1807
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 844,498,5095,2949,53905,336
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5443,3667,55572,201305,1585,169792
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29947,3978,3159,3065,3082,5594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407010,5499,842,6938,5295,51555
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9526,549,3569,10000,3596,79001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8567,9692,6199,27235,7409,5327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 540,2517,2713,84833,51316,3440
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51608,6531,10295,8813,2064,5476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3458,4942,1019,64601,653,655
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1071,3423,795,1909,219,492
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1557,1499,3557,6934,867,79661
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406947,3948,5313,10965,8195,79796
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5507,407021,1813,217,6401,5365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6772,1802,9451,3795,3113,3099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 632,3030,5617,51052,9380,2876
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6576,5091,26060,540,84902,84274
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3939,4012,6391,84705,9451,113235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84947,1281,2677,2152,846,48
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 239,113235,2034,471,3113,2157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 201305,4357,6198,2740,3172,3087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5188,6772,6834,125988,2934,6324
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55630,1270,7376,1029,3630,2875
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4128,213,5588,768239,2950,2739
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4709,15,6602,6775,113235,407006
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10560,1813,29968,23516,406913,8648
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 811,4233,463,999,4968,56938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2524,54576,518,3934,952,57678
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8722,348,1444,284184,8813,4853
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3624,5599,406922,6716,3708,60528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10165,9180,3417,35,170302,9927
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7124,2581,129787,22797,4256,30061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 653,53632,706,4337,6833,25839
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8743,53905,79133,7038,3155,120227
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3339,51293,790,85479,779,169026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6890,844,51119,43,23411,2952
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123263,33,9445,4719,1351,3240
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6821,56052,134,54205,718,10457
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10102,1678,3250,2180,11035,80267
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3930,8678,407008,79731,2760,6548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5291,7132,387082,186,3598,1337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100303755,11093,55768,1869,3728,3708
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6391,7276,406991,5193,7915,3356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55630,4709,4899,5350,7295,51004
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10352,275,6262,5409,8639,572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25974,5330,1369,1312,8942,7284
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55670,6927,5967,10,3480,54567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 275,5161,2678,335,9377,7515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57192,55331,644096,5264,1028,406991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5122,54578,2487,432369,50943,56923
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 131669,105372280,1371,2785,123263,203068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9241,1468,1435,3250,3312,9131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84061,1672,5250,11095,574447,81034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2984,3155,2677,79068,65080,2587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2694,92609,2592,55163,4967,11231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 593,4089,56922,5161,112817,1537
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3291,7424,3162,706,2056,4843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5369,51601,6715,6890,325,2200
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91647,1672,2673,7248,125988,406
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11019,7409,9076,406906,708,2147
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9415,6522,10842,5743,1645,2161
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3813,2146,283120,5291,1337,5617
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9429,3712,7355,7421,9945,9672
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1992,3479,1376,6721,51052,5191
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3658,308,5515,84706,22901,10935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54798,3948,4967,10,8642,55572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 58528,2647,3304,4853,2949,3309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10559,3162,517,7077,64131,7035
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10243,53345,538,22845,131118,23163
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7172,6897,63931,9498,26235,54575
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 842,55902,5826,3482,6927,407021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55163,79934,5345,56922,10724,1675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2582,10730,2950,5406,145264,2495
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3242,5506,5836,54205,959,7276
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3087,113235,79736,1595,55818,80267
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5740,685,353500,3643,4544,506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7225,6356,9104,2542,2006,4887
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6789,1361,9526,4982,80347,6576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1646,50674,1489,64805,2788,23304
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79144,5741,1337,840,4358,6891
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3685,200205,10157,4338,11255,6579
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5919,51079,2328,2785,3066,1559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 150379,208,7287,3645,27249,54577
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1893,6199,56922,123263,7078,5321
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1650,7355,885,1594,405,79731
--> return NULL...
2025-05-18 23:47:27.373 R[77353:38142867] XType: com.apple.fonts is not accessible.
2025-05-18 23:47:27.373 R[77353:38142867] XType: XTFontStaticRegistry is enabled.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
63.485 1.306 65.382
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.759 | 0.036 | 1.108 | |