Mustafa Erhan Özer
| Snapshot Date: 2023-10-15 14:00:07 -0400 (Sun, 15 Oct 2023) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_17 |
| git_last_commit: 39afc67 |
| git_last_commit_date: 2023-04-25 11:44:47 -0400 (Tue, 25 Apr 2023) |
| Back to Mac ARM64 build report for BioC 3.17 |
|
This page was generated on 2023-10-20 09:38:13 -0400 (Fri, 20 Oct 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson2 | macOS 12.6.1 Monterey | arm64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4347 |
| 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 2050/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.0.0 (landing page) Mustafa Erhan Özer
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | OK | OK | OK | OK | | |||||||
|
To the developers/maintainers of the SVMDO package: - 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: 1.0.0 |
| 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_1.0.0.tar.gz |
| StartedAt: 2023-10-19 05:40:06 -0400 (Thu, 19 Oct 2023) |
| EndedAt: 2023-10-19 05:47:46 -0400 (Thu, 19 Oct 2023) |
| EllapsedTime: 460.8 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_1.0.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/SVMDO.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: aarch64-apple-darwin20 (64-bit)
* 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 12.6.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.0.0’
* 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 R 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 in ‘inst/doc’ ... 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/4.3-arm64/Resources/library’ * installing *source* package ‘SVMDO’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** 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 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20 (64-bit)
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: 1052,1588,142,2064,3480,54210
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3667,595,2739,64122,89823,572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55331,4000,5617,3382,2055,51004
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7297,5825,728294,790955,2908,166785
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 940,635,29880,3426,5579,55885
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 345,124976,624,55037,8802,7297
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 629,51204,23530,84701,1499,1435
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5588,4973,3439,3636,5230,3931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51079,5108,55163,23395,81689,8029
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8742,81704,83985,2984,779,150379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 117289,3766,3502,51021,5499,590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2266,121268,55858,4286,80339,154
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83884,51548,28951,5330,4537,2314
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57620,4018,23411,948,116931,407006
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 213,2222,84300,1277,57017,506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2944,5950,325,811,2919,3417
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6414,397491,409,29929,9968,4697
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56259,80309,64220,7390,5406,140803
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8651,29960,5328,79001,8694,4868
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6362,1737,10466,249,3123,1813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2806,4321,100125288,29880,91647,788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1444,5095,644096,1812,7325,64788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10497,4543,1493,339,4790,1075
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57264,4915,5122,4627,10226,8517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9514,5581,53335,116931,104,7052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4899,5723,7498,1807,10221,494324
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 253943,2063,91574,825,54578,79827
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80222,2305,4321,2752,83854,345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9817,55970,3065,840,7289,406922
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8639,4726,56623,3553,23082,4208
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 187,5256,6519,5598,4556,2321
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 268,9388,5294,48,10269,3113
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2688,3773,122961,4277,3304,1232
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1268,8462,10549,51316,7082,7841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3784,6354,54476,5781,4715,6097
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3060,5306,182,2119,140803,23163
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3507,7494,2647,155,3654,4035
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 361,3030,4654,57128,3953,4854
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51141,27445,5068,5027,4758,5320
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1113,84947,133396,5306,643387,3291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54331,6389,2946,158,7036,145258
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80224,540,8675,7046,2057,9575
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3784,11035,116519,150,3558,406913
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 186,79585,4595,10522,9414,1244
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3554,5276,2335,4722,5261,5770
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1066,6908,199,10295,151,57104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7033,5230,6382,212,6564,51103
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55278,9826,7032,5372,8803,285362
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1489,79071,4842,2068,1537,6716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84572,3106,7466,133,729238,104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5214,2180,132,2792,2247,9317
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 858,7839,387,51738,216,1558
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9965,3460,2713,2314,9607,5447
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55270,359,100529063,5241,8829,6256
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57511,1116,6714,6556,3283,2068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 383,6929,7225,4914,2852,9409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6279,779,5350,55005,7386,6401
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 170302,479,3759,7352,3308,8074
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 18,1803,1471,1906,4694,7078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2790,1909,1589,432369,9180,5660
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7133,2055,6352,11095,920,5331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5506,6928,123263,23600,5175,83884
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6502,1374,90070,5654,3075,158
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64900,125988,100128525,7494,22933,3507
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 654,2712,407040,22796,728,3034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27035,5972,2778,4126,338,10229
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2495,665,959,23038,25813,2146
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3623,23590,1356,32,2582,79572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7049,2516,56997,29960,5207,4017
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 685,22926,1345,4153,5920,125170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51021,29968,943,6390,3663,6362
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7248,4704,2954,943,3651,9131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5473,9131,231,79071,51703,1027
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4040,65993,51660,2936,6182,10577
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84902,10938,81788,2678,114815,4540
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 776,1052,4128,4567,55970,4855
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4171,1268,8074,401,6620,83985
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2946,23479,4060,23576,2593,5195
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 257313,9445,6897,64240,3625,776
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
23.300 0.971 35.243
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 1.353 | 0.031 | 2.119 | |