| Back to Build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-05-10 10:04:42 -0000 (Wed, 10 May 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences" | 6211 |
| 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 | ||||
|
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. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 2016/2194 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.1.0 (landing page) Mustafa Erhan Özer
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: SVMDO |
| Version: 1.1.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings SVMDO_1.1.0.tar.gz |
| StartedAt: 2023-05-10 06:35:47 -0000 (Wed, 10 May 2023) |
| EndedAt: 2023-05-10 06:41:19 -0000 (Wed, 10 May 2023) |
| EllapsedTime: 332.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings SVMDO_1.1.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/SVMDO.Rcheck’
* using R Under development (unstable) (2023-03-12 r83975)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.1.0’
* 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 loading without being on the library search path ... 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 ...
‘SVMDO_guide.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-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 Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (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: 1277,1520,434,9807,83440,7010
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7538,10841,513,1043,2791,6448
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2157,2889,7046,81570,407040,5593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2645,53632,3625,9131,4129,64135
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4478,56606,100125288,1075,6374,4705
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2932,475,275,10020,11222,7275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 249,65018,6376,1557,6804,6530
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3562,79001,4982,435,3762,9563
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3060,4357,2057,10102,81029,3763
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6448,10891,3725,3562,776,4000
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1608,64919,2745,3250,1645,4968
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3586,1889,1345,6649,3574,64772
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 583,4035,5654,6464,51128,7919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8659,1607,9826,1208,207,6439
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51024,726,8932,1678,6579,3816
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6522,4171,5599,2247,4860,4889
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2878,8879,3106,6469,6095,3240
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6097,8398,23590,2587,3638,3113
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3145,2203,7077,79585,2890,1489
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9759,63899,7525,57176,1910,7082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23054,6535,486,140803,2157,6550
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8764,4891,5979,538,3572,2026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4715,2767,10316,114815,567,4760
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2119,8398,1374,5891,57192,56729
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6576,7384,2793,1149,2695,9445
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 706,1027,5126,2157,374291,30061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 509,10365,4524,2542,4594,5662
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4720,943,4319,253943,1113,643394
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2157,29960,219,255231,4548,92667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7056,3945,627,11093,6402,3117
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 114814,2834,26762,91647,759,7200
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3426,48,5176,411,1583,6338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 85479,940,91869,359,6657,56623
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10666,4719,2539,9311,3091,3032
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8743,356,26235,10226,50639,212
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5741,6339,3623,7381,2026,9807
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4887,57016,640,347411,1734,153
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10682,151,23479,3813,2689,2591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3624,10616,4595,9526,5770,8665
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4598,6354,142,2952,9374,308
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2146,79068,3383,2110,10559,388372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 517,2538,169026,1757,23411,708
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7249,26521,6348,768239,5826,3767
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1200,2740,3418,1585,7056,8218
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90624,5443,84684,1514,6324,5618
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7852,4000,5368,540,7172,3586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4899,7409,10379,2947,2584,6891
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 285,4312,1146,27429,6341,80201
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 131669,2099,3077,8648,7364,35
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6275,445,1363,538,4723,11231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3992,84705,4722,147007,3416,11096
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6441,3592,7128,54210,3456,3725
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10842,60386,7407,29947,7355,6448
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5195,4719,4790,5364,200205,350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2495,4208,867,8648,6402,6929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79068,7297,7037,653361,7409,3956
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54539,5580,3066,3990,51422,125170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4780,2689,196743,8772,4889,1182
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6571,341,2713,4017,2717,23062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81031,83985,80854,7077,2984,3074
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51548,4976,3559,50943,540,5595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 152926,7249,1329,51660,6329,5444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 656,169026,3351,383,6584,51738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7525,6720,4780,51649,5265,27445
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8856,8604,6526,341,26873,6999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3938,2784,3115,6356,488,5589
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2876,590,1909,162417,788,27141
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1906,4150,3683,60528,6441,1650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5730,64432,498,50484,8504,6929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3945,3122,476,5563,7078,1583
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79071,80142,22877,2992,3615,285126
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4057,7035,1594,5360,409,2950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 595,3251,5579,91949,81031,56729
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5372,6891,1113,595,4728,5243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11093,94235,5730,3292,3283,6554
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64220,4760,2167,1589,644096,435
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116519,4702,3356,344905,91942,5162
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6620,4704,113235,10845,79934,5325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6517,51738,366,3074,6535,1019
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
26.466 0.896 27.329
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.611 | 0.009 | 0.622 | |