Mustafa Erhan Ozer
| Snapshot Date: 2025-04-22 13:40 -0400 (Tue, 22 Apr 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 2025-04-24 13:02 -0400 (Thu, 24 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4831 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4573 |
| 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 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | 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: 1.8.0 |
| Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings SVMDO_1.8.0.tar.gz |
| StartedAt: 2025-04-24 03:22:30 -0400 (Thu, 24 Apr 2025) |
| EndedAt: 2025-04-24 03:27:31 -0400 (Thu, 24 Apr 2025) |
| EllapsedTime: 300.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings SVMDO_1.8.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.0 RC (2025-04-04 r88126)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.2 LTS
* using session charset: UTF-8
* 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 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-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 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-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: 2919,3930,356,7409,4548,6236
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 539,2932,3066,2158,84902,6948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2693,2053,2804,1786,5053,23654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8799,4760,486,2110,104909134,3643
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79949,26003,114814,3174,406937,2776
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57678,3115,10,4722,389692,9498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5365,2588,5313,27232,64241,407006
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2006,2538,587,54902,1588,2053
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5207,29881,3692,513,131669,434
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3155,9091,3934,2776,2524,6341
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4846,811,55278,1346,54600,3312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4313,5727,6584,27125,1282,5925
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 275,6198,5901,4337,1080,23291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2588,1605,7275,85479,3958,407006
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8813,3119,161247,2587,599,83439
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5631,643181,427,3357,8600,7284
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388743,53335,51,57215,140803,6340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 124976,219,5445,819,9180,2099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1588,54809,644096,1605,8803,9380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 149461,84300,3304,2591,147007,6324
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3066,150,5243,8642,3458,5257
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10753,1608,2694,355,4012,6715
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26060,241,3728,1588,2788,6340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7287,8660,54210,10,1116,10560
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8743,4256,29968,7345,2516,5447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3684,1371,203068,55486,10938,5501
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 170302,23163,51660,10938,11019,112817
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2693,84833,84062,4337,10537,10166
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26291,2475,406,9377,2745,406982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407006,50943,9374,6464,23530,540
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51608,132158,2678,10195,406982,10560
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80224,22978,25915,10221,1352,374291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406913,51458,54982,55005,5654,795
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50943,6901,942,4118,652,406906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1672,1468,23409,5188,2878,1956
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 111240474,54600,54567,51004,353500,80070
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10128,868,231,339,5286,344
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4925,131118,160287,3329,4843,54210
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9968,284958,8648,51300,84705,6582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54901,4049,4728,55902,10383,2628
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6897,654,347,384,353500,1559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5599,2947,3784,4318,7098,5406
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51081,2180,1019,54106,64788,6392
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6515,26227,4015,2805,293,116931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3700,26119,8722,65985,3073,5467
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2053,37,50484,2158,10730,27249
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5971,1815,152926,339,3308,9919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3308,84701,3174,197131,7528,285126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1493,629,407008,1588,79053,27010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 434,3240,100130015,7355,154,100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6888,23543,9663,208,4502,3156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 325,1650,406,2495,23600,7355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7515,549,2896,2683,11096,2804
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4942,7915,137682,80339,150,355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4288,50507,5468,3383,63892,6548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 356,6514,23304,3651,7347,9630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 285848,477,4864,5428,4705,91942
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1028,79796,1351,18,517,2064
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2787,10537,388585,33,7038,129787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8942,2847,886,1409,60,4688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79068,9607,1956,2890,7084,26227
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4035,3988,200539,629,213,549
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6262,3899,1232,9365,9420,183
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3643,7172,7099,23556,2030,5071
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5257,4700,596,1629,23038,5444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406906,5798,10616,4723,23516,3098
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 221935,56997,183,79949,7097,10383
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3145,9380,9971,1376,3875,5330
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2944,140803,1583,7450,6402,6531
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 374291,5444,5728,5551,2155,3783
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10911,7026,4878,3551,513,80222
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25974,26291,2949,5313,5277,54331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6462,1337,7388,6554,477,7052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7390,84447,1909,149461,6897,3952
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2260,5824,29928,1508,56999,1593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116519,26191,10157,3284,1678,10667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 355,8945,57761,55526,84334,7289
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5192,1182,29928,1282,9332,8050
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123099,10166,10,825,5409,3417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84317,79001,10159,1185,217,490
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9919,23411,2790,90865,2793,6342
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 181,795,28951,132,3954,2310
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57085,28958,793,55858,325,539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6515,3123,6352,2110,387,4256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7284,7841,56923,54575,3638,9380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1737,3552,652,1056,55340,1373
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84300,558,5730,3712,197322,407006
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29928,5805,516,6794,2785,4723
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7916,6647,4702,498,166785,345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 19,4552,599,728,4089,3684
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10466,123,3074,50943,5239,5445
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28234,79087,1769,92609,5261,113235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3670,132158,92935,5515,9332,51204
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23054,28976,4126,28957,5621,177
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1675,4543,790955,1585,6786,7026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4338,5052,4502,4598,119559,6199
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2805,138050,3692,5538,26175,119559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10857,6338,147007,788,11019,389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 196385,1393,1524,54901,2798,81034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9969,9759,9420,5962,5315,10560
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84061,8648,2678,145264,387787,3250
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2034,56919,518,6531,6324,3082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9868,7048,5744,7350,8567,2538
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4357,1806,387,825,1557,93587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79587,5193,54600,2593,1636,79602
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7422,4023,26088,5270,3929,54915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4311,255231,183,10221,435,4337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54805,5741,3949,6513,5825,9388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 256471,6696,493753,8862,407024,4744
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5618,388585,6794,517,2647,91452
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5370,197322,3651,1493,795,858
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1634,54704,27010,3375,212,493753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2597,51660,178,10667,2170,4843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4724,2896,9332,134,51604,7097
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2646,6718,10094,7038,7056,344
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
65.155 1.278 66.550
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.758 | 0.041 | 0.938 | |