Mustafa Erhan Ozer
| Snapshot Date: 2024-07-10 14:00 -0400 (Wed, 10 Jul 2024) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_19 |
| git_last_commit: 8015edf |
| git_last_commit_date: 2024-04-30 11:49:19 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-07-12 17:40 -0400 (Fri, 12 Jul 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4741 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4483 |
| merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4512 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4461 |
| 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 2112/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.4.0 (landing page) Mustafa Erhan Ozer
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 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: 1.4.0 |
| Command: E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=E:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz |
| StartedAt: 2024-07-12 05:12:59 -0400 (Fri, 12 Jul 2024) |
| EndedAt: 2024-07-12 05:18:34 -0400 (Fri, 12 Jul 2024) |
| EllapsedTime: 334.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=E:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'E:/biocbuild/bbs-3.19-bioc/meat/SVMDO.Rcheck'
* using R version 4.4.1 (2024-06-14 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.2.0
GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'SVMDO/DESCRIPTION' ... OK
* this is package 'SVMDO' version '1.4.0'
* 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 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: ### ### E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library 'E:/biocbuild/bbs-3.19-bioc/R/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 ucrt) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
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: 54809,5914,64220,2760,19,7026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 120227,1355,34,1347,57104,5565
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54704,6898,7381,7040,7054,51141
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4535,3991,8682,1371,585,581
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10157,84701,7200,1393,136259,6285
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4580,1382,1409,91869,407024,6343
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57264,79144,26088,85476,6891,6582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22926,440503,4255,4099,4128,7515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3552,1589,1232,23446,54575,1369
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3033,3082,1909,6524,2717,9076
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23411,635,57176,138050,7389,1022
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2628,728294,2788,2512,10269,5250
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200539,9131,2194,4700,2348,7139
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8660,9672,6579,6834,5498,5290
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 383,51316,2584,27089,51116,63899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6342,25801,3773,4018,1066,4586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2155,63874,999,11132,2581,2643
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64102,9807,6339,7355,1489,5727
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5328,7386,551,256297,868,10379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9314,181,55829,64135,4337,2990
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4627,104909134,100131801,57061,7431,26060
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28957,51106,5313,4846,4598,2786
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 182,4846,2787,4758,10666,3106
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2161,1066,185,79053,149461,656
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 151,388372,107075310,1175,57580,3768
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4318,3803,81031,4627,169026,3440
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3439,10642,6718,52,6720,55867
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2057,686,7128,9619,10379,513
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5805,27445,3043,2805,8682,1118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2063,654,5743,821,2864,1312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 142,686,1604,1435,3350,1738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4586,219,1340,57016,60528,4214
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1051,26503,706,2944,2690,57048
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29880,2784,3685,842,57761,5243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22877,5743,4092,1499,5581,6915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3795,10320,6582,2944,4489,407006
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6530,3875,338,2146,51649,7827
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2701,79731,344,3978,6382,4521
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1807,3091,2538,2395,79661,1118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2524,9563,10643,10059,51601,643387
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5589,3293,4714,3815,145258,4162
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23436,8609,51106,6608,316,3605
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5008,6948,131118,4684,145741,6448
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2639,5860,5972,10272,7253,2170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 410,5256,54704,3551,3712,9414
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6469,5191,494324,6343,8799,3507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6287,4669,3425,196743,5781,7018
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4826,2673,1116,1555,54658,6582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4723,54796,60684,55816,3240,9663
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4312,4040,5071,80347,777,11266
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3485,4938,2235,7450,81033,2693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10745,729230,4968,3098,427,160287
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2547,4060,3833,100506742,292,401
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2244,152926,1601,800,1606,93587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4744,3664,1268,51660,2310,79133
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5914,844,3159,210,84701,5644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23564,5586,64102,8665,51181,268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4012,1312,132158,4508,6555,2739
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1491,1382,23236,650,8202,3980
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6584,3456,9607,582,63892,5901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5745,506,4719,4524,84649,5571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6464,411,1890,1442,2641,65080
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 148738,5837,4337,7381,10013,6462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2739,56997,909,121268,4522,125170
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28234,6183,6352,27141,8694,93587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 151306,2878,3643,4668,4017,3502
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5069,4312,3725,1203,2876,55937
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8567,207,5069,7528,5236,80267
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9131,5447,5590,2068,231,23410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26060,23446,1571,729230,6775,57128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2767,793,2487,87178,5160,336
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51604,6774,151,5270,3284,1027
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56718,6427,1270,5245,5444,6392
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3119,2908,90480,270,51117,3240
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5836,6402,26088,1346,90480,125170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 410,3559,10320,2200,35,3552
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2169,253559,9507,29960,2673,5891
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7507,55572,4718,10165,6777,27249
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2520,5230,316,4671,4221,3562
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
64.56 1.59 66.31
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.66 | 0.06 | 0.81 | |