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 15:43 -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: /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: 2024-06-11 10:19:38 -0400 (Tue, 11 Jun 2024) |
| EndedAt: 2024-06-11 10:24:53 -0400 (Tue, 11 Jun 2024) |
| EllapsedTime: 314.9 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 4.4.0 Patched (2024-04-24 r86482)
* 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 13.6.6
* 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 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup"
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: 7054,18,131118,1537,7841,22926
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4210,1200,64241,55768,3115,6523
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 335,1581,2946,7941,23118,90865
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 487,3708,4552,3043,3157,2109
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 886,26060,55005,1436,5592,122961
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3712,5365,9759,2026,7389,627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 112817,10965,3875,6901,23395,6649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3303,407021,2695,11035,3559,2194
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3174,133396,3760,3575,145741,3483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10221,200810,90480,5589,2026,540
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3920,4854,200186,3122,29968,5727
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2244,6786,1716,207,7026,2835
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406913,3145,2673,4217,6928,10911
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5274,9382,5139,5019,506,8050
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3119,4860,948,5236,26291,5579
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56923,2776,55283,7839,5592,29851
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6777,4720,56244,2475,285848,2628
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3930,6324,200186,1355,23409,406903
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 114815,3074,55630,1371,8600,411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1591,3101,7046,8818,8784,5293
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 52,3728,113235,2305,4878,79158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9076,6609,27445,79144,5449,11093
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53335,10549,4286,5230,200810,2638
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10686,5828,4522,79827,2303,5662
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3556,2739,3687,3115,27249,617
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407009,9479,650,23274,2990,57580
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4351,10891,55699,6514,7040,189
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4779,55630,130589,63931,6296,55644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1345,3952,4057,6521,6097,2488
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2167,164656,231,132158,2099,11254
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3738,5631,23389,53345,7442,2791
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56997,109,6999,2487,5211,406913
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79731,92667,5071,5257,10730,7386
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5122,6324,6752,1589,2108,1186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 59272,5860,57107,4282,114884,3978
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90865,2584,2948,3605,156,338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 205327,5068,2629,706,231,8722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2628,5313,51316,7980,10686,9131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79949,5290,4705,5161,5625,4650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9807,3482,5161,153,2989,4705
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 65080,6868,3358,2113,3394,6648
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4508,3816,23101,337,2683,81034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1605,3304,28958,3283,9451,7471
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6093,388372,7879,2110,6532,2064
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1843,4502,2760,2793,7291,162417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10316,55670,6258,7135,25813,64241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10841,5538,406913,587,57817,57192
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57818,486,4233,729230,6258,116931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6341,55163,8841,64102,3417,2690
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51119,644974,7100,10874,7133,1489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 522,56606,2876,123,231,7840
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60528,6571,6389,4669,1645,653361
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5644,7941,401,9451,7355,6301
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5562,840,9563,57128,619373,8560
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2952,10911,6941,445,7507,9518
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3115,152078,3596,51604,4041,124976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7048,6510,8560,858,942,6915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27235,51660,3725,57678,85479,5837
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25828,3099,210,4337,6535,84889
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 210,7031,8682,64772,4828,3606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6341,66036,2804,8604,51004,114815
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4351,131669,1443,338557,5365,4586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5370,84649,53632,4337,114884,9255
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64788,191,4035,729230,5328,5618
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5723,6934,10243,23178,2030,51660
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4353,2683,3284,2689,7097,7033
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2731,1571,169026,80854,10400,6301
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3373,79071,9630,3991,1893,5176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4594,22852,4891,241,57107,1813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2729,6772,18,51094,5465,54805
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 114899,376497,338557,2632,3060,165
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 170392,10682,160287,6583,51422,27232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1585,1591,56718,6770,3033,825
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10642,54896,4089,1889,26060,4125
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3676,10682,55526,3440,7076,5590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26291,694,509,5950,1113,6389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10269,570,840,25821,1444,6932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5328,2109,2243,1734,866,5644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57761,728294,2875,2903,1050,5193
--> return NULL...
2024-06-11 10:24:43.031 R[81847:44313969] XType: Using static font registry.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
53.760 1.019 55.153
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.803 | 0.032 | 0.876 | |