Mustafa Erhan Ozer
| Snapshot Date: 2024-06-09 14:00 -0400 (Sun, 09 Jun 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 2024-06-11 15:41 -0400 (Tue, 11 Jun 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" | 4679 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4414 |
| merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4441 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 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 2052/2239 | 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: 2024-06-10 10:52:40 -0400 (Mon, 10 Jun 2024) |
| EndedAt: 2024-06-10 11:03:58 -0400 (Mon, 10 Jun 2024) |
| EllapsedTime: 677.8 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: 3172,57048,27089,60,23600,5367
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2932,26291,885,54901,7225,793
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5161,10745,5579,4124,694,7450
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7412,648998,958,4041,65993,653509
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6354,796,1056,4552,1586,2587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84649,3460,4277,1363,51116,5176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133,8876,5830,2161,1208,1409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6868,7840,619373,4684,107075310,1675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6285,52,2701,65985,1509,3643
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26521,2712,9479,8773,84061,6554
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6888,2952,7019,8942,54806,29929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 32,2109,2952,1051,729238,1906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 138050,4728,1644,7177,1232,5950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3554,4092,118,9498,6289,2110
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 729230,54106,836,6248,2729,130589
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3803,10666,55670,3932,2784,2395
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 239,7364,5020,3645,3123,255231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54822,5256,124976,2271,4502,5562
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1646,4149,54806,10938,2713,653361
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 117289,6343,6389,63874,332,23129
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3958,8691,84868,6347,8471,3688
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1201,9255,1232,9514,2593,291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2180,84705,50484,6521,6821,54575
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1565,55065,5629,7157,80724,10250
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4683,2806,4128,114899,1524,255231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5828,6718,3948,6609,10159,653
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3034,6182,4153,479,2026,22926
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 506,8471,1544,3356,6392,2057
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2328,3350,8942,4705,6272,9479
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54658,3034,27232,1588,3073,1543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5625,9056,2805,1050,55670,657
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5162,5023,3815,1605,54539,388372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 909,80339,3630,3081,6908,1584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 164656,56999,2235,2137,10938,80270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6550,7486,79587,8842,55278,28976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4880,8050,1499,3351,37,10938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2581,3684,5468,100303755,7049,84342
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9388,50674,1604,2181,9415,7409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3929,1815,5019,4353,10666,920
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1113,7031,2786,285,958,1232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 132158,7253,123263,10250,23530,199
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51004,2057,9475,200186,84317,57107
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1641,6287,51548,1146,5781,125988
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79689,6288,4536,4256,3356,1371
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5498,2864,32,84342,999,3486
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 653,6550,2488,7840,83737,3725
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8431,101180976,57001,8691,63931,104909134
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5662,4684,1135,255231,4089,131118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3358,3605,694,1066,7389,7345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1514,114815,790,2108,51119,4615
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6515,9382,1537,3691,3382,50814
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5744,215,6752,6908,4891,4092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 728441,5631,7056,9968,2068,406947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5590,11096,1033,4000,650,7046
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6548,142,55526,590,1641,3439
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6019,54902,6446,29126,169026,6289
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3689,11254,23530,55315,64087,2641
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5770,5091,10,1636,4852,387
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10724,1645,56052,129787,191,26235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4286,231,488,3385,514,2590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5451,10423,6339,6602,256471,2904
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11213,137682,7077,4718,2542,2244
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25915,7049,6403,23291,2890,5625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92667,406906,6390,6275,5473,497231
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 156,3562,23054,2820,2110,6383
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81788,7040,7879,2934,4627,7036
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1200,1232,219,4723,122961,4311
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81788,3688,7879,4357,2180,5444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 859,8675,7046,55816,3316,1584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 256764,26873,1340,6752,8074,50674
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3077,148979,6608,80070,9498,3779
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7386,4017,9619,55037,5589,1548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91647,8877,4159,4650,5372,6814
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203859,797,6748,2949,383,2638
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4522,6236,79001,790,23129,6535
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2790,64240,1718,142,10842,2645
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9076,55858,8932,285126,6337,4092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9414,101180976,4828,574447,3406,3708
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 788,4521,567,7049,64240,51103
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
52.10 17.50 69.92
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.61 | 0.08 | 0.77 | |