Mustafa Erhan Ozer
| Snapshot Date: 2024-03-27 14:00:18 -0400 (Wed, 27 Mar 2024) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: devel |
| git_last_commit: 822a88a |
| git_last_commit_date: 2024-01-08 13:31:35 -0400 (Mon, 08 Jan 2024) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-03-28 11:40:09 -0400 (Thu, 28 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4708 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" | 4446 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4471 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" | 4426 |
| 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 2084/2270 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.3.0 (landing page) Mustafa Erhan Ozer
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | 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: 1.3.0 |
| 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_1.3.0.tar.gz |
| StartedAt: 2024-03-28 00:28:24 -0400 (Thu, 28 Mar 2024) |
| EndedAt: 2024-03-28 00:33:57 -0400 (Thu, 28 Mar 2024) |
| EllapsedTime: 333.3 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_1.3.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/SVMDO.Rcheck’
* using R Under development (unstable) (2024-03-18 r86148)
* using platform: x86_64-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 Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.3.0’
* 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-x86_64/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. 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 Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-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: 5345,84705,29968,4758,5799,32
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 796,366,4049,875,10295,23118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6514,4255,5009,54809,26235,5105
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4795,8829,1050,5126,183,5295
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3766,55937,7430,406922,2852,5726
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5428,189,3636,3489,2524,231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 842,23038,2314,4314,114815,3930
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,1910,56938,145264,85479,5654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 847,9672,4478,1401,81033,1650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 229,51604,9332,104909134,2063,60528
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6571,3383,201595,3703,4988,5168
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9241,9370,56729,125988,5176,200205
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 336,56052,3423,5288,406922,6583
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5771,3483,8813,859,5184,3570
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64805,2948,367,4314,55343,8665
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2947,1641,4697,84334,5451,7498
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57818,102,332,5008,57570,8609
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9451,4089,63899,28958,4210,81704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10643,708,1786,4779,91942,9388
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1376,2746,26517,2169,4988,55670
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10400,100132285,6354,1716,7407,909
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23236,3875,8651,1557,4694,4126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3574,57192,51083,494324,5798,55278
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22926,6901,257313,836,1442,284184
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4976,1565,27097,55967,57570,374291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1080,5116,8473,212,253827,55867
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4351,2834,9255,6390,6523,10666
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 811,5447,4586,367,7515,1813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6390,644096,3815,23409,51555,5091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9927,8877,132,7390,6376,7084
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8862,7249,29880,4321,1728,3557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2488,3759,7137,181,6770,427
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51441,50674,241,6376,64432,84342
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4846,80724,10965,409,57818,4880
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5087,85569,7097,840,3593,5071
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53335,6897,818,5370,28976,825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3486,8722,4803,7037,1329,388753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1584,54704,498,10229,59067,197
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6579,43,6448,7132,51103,7253
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3382,5901,5476,113235,55818,1513
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1565,9479,335,6338,23516,5447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2934,656,11266,308,840,79661
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7369,50639,2063,3687,55486,151306
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3689,23410,3667,23175,2170,7525
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 593,5641,29929,6522,406991,191
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81570,434,27445,22845,6821,5515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5092,3060,494324,4069,283459,1277
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2776,3624,84706,196385,3316,50484
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 708,255308,79949,7097,7019,4758
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5176,350,53346,1232,583,653
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3688,2990,599,3930,9997,4716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6357,595,5970,407007,64432,51119
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5588,10,7172,3553,2646,51052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3486,388125,1890,5409,5069,1363
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4709,4535,64116,7082,3725,2100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6095,2760,85569,4938,8682,2790
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6296,4700,5313,391051,116985,3566
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3385,4723,9095,5641,4217,7422
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4719,203859,5499,1043,4276,427
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5175,652,196385,26088,3293,50639
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5077,6890,3768,6447,7297,706
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55829,79087,114548,5291,4826,3778
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23410,134,3315,3283,7025,84317
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 187,84239,2328,255231,7032,4338
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1573,5162,10549,384,6821,1675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10379,5315,1728,9429,5321,132158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28234,3295,4000,4524,2026,407040
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1646,9377,5213,6289,114815,5168
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2203,4594,6620,6258,7295,3113
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5328,3645,212,23038,2785,118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6602,3763,2517,5241,6934,406922
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5365,1584,1803,2006,406982,5409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2055,155,54106,2949,6390,1019
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3304,25801,80309,3358,1601,338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 477,3486,4150,2653,80070,8660
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3483,1316,5096,6721,383,4144
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 130120,1604,3832,10102,4319,332
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6524,5027,265,5660,4160,55340
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1346,152078,1066,54968,493753,8841
--> return NULL...
2024-03-28 00:33:48.258 R[94264:1365967056] XType: com.apple.fonts is not accessible.
2024-03-28 00:33:48.258 R[94264:1365967056] XType: XTFontStaticRegistry is enabled.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
52.980 1.607 55.076
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.747 | 0.030 | 0.788 | |