Mustafa Erhan Ozer
| Snapshot Date: 2024-07-21 14:00 -0400 (Sun, 21 Jul 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 2024-07-24 09:05 -0400 (Wed, 24 Jul 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4747 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4489 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4518 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4467 |
| 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 | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | 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: E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=E:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz |
| StartedAt: 2024-07-22 06:53:27 -0400 (Mon, 22 Jul 2024) |
| EndedAt: 2024-07-22 06:59:04 -0400 (Mon, 22 Jul 2024) |
| EllapsedTime: 337.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=E:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'E:/biocbuild/bbs-3.19-bioc/meat/SVMDO.Rcheck'
* using R version 4.4.1 (2024-06-14 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: ### ### E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library 'E:/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 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"
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: 5245,1909,3290,2820,3066,6948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338328,2109,22901,8854,64801,776
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2056,7391,90070,5009,9498,540
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5580,3953,3060,145741,7980,4973
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54106,284184,50507,29079,6941,467
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6337,857,5315,10666,7345,2847
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6279,3615,6289,2582,6272,60684
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203,5027,55788,7025,2694,653361
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2949,92609,28958,156,54344,4171
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8862,55805,2864,3087,4609,3938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57264,91949,2673,3664,6928,1594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1351,345,152078,151306,5971,8050
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 728441,3034,54414,4314,116085,50507
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3670,4580,5288,266,2309,3034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1605,2936,54205,5350,4627,4535
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3592,90480,4351,5055,54806,7919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 909,3489,10221,6236,1675,7046
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 101180976,1649,2395,65993,4035,8813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6554,9429,3312,10522,3170,6582
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51300,91452,9054,7220,6659,3636
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6462,3503,64919,335,107075310,54576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 114548,3283,4828,4319,2321,8942
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4650,2244,178,7128,60528,10643
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1147,3075,7466,9826,599,5255
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5799,4094,162417,6357,7915,10935
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28951,100125288,57176,6622,7350,3708
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57128,9382,4552,130120,3375,34
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7466,1807,308,1591,51548,2395
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9965,55970,56718,5196,8455,249
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57001,84701,2572,1490,4137,9365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3728,5476,57192,3948,9518,57016
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6414,583,836,23410,6376,4351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8660,124976,6236,4627,5428,65018
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 818,3280,3292,2488,5743,859
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3988,388962,5506,84300,57107,1584
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1815,54802,6403,30061,5020,7226
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5968,2203,4760,6555,3932,664
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 147007,6414,3728,5313,3664,6948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 178,84987,2555,7351,256764,2194
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4852,85476,506,5715,79944,54205
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4552,3502,3426,6897,388753,3065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1968,56458,4779,4012,6287,5743
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23082,5133,178,29881,5788,2688
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3667,4321,3768,2006,517,201305
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29960,407009,91452,5515,81029,8945
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3832,3382,1201,1030,79144,7442
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3948,84239,406947,4684,55005,2169
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2328,3062,5161,7408,2660,22797
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100156321,6932,3087,2052,23410,5925
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23054,1409,4321,4846,64900,3556
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4323,2937,54575,26503,27097,2495
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10243,84735,133396,145264,4478,153642
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23411,6532,10524,4521,5595,2159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55149,1030,51181,3638,643181,6602
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51024,6897,5592,22877,2904,23576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8309,2864,6770,79071,341,6530
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4353,51604,836,3339,4758,50639
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3483,2184,4826,3416,2517,10560
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55315,100131801,10,859,26235,4149
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23753,4726,6341,1513,728642,26503
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3351,407007,10457,3676,4795,2243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6934,7364,728,2100,27097,875
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6357,3351,83737,25839,6804,5265
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2990,6721,5798,22933,162417,4055
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1890,6794,1208,9317,129787,54802
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 59340,7841,133522,6374,2876,60412
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1718,5290,406906,80854,1281,10020
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10886,2784,434,249,55805,7422
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2731,275,3556,1471,5092,1493
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6890,9941,383,886,10094,27235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4536,1373,9692,60,407040,55343
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 335,6347,4925,5631,3778,54331
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 644974,1807,4650,92935,336,2820
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10628,5274,8856,6319,10379,4591
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5095,3065,51119,10466,5250,1537
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3980,857,10580,7525,1200,116519
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2101,1869,3738,23479,4159,9607
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1956,1645,10320,10062,4695,6583
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1208,80270,629,187,116931,1033
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
60.64 1.45 62.54
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.76 | 0.05 | 0.89 | |