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This page was generated on 2025-08-14 12:07 -0400 (Thu, 14 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4818
palomino8Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4553
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4595
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4537
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4535
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 2119/2317HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SVMDO 1.9.0  (landing page)
Mustafa Erhan Ozer
Snapshot Date: 2025-08-13 13:45 -0400 (Wed, 13 Aug 2025)
git_url: https://git.bioconductor.org/packages/SVMDO
git_branch: devel
git_last_commit: 7851a60
git_last_commit_date: 2025-04-15 13:15:07 -0400 (Tue, 15 Apr 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for SVMDO on palomino8

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.

raw results


Summary

Package: SVMDO
Version: 1.9.0
Command: F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.22-bioc\R\library --no-vignettes --timings SVMDO_1.9.0.tar.gz
StartedAt: 2025-08-14 07:13:56 -0400 (Thu, 14 Aug 2025)
EndedAt: 2025-08-14 07:21:03 -0400 (Thu, 14 Aug 2025)
EllapsedTime: 426.5 seconds
RetCode: 0
Status:   OK  
CheckDir: SVMDO.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.22-bioc\R\library --no-vignettes --timings SVMDO_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck'
* using R version 4.5.1 (2025-06-13 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* 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 '1.9.0'
* 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


Installation output

SVMDO.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD INSTALL SVMDO
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.22-bioc/R/library'
* installing *source* package 'SVMDO' ...
** this is package 'SVMDO' version '1.9.0'
** 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)

Tests output

SVMDO.Rcheck/tests/testthat.Rout


R version 4.5.1 (2025-06-13 ucrt) -- "Great Square Root"
Copyright (C) 2025 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: 1593,112817,3795,652,116228,5443
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1798,4000,26175,5799,6445,56606
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4915,840,10891,89874,10157,3651
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3091,26191,15,3779,5288,3034
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10269,89874,55630,6401,358,50943
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27249,3759,2243,10269,2115,10382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5629,26354,2653,2158,1489,3991
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8243,1645,3157,8504,7052,351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 338328,83693,1186,6579,11136,79644
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 43,10577,1277,348,4656,92483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7319,27344,1644,23543,4544,3728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8675,10724,6927,9868,2118,338
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3101,150,1281,4942,51738,2152
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55532,8675,3710,6834,5595,8431
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1373,51082,7355,3710,5406,6938
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2878,2932,10000,5745,6262,7351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10159,217,51604,3643,2992,54476
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4669,5728,6775,3304,2110,53346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1393,1200,1650,29929,5442,6576
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4524,5805,3600,4973,10667,2947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5468,5175,51,54331,6513,1558
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10965,80222,90865,153,1186,1339
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 43,6248,27344,406937,1369,64900
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2647,1757,4982,2693,105372280,154
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 185,4852,100303755,3416,2998,283459
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80331,5230,175,388753,4760,5257
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2677,338328,4015,407006,54896,9698
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5967,55967,10841,493,22852,200539
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5798,128486,56729,7252,5184,551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2170,1056,9445,844,27089,79585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 487,4306,2157,9968,2876,26175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 80207,1394,6928,3988,57215,54805
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6519,959,64116,11093,57048,388585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 87178,81704,10667,54539,54578,11213
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1182,537,29960,10537,4714,152078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4712,1789,6999,3992,5444,5264
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6579,353,3480,156,11095,2653
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55005,1393,6890,7019,10059,5654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23291,9054,3638,7879,5644,84833
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4286,9779,4899,5901,23654,3952
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2697,6261,6929,22797,1581,10577
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3123,8560,8879,2115,11213,407045
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7879,285848,3240,4543,1843,496
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23410,7276,84447,6897,462,200205
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6584,56729,6554,2890,1027,10382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5230,7388,5295,9572,1649,5442
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1889,5313,2119,840,5068,8813
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 486,6387,593,79587,3931,4842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4312,199,1728,10352,729238,4878
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5092,338328,50674,3034,2646,51548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1890,2896,113235,875,6383,325
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100303755,2992,2760,1374,9409,51176
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5211,91647,5313,6556,51738,35
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2790,2235,2538,3074,6531,8743
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4286,83985,57761,2948,4915,123099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6382,867,5270,4126,10991,284184
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5594,1591,54931,50507,6519,7287
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 203068,1806,5445,5207,10580,54549
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3119,3553,5350,6329,91647,111240474
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6492,1889,6714,6550,1232,5367
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5644,5327,92935,10352,105372280,57001
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1374,795,6391,7409,221458,9572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1607,539,1641,1737,3779,1028
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5617,7841,55818,27429,3899,5581
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 283120,54798,6550,249,10991,124976
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5330,5250,406937,1277,582,7297
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9997,121268,567,10644,7297,57761
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3990,2903,84705,5265,8842,51555
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56997,2548,801,2146,4967,51082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23590,1537,6536,496,22978,55278
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4728,65993,5901,4852,79949,133
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 790,2787,407004,55331,4544,2731
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 201595,6565,84701,3242,56302,6714
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 22868,7390,100128525,728294,145264,599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57511,100131801,5160,5175,2992,10
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 558,2280,4233,326625,54549,941
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51422,203,5167,53345,4286,26060
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6347,2688,87178,5971,5727,10020
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2688,5256,196385,22820,8665,4548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 582,1361,10667,434,53632,3958
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3783,7407,336,2678,471,3250
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10019,3030,10250,189,3351,3032
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 30061,9692,348,3458,64788,4780
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4716,2588,4306,3958,7422,9365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79068,5288,51608,55343,2778,2992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3598,3645,2739,80224,53632,123283
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6774,652,5080,3101,9560,7076
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3953,122961,2200,1351,6403,79633
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51601,3081,94235,10580,2805,5805
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4358,9560,6261,4887,6342,330
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3293,6550,2702,6833,64801,8567
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5052,57001,5967,846,5054,407045
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2157,585,239,54205,84340,2820
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3155,64689,8651,640,26088,2793
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 11132,2335,2694,842,4790,593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10682,132,54552,6720,9507,5250
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7038,9104,1906,353,7450,253559
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3630,56999,80267,64788,23410,5860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 590,2161,7431,846,2903,6199
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3382,116085,8799,7124,142,35
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79644,1585,6579,9370,5743,4144
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6649,563,55343,57128,1149,133522
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 640,1717,1435,283120,6714,107075310
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81034,26003,407021,79731,4694,79133
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 107075310,3329,10128,2592,2152,941
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 445,509,275,28976,55937,2108
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4860,2998,6906,388585,491,6319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1491,728294,9420,55753,9445,5825
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5792,5741,7941,7389,10682,23175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3290,64432,9672,4683,64689,389
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7048,1806,7389,25828,6263,6908
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55034,10383,4144,7057,1571,9091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 664,1346,2767,6356,5009,840
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2952,23291,383,2717,2524,8243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 339,3030,55572,5161,57104,8659
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
> 
> proc.time()
   user  system elapsed 
 134.76    3.03  138.40 

Example timings

SVMDO.Rcheck/SVMDO-Ex.timings

nameusersystemelapsed
runGUI0.570.111.47