| Back to Build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-06-06 11:00:43 -0000 (Tue, 06 Jun 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.0 (2023-04-21) -- "Already Tomorrow" | 4366 |
| 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 2021/2199 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.1.0 (landing page) Mustafa Erhan Özer
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | |||||||||
| Package: SVMDO |
| Version: 1.1.0 |
| Command: /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings SVMDO_1.1.0.tar.gz |
| StartedAt: 2023-06-06 08:12:14 -0000 (Tue, 06 Jun 2023) |
| EndedAt: 2023-06-06 08:17:31 -0000 (Tue, 06 Jun 2023) |
| EllapsedTime: 316.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings SVMDO_1.1.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/SVMDO.Rcheck’
* using R version 4.3.0 (2023-04-21)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* 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/R/R-4.3.0/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.0/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 version 4.3.0 (2023-04-21) -- "Already Tomorrow"
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: 4891,79949,53345,5176,123099,2026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5631,6343,5860,7430,471,57061
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91452,5327,7916,3773,387082,2952
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6517,8398,83884,5068,5241,55818
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5781,57061,2517,694,56458,4055
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9817,7100,51181,22796,3280,3101
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3598,5096,81033,2731,51024,2194
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9514,2571,149461,1075,6448,3240
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2110,57761,3312,10269,81029,2746
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25801,10524,56848,23365,4321,10352
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29926,1737,1135,22845,8854,1548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 517,728642,836,29960,5860,10938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90624,56945,116150,6524,8639,10379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4544,6999,406938,7412,1019,54600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6908,10999,6868,201595,3385,285848
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7372,107075310,648998,1645,6272,355
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5599,9429,118,1815,50639,100507436
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2571,2653,200186,4726,65985,6236
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57678,27235,2835,1268,55630,6927
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5742,51021,4540,84340,2690,7525
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5327,8773,6522,6622,7915,3845
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388962,7407,84868,2184,5687,4535
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116228,3291,5290,4982,9572,6019
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 91949,6579,109,156,3351,2673
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8743,7841,6510,10379,28976,1559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3929,126328,3572,5261,1543,55278
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55572,3992,3115,3481,26762,2992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5080,1435,5687,4702,1843,4036
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 92609,6427,10102,4694,5744,6403
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4311,5715,5449,7386,2584,1244
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2247,6007,1376,2593,59340,3373
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7385,25805,10857,5798,6403,825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3592,6582,3623,9374,2992,6448
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5027,4915,3802,9941,1201,4548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57176,57016,388372,27232,1043,10642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6696,4826,9369,1191,496,9512
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3280,3032,51024,3284,5654,9451
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4846,79944,2099,397491,5629,5571
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2790,6289,2641,6183,5294,10724
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56938,3712,1043,4247,3658,1345
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2787,3157,5476,1185,56718,5589
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4722,7422,948,5467,3500,2488
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81033,83737,497231,5328,332,5742
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 999,3309,3932,4594,1201,3875
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 567,10886,868,136259,3832,5598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6517,1203,5274,5581,6354,4040
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51103,344,5798,2798,33,7919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 33,1363,79934,842,7389,3625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2954,332,1135,3500,9563,7132
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90070,84317,540,6556,8842,275
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81033,2161,183,81570,3931,1394
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5313,4319,5571,54809,89874,2799
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2487,406947,5631,55970,3439,6403
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25813,1585,1675,768239,3811,1444
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 652,212,50639,8228,3557,51106
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6343,2244,134,3105,5901,4128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8856,1277,440503,5345,406938,1346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7057,114814,33,7052,4855,5087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 138050,7098,18,8722,1644,3929
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5599,1992,22933,7386,2495,11254
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4055,55005,10845,2903,197322,479
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9807,7133,5087,1812,2947,4598
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7056,51478,3030,2805,1409,4351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5345,6352,4524,6948,8818,4842
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8074,79158,6382,4899,5325,54806
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4758,10316,23236,22797,6821,5029
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25915,1843,7097,1022,2919,6248
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3939,5023,867,3688,5919,7048
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57511,2328,387082,164656,10243,124976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3481,4938,1493,1329,627,79001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2068,9415,9630,1339,5228,9021
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50615,3456,10272,5972,100125288,23556
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4171,7879,325,4126,6280,55970
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7351,3172,5294,79144,8431,9619
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 875,5256,285362,3952,3605,6927
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2488,7528,55816,84063,8665,22933
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9414,3382,8862,84300,51092,4069
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4886,57818,4591,9575,2064,5139
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 213,4282,3778,170392,929,5618
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
25.180 0.727 25.938
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.553 | 0.028 | 0.584 | |