Mustafa Erhan Ozer
| Snapshot Date: 2024-07-22 14:00 -0400 (Mon, 22 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 2024-07-23 11:43 -0400 (Tue, 23 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" | 4280 |
| 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: /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_1.5.0.tar.gz |
| StartedAt: 2024-07-23 01:17:35 -0400 (Tue, 23 Jul 2024) |
| EndedAt: 2024-07-23 01:19:19 -0400 (Tue, 23 Jul 2024) |
| EllapsedTime: 104.1 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_1.5.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/SVMDO.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-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 Ventura 13.6.7
* 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 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-arm64/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. 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) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-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: 23556,5579,4000,63874,7054,79783
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2946,3566,10269,18,6519,10935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 627,1394,52,89874,5770,841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4124,2137,1056,406906,3932,2702
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8942,9563,64432,51116,23590,28234
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160428,9479,3670,6582,246,150
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4149,387787,2053,4688,114548,118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 130120,6941,27329,9056,87178,54968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 358,2799,3763,5563,3687,2762
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5770,5373,10891,51555,79087,7345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7252,7525,2161,84334,3460,137682
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90070,2006,4286,2135,10195,949
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4556,6351,1436,5967,79585,270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7442,6722,5160,10841,4035,30009
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 123263,5346,6647,50484,3949,91452
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1348,79783,55600,10842,3565,6536
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50674,1113,107075310,7049,2146,6427
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5105,3292,5697,148738,130120,1493
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 537,56923,407040,4522,3667,255738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6941,5126,185,712,91942,1232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2702,164656,130589,2590,2520,4594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5592,3479,53335,56922,10666,4899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7010,4035,657,10874,56729,2310
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3552,1369,29926,6279,3489,5660
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 48,92483,55283,1182,599,5826
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3654,5068,26580,5161,5190,94235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51,11093,3503,5594,109,9507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5598,4323,5370,54,56923,5345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9382,7036,726,8029,55768,6389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3725,3875,5468,2555,118,79827
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5196,5188,1968,2896,55024,79572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 718,256297,38,113235,2889,9807
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338557,5730,5498,9382,55970,2305
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169792,7052,6279,116985,9095,55867
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4000,2512,55829,148738,1019,100128525
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 130589,790,8714,27235,2100,1230
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 34,4656,5313,4153,4595,471
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5562,7025,8050,79087,2147,3615
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4221,23163,6362,27249,2934,3931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7037,1352,89823,6338,9420,56938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2057,6833,3566,5327,5562,6932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3315,3312,10135,9868,5799,9968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7369,3685,153642,3640,8659,493927
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1737,10316,9122,9374,9021,1675
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4055,467,5970,7019,89823,186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1339,2542,92667,857,3251,5126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 686,3717,10577,51478,5925,38
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2152,2321,5562,440503,6898,5188
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116519,208,8788,2799,9241,1573
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3687,2517,80207,7128,92609,54658
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3651,9095,640,94235,5105,10000
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3485,5255,54822,5108,5296,3803
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3131,6915,6447,6362,2006,5241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2203,5214,54331,55788,56729,5443
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 796,6390,6319,632,4537,5781
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7389,255308,79191,8842,5599,7139
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10159,2118,3553,3638,3479,4891
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29126,55283,665,847,84947,64116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4594,409,4855,3708,6329,4722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 115286,596,383,4544,4716,2984
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54106,2475,2512,345,5792,2309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54809,2495,5373,7321,3658,9374
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5970,4720,3953,55867,2100,10013
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4478,2847,4276,4852,3645,23236
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6097,7368,2310,4891,125170,10094
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10730,5499,43,5069,5465,56938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1581,79731,1589,7274,6285,4694
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4118,6329,5175,37,6389,3816
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5770,4125,952,477,32,5723
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6648,4069,229,3250,129787,617
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55829,23564,4321,5590,55486,5579
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3738,1571,3596,5175,3920,120227
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60528,316,2678,65985,6347,3291
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1593,8504,3690,81689,66036,3577
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4321,29960,4023,10226,8050,30061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8842,4925,3687,207,6579,1645
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10643,2516,26517,2660,160287,7018
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4233,3832,4060,6258,2992,5213
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9945,3105,2952,54809,6389,5360
--> return NULL...
2024-07-23 01:19:16.312 R[83879:18034487] XType: Using static font registry.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
17.625 0.407 18.050
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.236 | 0.007 | 0.244 | |