Mustafa Erhan Özer
| Snapshot Date: 2023-09-22 14:00:14 -0400 (Fri, 22 Sep 2023) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_17 |
| git_last_commit: 39afc67 |
| git_last_commit_date: 2023-04-25 11:44:47 -0400 (Tue, 25 Apr 2023) |
| Back to Multiple platform build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-09-23 11:35:26 -0400 (Sat, 23 Sep 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4625 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4378 |
| merida1 | macOS 12.6.4 Monterey | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4394 |
| 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 2050/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.0.0 (landing page) Mustafa Erhan Özer
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.6.4 Monterey / x86_64 | OK | OK | OK | NA | |||||||||
|
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: 1.0.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings SVMDO_1.0.0.tar.gz |
| StartedAt: 2023-09-23 01:58:49 -0400 (Sat, 23 Sep 2023) |
| EndedAt: 2023-09-23 02:02:53 -0400 (Sat, 23 Sep 2023) |
| EllapsedTime: 244.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings SVMDO_1.0.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/SVMDO.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
* running under: Ubuntu 22.04.3 LTS
* using session charset: UTF-8
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.0.0’
* 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 R 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 in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘SVMDO_guide.Rmd’ using ‘UTF-8’... OK
NONE
* 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-3.17-bioc/R/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/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 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
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: 50814,3778,6401,3795,1968,3667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55699,1393,10165,1468,1191,7385
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2280,2804,6401,3458,9380,7515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 488,256297,572,10911,2997,8784
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 374291,2099,3932,3952,84947,9076
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6296,2904,2694,5743,9807,563
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9388,255308,1471,23516,8471,52
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2787,9409,80724,1435,3768,5624
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6615,7430,6786,1201,2475,119559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1346,29926,6550,7021,55163,3156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 859,4744,1442,2820,4683,3995
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83985,6347,64801,6288,5741,63874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 599,886,7291,383,64135,3956
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 134,100128525,2137,8682,5641,3417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60412,3845,6556,1965,26762,1593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3760,364,54902,6522,29960,1843
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 788,7030,4843,57511,29851,64788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2694,7021,56052,6569,1428,29926
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8788,79191,5087,292,3503,4968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55630,4057,3486,5744,25805,65080
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7225,57017,52,7040,326625,3382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4543,79661,22852,4069,1052,8195
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3791,8195,407004,5345,2243,797
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2639,348,6324,8504,4580,2280
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3416,55572,4627,2118,5727,494324
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3554,2629,5189,364,4256,4357
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 629,5781,5126,476,5792,65985
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10013,2108,79001,650,3284,55816
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1812,5826,3738,212,3939,84735
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1584,6690,1244,9868,5020,4547
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10379,7385,266,221895,8740,3351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79731,56848,4060,5087,27141,28976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,9807,10320,5091,2647,3875
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51081,1649,7220,19,55768,6609
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4826,4704,842,3293,3795,7032
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5727,191,823,1443,8862,23291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5052,5962,57761,55005,2200,6602
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90480,10616,1649,55902,1524,537
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4744,366,3316,7100,341,10616
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1356,338,4595,5654,55788,79087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5476,5029,4722,8567,7040,22868
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5191,9997,9927,22868,3934,387082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6915,7412,2710,5697,10295,7507
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1147,5092,56923,9370,1589,5054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4609,3329,5473,119559,3615,4012
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57215,9095,5321,1889,4049,4887
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 118,2475,10,22797,6301,4312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55937,4288,7274,388753,4650,116985
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 790955,929,8813,11096,4683,2588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1571,2798,3077,66036,6722,840
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1513,1786,90865,1075,79689,53346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3559,2109,65993,133396,656,57620
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3606,2788,91869,6678,7128,2639
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1050,6609,1355,1052,89823,10019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6337,51422,1537,55805,7287,3703
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3651,6236,1869,657,10102,406903
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 434,3339,387082,3554,356,64087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51204,23062,60386,3988,4586,5798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5697,4524,5195,6934,54600,84833
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407006,33,6352,8854,3081,5256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169792,3673,55630,124976,4609,6340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4842,6319,9807,83985,3687,57104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 471,6337,132158,116985,590,148979
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 104,197322,55805,729230,84842,51204
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4729,10965,2889,84868,5087,7049
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 65993,6615,2712,4976,2820,3351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 201595,9927,7078,4057,2147,84701
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 537,4036,5498,3759,5629,50639
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1909,10365,5498,640,4668,5972
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 325,3479,29960,1490,627,10991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406906,7248,2695,6555,3483,5788
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1208,4720,7177,2475,664,2155
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60,3240,64087,7139,599,50615
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3958,6927,7389,79587,538,80347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10059,6722,405,2697,2271,506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5919,10999,101180976,60386,64432,587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3691,27010,2309,5799,5565,140803
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1803,1373,7515,3250,3483,5346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6620,1376,3932,1316,65993,7253
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
17.862 0.835 18.670
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.500 | 0.029 | 0.531 | |