Mustafa Erhan Ozer
| Snapshot Date: 2024-07-23 14:00 -0400 (Tue, 23 Jul 2024) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: devel |
| git_last_commit: b5eba63 |
| git_last_commit_date: 2024-04-30 11:49:19 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-07-24 11:42 -0400 (Wed, 24 Jul 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4688 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4284 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4455 |
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4404 |
| 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 2061/2248 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.5.0 (landing page) Mustafa Erhan Ozer
| nebbiolo2 | Linux (Ubuntu 22.04.3 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 13.6.5 Ventura / arm64 | 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: 1.5.0 |
| 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_1.5.0.tar.gz |
| StartedAt: 2024-07-24 01:23:24 -0400 (Wed, 24 Jul 2024) |
| EndedAt: 2024-07-24 01:25:08 -0400 (Wed, 24 Jul 2024) |
| EllapsedTime: 104.1 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_1.5.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/SVMDO.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.5.0’
* 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/4.4-arm64/Resources/library’ * installing *source* package ‘SVMDO’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading `shiny::dataTableOutput()` is deprecated as of shiny 1.8.1. Please use `DT::DTOutput()` instead. Since you have a suitable version of DT (>= v0.32.1), shiny::dataTableOutput() will automatically use DT::DTOutput() under-the-hood. If this happens to break your app, set `options(shiny.legacy.datatable = TRUE)` to get the legacy datatable implementation (or `FALSE` to squelch this message). See <https://rstudio.github.io/DT/shiny.html> for more information. ** 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-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: 3615,1374,3101,1268,6569,4502
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1514,8195,3280,6390,842,1585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84706,5499,538,111,197322,1019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2713,55863,7409,6382,341,6999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1604,332,4088,1030,84735,3630
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6608,25839,3350,2321,5588,6890
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 191,886,55788,366,9514,1557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4982,627,3728,3958,160428,100131801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1043,3091,7033,29079,3815,2180
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10580,5662,10911,182,2113,3131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55283,9927,432369,3552,5594,4938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5368,231,8722,3791,200186,2572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9927,3845,26291,28957,55526,4536
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54822,80309,1675,3101,6382,5370
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5296,3486,3292,574447,1757,5590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 959,6374,5444,3356,270,80207
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4709,642489,7139,27344,55863,185
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6232,2798,1601,7097,3606,6929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4842,2904,440138,51099,644974,5162
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80347,4214,1543,270,100133941,3401
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5291,6464,6906,345,2152,5788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8788,2713,149775,130120,6183,1812
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1443,54576,4524,7980,6775,7841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2157,53335,5105,1029,2864,4671
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2524,5950,55532,3676,1675,5195
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80724,3145,5315,4129,376497,729230
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5320,23576,1803,7384,186,7137
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 427,4160,5473,847,338328,6524
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3394,54822,2591,1493,1175,5261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57061,3663,4792,5860,3375,337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9317,7157,37,10,2693,55278
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1347,2590,55630,3172,85476,567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1950,3426,10229,53345,3101,28958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8473,1889,3667,6928,5369,7386
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3312,3596,6718,9514,5792,6521
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7035,9507,84063,5009,6928,26873
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6095,2694,2792,6948,5467,7026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81031,7916,7538,4879,4724,268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22852,1489,51099,6927,4489,570
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1364,199,2305,353500,246,7033
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5350,3640,5770,6285,29079,6897
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4521,3791,123283,488,84061,3339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 942,7879,55937,2168,213,55885
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6354,55005,5350,2115,84334,479
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100128525,5108,10580,2653,200186,4040
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4338,4282,1636,516,949,55340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 779,51422,7036,124976,4256,4319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 836,54539,57128,130589,30009,7941
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55867,79934,54575,3406,407024,183
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1340,10365,6183,563,55600,80339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 779,285848,6311,353,1113,54575
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54,818,1571,253559,959,8945
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84705,7486,4149,5968,2516,1606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 475,2806,10423,3932,353,54901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133,3141,3709,6510,84300,54822
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2584,3725,257313,8772,3162,551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10134,32,9415,2348,4129,84705
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 387787,1601,10060,958,6908,3576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 231,7507,6748,7480,51300,2305
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5190,1027,54896,26291,1513,2740
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10457,8600,7409,10857,29968,842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2520,5465,285362,212,788,10159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23062,728294,3615,959,9382,7082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 859,5476,50674,4938,718,2677
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1649,29968,4879,332,4654,335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4285,8228,64919,54901,3425,2793
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5788,5230,1185,3717,2303,1443
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 788,4060,777,23400,4982,801
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5445,4720,1543,9479,10157,6464
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2952,5286,4357,4060,9971,26191
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3425,55937,4351,29078,153642,51300
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5294,200539,9122,51167,3990,213
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 130589,4149,338821,5096,55572,84889
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 48,1052,4524,3832,5468,1559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4217,51103,65985,857,657,8813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4760,2168,23556,4358,9420,5598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3309,1312,8813,22868,23576,57016
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2712,2638,54,3292,28958,9429
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 387082,114815,150379,1182,10911,1244
--> return NULL...
2024-07-24 01:25:05.153 R[27031:27140473] XType: Using static font registry.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
17.746 0.357 18.118
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.236 | 0.006 | 0.242 | |