Mustafa Erhan Ozer
| Snapshot Date: 2025-01-28 13:40 -0500 (Tue, 28 Jan 2025) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: devel |
| git_last_commit: 5dea70d |
| git_last_commit_date: 2024-10-29 11:20:46 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-01-29 11:44 -0500 (Wed, 29 Jan 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4661 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4457 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" | 4468 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4421 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4411 |
| 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 2091/2286 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.7.0 (landing page) Mustafa Erhan Ozer
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | 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 | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | NA | 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: 1.7.0 |
| 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_1.7.0.tar.gz |
| StartedAt: 2025-01-28 23:13:23 -0500 (Tue, 28 Jan 2025) |
| EndedAt: 2025-01-28 23:19:27 -0500 (Tue, 28 Jan 2025) |
| EllapsedTime: 364.2 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_1.7.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/SVMDO.Rcheck’
* using R Under development (unstable) (2025-01-22 r87618)
* 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 ‘1.7.0’
* 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 ‘1.7.0’ ** 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) (2025-01-22 r87618) -- "Unsuffered Consequences"
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: 10295,11231,10423,3423,2052,406922
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92483,5328,84447,29881,92935,540
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6352,5409,538,8714,64805,7347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 440503,1571,1071,2834,686,23411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3157,9377,5328,5250,2720,10195
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2936,104,407008,2280,4724,5315
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4137,2820,51293,79001,4886,5601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51204,7172,3077,55970,200539,10094
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6319,55858,2115,4723,64919,728294
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10642,6462,6505,540,3990,4915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5799,3290,5194,593,2896,249
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84902,2271,5329,353,4828,7528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6261,104909134,3382,1798,5507,57048
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 217,2694,10911,5080,1544,5781
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9365,2787,58528,4988,23556,15
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3304,1493,5291,788,1270,10875
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6403,9131,183,3308,1116,7225
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3703,6908,55753,84833,9919,4722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 241,84239,84701,570,2314,5214
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4314,84705,9374,3417,116931,1208
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5787,4790,91942,10599,10643,5442
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25821,208,79661,819,3570,4023
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 537,1906,23274,84701,3145,3939
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9698,7019,1716,160287,948,2791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80270,463,1493,596,5052,23556
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6569,63899,284958,3576,3773,107075310
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2495,3304,8660,3156,6564,5581
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3559,7248,81704,84274,5228,2673
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79053,942,56848,64900,1812,10229
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 627,4724,2628,51103,35,10580
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9663,3382,203068,10229,2495,5328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2776,4144,7942,26119,265,54806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3489,6448,239,5581,105372280,10965
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4704,79133,1208,3250,411,6999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 779,1116,4842,364,56919,776
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92935,170302,3382,2878,5331,1909
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54578,2936,5189,7431,100131801,6888
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55630,10616,221458,8722,5901,3416
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3060,1646,8642,84705,509,54806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51085,3795,79158,51660,6616,5162
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3251,26291,5498,391051,54902,5270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1471,2875,5551,54809,5617,407045
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 275,57570,285848,6928,5122,60528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4656,212,84833,8678,84334,84300
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3952,3586,4153,2119,5264,1514
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5538,3423,5274,26354,55331,1029
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1071,640,9370,6536,5369,9971
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57192,1559,3117,2334,4779,3483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 316,3773,1584,5476,2588,581
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 435,5798,3423,11255,1340,5825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 405,1468,79053,7056,4627,728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 241,83854,26517,4854,3304,156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2495,51422,406,64919,26762,5538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 93587,2875,55005,5506,1802,10457
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5176,84342,7030,51611,406934,2786
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64601,1175,2776,23590,6584,790
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27235,3490,4143,487,4712,10577
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3158,2740,5329,3990,79144,1491
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3945,1956,55503,137682,10159,517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83693,56606,7098,1649,7276,2166
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10642,3710,158,80267,1581,53905
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116150,3098,4358,355,708,6834
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5236,54476,7220,54802,1028,4779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2834,84274,137994,9388,197322,4012
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1649,2690,2950,1769,795,8694
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10857,54802,2157,6901,23163,3251
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1340,120227,51021,4758,694,51601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1203,5315,9429,6340,9692,2303
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 112817,8772,4144,23753,4306,51103
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 583,64241,23163,4137,5207,5092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54809,1909,2713,3554,285848,10938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7915,51099,3074,405,7528,65985
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7412,6354,56945,4988,3158,2835
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 790,26003,22933,2034,5443,5499
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6906,3558,79068,10616,7381,3930
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3795,5071,27125,2395,4547,353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 570,5837,79572,6811,3373,5595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 409,91452,10965,5214,5592,5211
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6464,4609,2064,1524,32,2271
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4012,5286,5745,7284,2642,6514
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 38,51081,653509,79644,23654,2099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54552,5563,23054,79944,3251,155
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8694,4313,3155,599,6236,213
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2791,4728,801,23129,284184,2559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2034,5345,779,4118,10724,5825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79934,7035,10560,178,2590,249
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 440138,4233,2792,56938,4282,89874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26503,160428,23175,197131,25974,388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406906,84239,409,7424,3091,201595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6948,4547,51204,27089,126328,56729
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57570,644974,90624,3638,5506,10094
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1716,6571,6342,3784,10221,23590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85365,4988,2539,1558,1813,2571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2875,51738,326625,655,4000,2517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 63874,341,11255,1491,83548,116519
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100303755,10537,4543,3875,1524,2710
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8675,275,3440,5507,5789,54552
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1672,1559,7052,6789,4968,1544
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9414,29880,3382,128486,6788,5184
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5551,27232,2949,4128,2629,5211
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 488,55750,5331,1149,1327,5350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64240,7391,285126,2642,359,48
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3490,149461,2820,496,1644,64601
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3172,6721,64116,2992,55503,2944
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1345,6492,1175,2946,29880,8932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2305,2119,9388,558,5345,92935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 197131,54575,79053,22845,64788,1645
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10616,56999,3685,123,55967,3065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57085,145264,847,26191,7099,594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 114814,6392,161247,5241,1371,6351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1738,19,445,1348,539,338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55005,1327,201595,5617,2166,2170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1393,801,387,6696,116085,3779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54575,4760,389,487,3586,7841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8560,1636,5798,2788,51085,79068
--> return NULL...
2025-01-28 23:19:18.836 R[62873:36560072] XType: com.apple.fonts is not accessible.
2025-01-28 23:19:18.836 R[62873:36560072] XType: XTFontStaticRegistry is enabled.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
61.575 1.249 63.000
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.774 | 0.041 | 1.382 | |