Mustafa Erhan Ozer
| Snapshot Date: 2024-11-19 13:40 -0500 (Tue, 19 Nov 2024) |
| 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 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-11-20 12:08 -0500 (Wed, 20 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4481 |
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4479 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4359 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4539 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
| 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
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| 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 | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / 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: 2024-11-20 13:04:58 -0000 (Wed, 20 Nov 2024) |
| EndedAt: 2024-11-20 13:11:14 -0000 (Wed, 20 Nov 2024) |
| EllapsedTime: 375.8 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 4.4.1 (2024-06-14)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
gcc (GCC) 12.2.1 20220819 (openEuler 12.2.1-14)
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* 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-4.4.1/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 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 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: 6569,6901,50943,2746,265,4878
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54476,2395,2643,4700,2109,23062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6908,664,2689,4012,6464,6517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4803,1716,2947,7351,3784,427
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55278,93587,432369,285362,5972,3783
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 886,9630,291,79587,629,664
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4726,175,51119,116085,4716,6948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3920,56623,3991,128486,1798,212
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6901,7292,2695,405,6927,5428
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55278,79158,2948,3240,5373,4842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3073,1757,5830,2539,207,401
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5162,8642,26235,3663,2778,91452
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4853,462,26088,4357,1268,3283
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22901,64788,2157,388585,2314,10019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2053,811,5288,51176,8818,6236
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3995,1435,9409,2118,338821,9607
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28234,2793,2101,155,5365,7352
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26235,4719,185,2200,1644,367
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4627,85446,26003,5092,5239,336
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4547,5257,6329,7019,6236,80070
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1234,5250,3329,11136,5967,6199
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79001,2643,599,116519,10642,4709
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 572,3489,796,5276,2919,2739
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28234,6340,92609,5781,9451,29960
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 210,123,4879,11254,19,149775
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 574447,84701,149461,8942,351,8879
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133,2689,2947,3115,255231,596
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79934,79068,84572,5327,5315,1650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 134,728,5261,51293,2835,6402
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5019,54549,3066,5741,4358,3082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 359,50506,57104,3329,7347,51
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2875,5236,585,2147,2524,6262
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1893,5498,79133,2876,125988,5571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54148,4887,7052,4851,6720,4627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8841,6579,126328,23400,4683,55970
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9095,57085,5728,229,6514,64240
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 181,8600,9997,51119,1355,551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 87178,407024,1497,56945,490,4502
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11231,6352,23175,84833,10316,4049
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 131669,26191,1401,5239,3123,4860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10116,6789,4726,6898,22978,152926
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55937,6401,1801,3082,10642,4144
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 275,8195,11254,142,2949,10842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 376497,1393,3551,19,1376,84902
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6492,5330,55768,2310,10382,795
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1889,1340,4233,463,9445,338821
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2790,9104,1607,9241,11131,8813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7056,81570,3091,3576,10730,5442
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7172,85569,4915,10379,51128,2052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10686,2712,3440,9365,10891,538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2878,388585,6462,50484,207,10195
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3717,2109,1992,361,2729,111240474
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6462,3122,2030,2646,5277,7350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1376,125988,8604,10423,1149,85365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7276,5644,1601,3978,3703,407009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406906,29926,27247,1606,5373,10102
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 101180976,9054,6329,5313,105372280,1345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3728,1442,54704,347,6789,3423
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51293,8802,8639,538,7347,79158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6352,825,2200,7078,10062,5594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9560,3087,2693,4594,1442,1339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27141,7248,196385,2155,80070,4118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2310,2161,5660,11035,3358,138050
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6392,1869,6182,80267,29881,5507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3570,6772,64432,5538,6774,2582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4779,10965,9332,51,348,6868
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2713,8639,347,2799,191,111240474
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54968,55278,3312,4552,5447,5293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5092,1489,3158,50943,2115,493
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 836,6263,54675,2694,200539,9607
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 617,1645,6199,3576,2990,351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 999,2200,958,4760,79731,51181
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29880,2793,5925,355,7528,2806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 114814,65993,3636,23163,6261,5967
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5444,3651,2791,2904,1737,406947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11035,6554,3651,6339,1583,79133
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 821,406938,8431,718,3552,4137
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 219,2998,10159,161247,4351,326625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55753,84649,857,199,4286,54476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 506,255738,3558,2693,351,5860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1080,4758,10577,5328,3357,6505
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79053,54539,4049,100131801,104,3312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1807,5447,11095,407007,150379,10013
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 594,2590,407021,10841,514,6908
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55768,406947,221458,169026,4879,3091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 842,5243,63931,92667,54344,56652
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6391,3624,32,3663,5629,200205
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8659,445,84833,2784,8722,8243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 383,10999,9698,9380,7319,3813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 119559,148738,1339,79796,31,55503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2517,2798,5409,384,729230,9498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7351,2581,3938,2785,54915,56259
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 708,6932,1355,3481,3480,5373
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6774,1468,6718,4069,1508,10616
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2271,23410,152078,10165,1813,1493
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 189,842,3099,8639,5950,55503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3636,3779,5191,6602,154,5126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5211,53335,1737,4000,492,6329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5274,6402,54805,6182,10724,79001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6183,367,3670,9429,6261,351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 63899,4846,1312,5193,5629,9414
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10874,51181,1641,10250,84649,10644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388372,51103,728294,2673,197322,4286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255738,4149,54575,123283,3551,6521
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7941,7040,2702,8309,406938,7450
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2890,65993,1080,5745,1393,9380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2487,4598,8772,51604,266,9927
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92935,941,506,8642,6342,124454
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26227,6890,4879,2762,7480,1175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6515,8694,4598,3930,3643,2712
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7381,178,50814,123263,2717,9607
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3773,5315,5195,2108,514,3992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57215,1718,27429,57678,5507,10229
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 113235,4860,2475,2052,2876,92483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54658,7919,4357,3710,6868,2632
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
77.845 2.462 81.709
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.764 | 0.044 | 1.325 | |