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 11:40 -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: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings SVMDO_1.5.0.tar.gz |
| StartedAt: 2024-07-24 04:31:13 -0400 (Wed, 24 Jul 2024) |
| EndedAt: 2024-07-24 04:36:43 -0400 (Wed, 24 Jul 2024) |
| EllapsedTime: 329.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings SVMDO_1.5.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'F:/biocbuild/bbs-3.20-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 '1.5.0'
* 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 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: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-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: 79191,1393,55331,85365,6341,347411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57016,7253,203859,5770,3101,886
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1573,51293,3569,1191,100131801,5315
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3284,9479,941,3351,3157,6584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2908,54902,3670,51092,488,3290
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100128525,6908,6183,64220,7391,54578
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 476,6554,10666,726,5592,1956
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7385,773,84447,1718,7026,475
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51649,5770,3106,7355,6341,6720
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406947,5369,5901,3304,2572,1543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 509,3303,285848,2158,388753,1442
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 619373,1571,5077,5798,9377,3768
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 34,6354,30061,60412,7450,4040
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 537,3640,29079,796,6510,6389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5091,10643,3501,118,10730,7128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2834,10857,5095,3939,26521,5593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100507436,23446,3623,8648,131118,5270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9377,1118,84705,57620,2512,23236
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4288,6602,6532,10911,23474,5080
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5594,5744,1056,27429,5250,6093
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5745,2642,3708,3576,6584,7015
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4124,5071,5465,4705,85479,3953
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2119,208,81029,11222,81034,23409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2184,9314,3077,79158,538,51128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9941,64801,79689,9997,50814,15
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2984,383,2109,1401,5133,7507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10965,10730,3304,1113,5192,1339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54704,80309,7036,5009,563,54902
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5320,2776,3690,51316,514,4057
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2271,7980,7076,407040,10423,55829
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1813,5972,104,5054,493753,27097
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10644,7284,84340,54805,859,7916
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53632,1717,51738,5601,9882,64131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2516,2157,718,154,11213,540
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3654,200539,5214,1646,10159,7253
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2108,6383,6929,4285,1393,9692
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 514,2517,3312,1443,859,5091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116519,5330,53947,85569,4128,8682
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5116,2167,9122,2110,338,93587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116150,6582,1203,3930,145258,1394
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7057,55331,1565,353,5009,3992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4306,2984,10165,516,3553,332
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3303,5293,6009,6337,51024,115286
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4925,6555,4880,8802,10666,5320
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57001,4124,1373,4671,186,23409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23654,513,123099,1312,51128,10116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203,84063,87178,7390,84061,117289
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2588,7879,5230,844,2280,51021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55163,3099,5296,3948,4567,50507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2495,79001,6095,7253,84706,3664
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2776,57554,22933,4094,1571,8803
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9076,5095,952,11222,5194,9311
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 487,885,23274,3832,959,9722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7253,4162,65993,5345,84239,10745
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9927,326625,1813,6382,3312,5563
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7019,6342,1346,3358,1409,10221
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6232,8651,338821,2524,3082,80067
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1468,5295,1499,10644,256471,5091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3350,1968,6569,27035,8455,27010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84061,6401,54805,133522,4540,2158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3958,54704,8050,1581,7015,7128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9021,3418,10911,942,4040,2847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3708,6289,25821,3312,4144,4598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6182,1573,56623,219,1520,54968
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3098,3811,4159,779,2119,445
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6647,23409,587,54331,5581,397491
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1116,2784,51052,63899,3638,1327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3394,10644,1803,823,3099,8675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6441,3329,11213,55858,10013,5256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4723,51181,8829,27329,406906,8942
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8473,1337,8682,11096,1910,53346
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4548,54106,64220,23038,11019,3292
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9104,6329,966,5296,7018,2762
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6019,5601,3717,1027,6248,100303755
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79644,2885,7225,4041,51458,1043
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 38,10272,55526,51204,4914,9965
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10,4891,2908,79071,9314,153
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 366,6392,3920,1786,6720,111
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 652,3845,3308,9672,6301,37
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
61.56 1.79 63.50
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.70 | 0.09 | 0.88 | |