Mustafa Erhan Özer
| Snapshot Date: 2023-10-02 14:00:11 -0400 (Mon, 02 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 Multiple platform build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-10-03 11:37:58 -0400 (Tue, 03 Oct 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4626 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4379 |
| merida1 | macOS 12.6.4 Monterey | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4395 |
| 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
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.6.4 Monterey / x86_64 | 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: 1.0.0 |
| 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: 2023-10-03 07:48:37 -0400 (Tue, 03 Oct 2023) |
| EndedAt: 2023-10-03 07:58:23 -0400 (Tue, 03 Oct 2023) |
| EllapsedTime: 586.6 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/meat/SVMDO.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
Apple clang version 14.0.3 (clang-1403.0.22.14.1)
GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.6.4
* 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-x86_64/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: x86_64-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: 2806,4151,3394,2992,6521,6888
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7507,153642,53632,3251,3293,1543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25813,84868,23129,3117,4729,7412
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6441,80207,427,196743,488,50943
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10524,1555,55343,4803,64087,116931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7385,9415,1789,92667,3700,3708
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51079,7528,55858,2166,4283,336
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3091,7852,5644,54822,10935,31
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4684,308,55630,6339,3980,2998
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9415,3250,84947,406906,1718,56458
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80201,2660,1594,1043,92935,857
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1601,114899,9607,59272,268,156
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6834,9945,2932,4548,30061,19
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6236,10891,2166,10379,4321,6329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3816,28234,5538,5345,6888,3075
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9056,64919,55270,5270,9437,338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3562,55805,81704,4925,2152,4522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 405,5468,5624,2904,5241,6337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2538,3030,64241,595,145264,200186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6777,114548,5190,285,8856,10
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5175,64805,3990,3569,4232,3762
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7010,4357,203,10020,8074,10642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56652,55750,2660,5191,10842,617
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54896,3122,2876,5370,6093,2997
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 949,1672,100507436,9122,650,1435
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 63931,376497,90480,2944,706,64087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 31,7052,10457,788,3290,8218
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 959,8560,7839,10457,6908,3489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1601,83440,8682,2944,6659,4012
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1428,3658,2314,875,125988,1351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 118,10745,43,2180,1363,83884
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5584,5428,4508,4580,336,2167
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3992,201595,8675,4036,522,585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4688,7291,54414,1435,4716,4286
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5350,3779,2745,23436,5802,29968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2101,151306,10524,4758,84277,5586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3507,4723,54331,5293,50484,476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55586,79053,10135,79585,51106,170302
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 120227,56244,338,5787,2119,2628
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 800,5162,4040,7325,3577,6934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 462,9663,694,3339,23600,83440
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 361,100131801,6521,6678,100133941,340706
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11093,5972,2587,3554,8722,23291
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4846,4567,56652,4009,655,5370
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2137,3958,3640,7248,1806,7422
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2266,3406,116150,8659,3106,338557
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 102,26119,112817,10682,1889,1606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3485,5020,8813,3663,2805,790
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1401,7919,4040,8694,51167,6616
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3240,3417,55748,5288,338328,2697
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4060,84572,53947,4358,253827,4968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 38,55024,509,100132285,65993,6906
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5192,2280,3416,9965,406947,4591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55805,665,5373,2647,23365,3627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5409,5053,3570,10559,406903,10013
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1591,154,1033,3760,55937,55034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9409,7424,9826,23062,1649,388962
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5370,55818,3242,29078,5162,57128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7321,476,10229,54577,51300,23411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84334,8029,3598,3251,3615,1806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 191,8722,1401,56718,79191,2932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26580,25974,643387,55600,92609,652
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27329,5581,2660,6934,2280,6469
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2303,4828,55024,5473,493753,56997
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6095,5641,10643,9560,627,7321
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407004,842,5288,6289,51478,2693
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3791,8743,5726,7381,6093,189
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116985,3624,4697,1329,3074,2798
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4722,5499,55343,619373,5313,2161
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7167,92483,2739,479,149461,7391
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6532,100133941,1348,5618,800,7321
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 728642,4552,5367,768239,7098,80142
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3625,1621,5345,1270,57128,8802
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10580,51478,3773,2056,116150,2932
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23654,2952,10457,3651,1050,8877
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84987,7368,5506,387,8517,2222
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 265,55270,3350,4276,1364,841
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79934,3952,5787,7840,6833,54915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51478,57620,92609,4702,293,5447
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
38.832 1.688 51.796
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.968 | 0.042 | 1.284 | |