Mustafa Erhan Ozer
| Snapshot Date: 2024-07-23 14:00 -0400 (Tue, 23 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 2024-07-24 11:41 -0400 (Wed, 24 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" | 4284 |
| 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: 2024-07-24 00:41:36 -0400 (Wed, 24 Jul 2024) |
| EndedAt: 2024-07-24 00:47:18 -0400 (Wed, 24 Jul 2024) |
| EllapsedTime: 342.0 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: 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 ‘1.5.0’
* 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-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. 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: 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: 5515,10062,5972,2947,80854,83985
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1806,2903,3503,632,336,4286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2157,133396,7084,9475,1757,387787
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9241,643181,7010,388962,8802,5588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6311,5291,2271,6374,8675,8829
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5080,1595,6280,4826,1813,2788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7137,205327,3292,1716,1118,231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1815,7292,7442,10965,2720,2170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2516,5584,3636,55331,1230,1051
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3416,10279,10116,2852,3654,92935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 196385,1586,3283,7137,788,3958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1043,116519,51738,9415,6554,1605
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5836,10643,627,208,9619,48
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 653361,2701,7026,10628,5406,5837
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3295,100132285,10226,3440,857,2767
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1812,5023,5824,1629,5160,8773
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4478,7018,643387,4552,949,100156321
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3569,3417,57085,9122,2954,6519
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6517,26088,55863,467,5662,10379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2739,116931,650,6716,104909134,53335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2243,56652,10841,6340,7226,4160
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2954,6554,338557,89874,123099,90624
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51099,118,3551,29079,2244,4726
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5139,846,4094,353500,6531,1559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5228,8722,1717,3759,10938,182
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3978,55750,65985,5565,8473,123099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2166,1586,2137,5176,5008,2155
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4595,2997,53335,6932,7839,4323
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6772,857,10845,2064,6777,2952
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5080,4715,84902,10845,1965,53632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55024,6582,4217,37,9526,1351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1588,1537,6718,5788,10965,338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6441,60412,8682,112817,7025,5595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 467,712,8517,5264,2778,116931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5023,4938,81689,8694,116150,4247
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54802,7274,9507,5641,5193,4779
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5277,7422,929,9945,8648,1645
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10060,6531,79158,7172,7879,113235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3557,2696,7021,6019,355,10522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 104,7018,9965,84317,3101,3684
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3309,6690,7941,3931,5330,2328
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29926,644974,2646,10616,4502,5196
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8862,389692,5053,18,1394,6376
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7033,10999,51548,3304,10730,4478
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6275,5274,9388,3640,5631,6376
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26517,2314,4887,2166,5914,4591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3667,3480,7352,100506742,1513,51548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84889,275,2752,1636,496,1869
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4846,2052,3766,57678,9512,51703
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 640,7941,7177,7515,8678,10320
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6280,55037,3667,5291,25915,340024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1208,51079,1075,23654,5805,1644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2310,8504,54658,50674,51422,7078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5581,60386,4023,3592,200205,2701
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 825,79158,253943,1594,4694,5364
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 929,8945,513,3815,266,3683
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79661,7289,148979,7350,51021,4889
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2904,5624,7471,32,54331,53632
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1232,7528,841,8932,81689,2588
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5188,23590,1678,9826,55768,1019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7391,3710,3813,51703,6833,166785
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8854,54,5473,5507,6774,2997
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3373,6556,80067,22926,3654,353500
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5228,3356,115286,23753,7840,338328
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6569,3816,55270,540,6576,115286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7128,5828,2057,55816,3054,5593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8802,581,100,2653,10965,55967
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4724,23062,10157,6696,11095,1555
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 239,2896,1734,10116,7253,2547
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4728,2643,4537,123,5798,6387
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6648,3593,2588,5167,2108,3802
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8829,107075310,596,23175,2135,3280
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7292,8609,5168,64788,3791,7471
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57817,5265,1382,8829,1537,2937
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4277,3709,8773,256471,8659,10423
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51293,3416,3426,6339,2547,7412
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84833,8659,7032,5290,5971,3066
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 726,2538,1270,57048,57511,4591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 558,516,2547,7364,6571,6535
--> return NULL...
2024-07-24 00:47:08.660 R[57345:455512734] XType: com.apple.fonts is not accessible.
2024-07-24 00:47:08.661 R[57345:455512734] XType: XTFontStaticRegistry is enabled.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
57.387 1.374 59.035
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.784 | 0.032 | 0.825 | |