Mustafa Erhan Ozer
| Snapshot Date: 2024-05-30 18:57:37 -0400 (Thu, 30 May 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 2024-05-31 19:30:46 -0400 (Fri, 31 May 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4669 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4404 |
| merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4431 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4384 |
| 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 2047/2233 | 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 | | ||||||||
| palomino4 | 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: 1.5.0 |
| 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: 2024-05-31 11:16:33 -0400 (Fri, 31 May 2024) |
| EndedAt: 2024-05-31 11:21:45 -0400 (Fri, 31 May 2024) |
| EllapsedTime: 311.9 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 4.4.0 RC (2024-04-16 r86468 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 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup"
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: 2689,57017,3638,2697,6888,7980
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1066,2100,1678,54344,1175,293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10221,445,1027,27089,1345,54896
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 104909134,4353,51660,8803,632,84300
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 186,4973,2146,5189,2760,7364
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1443,50814,79585,10991,2348,476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 920,9927,6833,81034,2834,353
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123283,23556,5565,34,959,4151
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 148713,4852,6584,4580,27247,4255
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5325,154,840,7407,155,6622
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 207,388372,2137,8722,339,4285
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7220,943,574447,116228,8218,3172
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3062,5967,162417,23101,4842,5211
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50639,3486,6383,23530,5660,5365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 811,5588,2194,10243,432369,335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10457,4712,11231,644096,7200,2006
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 15,4552,5728,10524,28958,155
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7157,3949,4880,6648,885,57511
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 440138,6521,3768,4598,8694,2791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1636,23706,563,3087,9437,4247
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1191,5286,7385,197,1029,2235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1644,93587,776,567,5091,7915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4715,80201,2989,2203,406903,55748
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79053,8722,5116,4826,1728,53345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7040,27010,84572,231,7276,4683
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3558,4586,1033,92609,2152,6341
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4976,151306,9971,3250,133396,27344
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116519,57176,5276,9409,50484,5345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4683,189,6898,8854,1491,27249
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2934,8660,29880,5727,3803,23054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1364,2776,3119,5167,56259,3710
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84649,8856,100506742,516,3385,2628
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1364,54414,1807,2673,54915,5250
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1558,6515,5594,126328,3958,1312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7033,9374,151306,3290,3654,4099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 196385,3480,1906,7879,1436,840
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55343,3815,522,7345,2555,4009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9429,4256,3673,5465,56938,7916
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2587,10730,6354,356,55315,718
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2118,7200,51099,100131801,10243,3558
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3598,3351,9663,4855,7139,9314
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55005,79068,10965,2745,407024,846
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57505,1636,2776,7351,170392,51316
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5286,57048,5820,27035,27249,55644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 185,151,6548,26227,48,406913
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6285,83884,23706,1646,4337,138050
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123263,3309,192343,6804,5409,255308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84947,9927,4729,4282,51141,10013
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 587,3638,857,84239,1369,999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 650,10,5328,796,10423,7249
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23274,7980,3113,8691,406991,3565
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3458,26503,5428,3098,80724,5194
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1369,283459,28958,4128,59340,3439
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1543,23753,5741,728,4357,4522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5971,54806,2785,1737,18,30061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5054,3638,10165,340706,6569,3329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 131118,79827,5507,406906,11255,7916
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2235,1182,6383,1636,8879,405
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3630,2516,842,3667,9445,7177
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23082,55270,27235,84300,4758,3625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3174,10549,4779,56997,23479,5191
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4255,6615,435,4089,6648,4567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10644,55750,23516,9475,100131801,4015
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1593,83440,3501,2653,7056,7225
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6183,3043,3615,4144,23082,2593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5449,23474,54,3032,338557,7376
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6999,4828,759,10226,1175,2629
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2328,10457,84842,54331,1471,4594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6009,26517,213,9445,4879,9968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4276,1468,57104,4723,1728,2052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5970,118,777,3553,885,54896
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4700,2328,5662,6390,3638,29929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 114899,7431,1584,4988,8856,84342
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388962,11096,6582,5325,2791,2559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1513,2109,7220,84061,1716,7916
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9122,2006,5191,1910,5265,6348
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1608,56458,23654,1281,5409,1392
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4286,8648,6311,7389,26227,84557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10352,1345,2878,3556,64432,7275
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
61.62 1.54 63.21
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.63 | 0.03 | 0.75 | |