Mustafa Erhan Ozer
| Snapshot Date: 2024-06-12 14:00 -0400 (Wed, 12 Jun 2024) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_19 |
| git_last_commit: 8015edf |
| git_last_commit_date: 2024-04-30 11:49:19 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-06-14 14:38 -0400 (Fri, 14 Jun 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4757 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4491 |
| 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 2112/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.4.0 (landing page) Mustafa Erhan Ozer
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | 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: 1.4.0 |
| Command: F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz |
| StartedAt: 2024-06-13 12:40:03 -0400 (Thu, 13 Jun 2024) |
| EndedAt: 2024-06-13 12:52:08 -0400 (Thu, 13 Jun 2024) |
| EllapsedTime: 725.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'F:/biocbuild/bbs-3.19-bioc/meat/SVMDO.Rcheck'
* using R version 4.4.0 (2024-04-24 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.2.0
GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'SVMDO/DESCRIPTION' ... OK
* this is package 'SVMDO' version '1.4.0'
* 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 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: ### ### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.19-bioc/R/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 (2024-04-24 ucrt) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
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: 6814,6548,4716,4826,801,283459
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4508,3760,84342,28234,406991,4684
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 256764,51103,55867,6888,8788,1327
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5467,389692,1869,7351,4544,6339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116228,4879,9374,148979,53335,6722
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1363,6535,572,100126861,55750,79144
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79071,64788,506,768239,123283,1608
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 104,643394,29881,3458,712,5971
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2639,8029,1030,7172,1621,57511
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3174,7355,6715,148979,131669,54931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 149775,4536,2932,5321,23400,5277
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51478,7287,5214,4286,100156321,5190
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23564,3565,2731,5580,2309,1634
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2946,1737,5313,3122,7124,5193
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 178,114899,10,4899,652,1147
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 185,80724,51141,9429,80347,3931
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5184,80224,6934,788,2100,6550
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1678,54578,1361,29880,4312,648998
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4656,10857,3172,1027,9255,5126
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10269,7049,57678,3833,6615,5294
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4744,4714,6337,55818,9380,80309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 122961,9997,3663,5571,84987,3032
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54915,9317,9415,79068,4282,4854
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6505,253559,9512,28957,7284,51024
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 387,10667,2335,51024,1028,8560
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2639,347,3315,570,7275,79071
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6343,5293,4925,3605,185,2110
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8784,130589,338821,823,4312,952
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4889,5213,384,516,959,3558
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10644,9882,132158,216,100156321,9409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3667,3101,2785,773,5972,1649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4351,6647,5290,9241,2170,10221
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5243,54704,48,3119,4795,79087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 59067,3615,266,338,5189,335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 355,80339,4521,25813,8802,51092
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4035,493856,23291,50814,5742,153
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23556,7372,6576,4668,54476,5826
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5579,10842,5087,7248,54344,4726
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51083,64240,186,6280,3308,337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54806,5346,4591,23436,3627,3309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 292,27445,114815,574447,8743,5195
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6285,5551,2639,4535,3284,51117
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7879,6296,132158,10243,3802,347411
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8932,7364,229,22901,5451,10667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 285,5189,6492,6715,2713,5584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2495,152926,27247,3673,51458,134
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3385,10365,3290,3625,2310,3106
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 53632,4914,3500,4283,26191,1428
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2852,54576,391051,9370,83884,2135
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3032,4049,1316,3565,5369,351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57176,10221,203,4724,1559,8398
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23038,7287,2305,9759,1571,4337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4650,6814,1019,347411,268,4723
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3932,2158,10730,2646,2990,10628
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54344,50507,726,29880,886,6584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2641,2946,3106,308,2181,5193
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3676,6522,158,5788,7135,1312
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6391,54106,3552,160428,406991,3145
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10911,293,55829,9388,5236,10666
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 33,4358,80222,5590,4210,6657
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27035,7839,51081,1468,6339,60
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100132285,5009,2693,2167,3458,517
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3992,3350,26191,56244,4547,1175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1203,594,81788,9498,55902,84557
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26580,54331,5806,4009,9512,3030
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5473,406947,1147,9382,64241,1520
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 391051,2260,79731,4478,51649,4826
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6648,7177,23516,63874,3417,8462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29851,1471,292,57817,3991,643181
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56458,150379,8473,55630,27010,427
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28951,4282,27097,91869,2247,4171
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2109,2678,4323,54802,498,10874
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 943,3123,355,619373,652,123263
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 347,4586,57678,4023,2034,635
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1717,1050,2683,100529063,859,5595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8648,2590,8942,54577,2778,2584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28957,23556,337,5068,5027,25828
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3600,6948,256297,4162,6564,23038
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8856,57061,4233,51738,4018,6648
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
55.09 18.15 74.06
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.61 | 0.06 | 0.73 | |