Mustafa Erhan Ozer
| Snapshot Date: 2025-11-20 15:01 -0500 (Thu, 20 Nov 2025) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_22 |
| git_last_commit: 86871da |
| git_last_commit_date: 2025-10-29 11:23:08 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-11-24 12:04 -0500 (Mon, 24 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4873 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble" | 4654 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4600 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4668 |
| 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 2163/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.10.0 (landing page) Mustafa Erhan Ozer
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.7.5 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | NA | ||||||||||
|
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: 1.10.0 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings SVMDO_1.10.0.tar.gz |
| StartedAt: 2025-11-21 05:18:40 -0500 (Fri, 21 Nov 2025) |
| EndedAt: 2025-11-21 05:23:41 -0500 (Fri, 21 Nov 2025) |
| EllapsedTime: 301.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings SVMDO_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/SVMDO.Rcheck’
* using R version 4.5.2 (2025-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.10.0’
* 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 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 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 ... OK
* 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-3.22-bioc/R/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’ * installing *source* package ‘SVMDO’ ... ** this is package ‘SVMDO’ version ‘1.10.0’ ** 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)
SVMDO.Rcheck/tests/testthat.Rout
R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
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: 6716,388962,130589,858,4035,2395
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3101,2641,4683,1277,4700,3291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 212,7424,5581,3159,1807,2113
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51128,3418,53345,5160,582,694
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55065,54798,5601,2689,160287,3692
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2673,3684,4285,2710,4728,3099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6999,387,1340,11093,90480,10059
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2932,1591,5467,154,5442,26235
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3034,3312,83985,51293,4143,51052
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7391,84705,1234,1601,5970,5551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 558,30061,2788,790955,3991,540
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7220,4723,2717,151306,255738,10730
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6402,406982,7421,2805,9526,1514
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9370,3643,8675,3767,84274,1585
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200205,10524,1813,55858,1208,2063
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55340,177,3117,6564,10008,5346
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 325,54658,2169,1543,2266,175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2695,6834,5265,1208,22901,5826
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4968,4864,23054,116931,5594,4547
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8473,55818,25821,51128,29928,795
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7172,1737,94235,6521,216,3065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3351,23600,54982,5346,140803,9575
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55526,643181,3708,5444,2629,6183
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6821,116519,2314,85476,5654,65993
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55902,5054,55503,54805,3934,6183
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57192,5345,1806,6263,100130015,4543
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406938,7026,6319,5781,3939,6402
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10874,567,2713,64432,6584,4925
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60386,567,8942,5295,3141,2310
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5631,345,255231,55163,10938,2713
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3065,56652,201305,104,283459,15
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28958,462,551,207,4144,4288
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8818,471,1514,593,5250,10062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4846,3990,7915,84572,217,6448
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8694,79661,155,33,55037,9380
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23395,2694,7390,345,3117,11231
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4843,326625,29960,54896,51241,858
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 177,10874,35,1675,627,7132
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 353500,50484,490,4023,91574,8877
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2908,5214,10842,4842,3710,7915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3791,728294,9377,3065,4718,221458
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1786,5579,410,4654,123,54915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4311,3490,9692,7054,23062,549
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4942,152078,3087,540,1601,23038
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2805,462,1075,210,55630,6448
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2475,133522,3813,3356,1807,54210
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2934,51167,6439,1584,11132,3373
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10875,788,1072,55065,5250,3357
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 124454,471,3170,2760,6948,5261
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5592,4118,514,1544,644096,335
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3978,4311,285126,5330,3645,5122
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1734,3558,2203,94235,768239,50506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1345,492,6476,4846,79934,594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57511,133,339,2581,2952,842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51024,3791,196385,5967,491,6392
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5350,3630,38,7287,1644,266
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4828,5160,7494,686,8473,6888
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8665,149775,1786,10577,1028,84947
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 178,3339,5367,9498,1186,1056
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3645,1650,1355,572,92609,405
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1956,84557,4714,5313,3054,219
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 488,6609,32,7412,48,9095
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200810,2487,1769,5346,57761,6925
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4049,4247,92667,9414,23474,5369
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10580,5256,2792,3627,6925,3170
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5428,650,4942,3033,9091,9672
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3032,406906,4288,2683,5211,50814
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5789,6582,2309,2180,549,353500
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54915,4718,4543,1376,3117,3980
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23400,90865,5095,4723,644974,3329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2395,4718,256471,57511,4728,9021
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2847,1491,4889,1497,5315,55699
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79585,28951,8818,6556,2161,5367
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 498,1208,51103,256471,1734,6564
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2896,169026,210,79133,3382,2647
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2820,7916,7248,51081,3598,64241
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3931,249,3480,123263,283120,55526
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2937,8942,3351,10243,6716,7030
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5214,5009,7350,5584,706,10250
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3351,5654,31,54476,5189,409
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6564,54675,5096,3551,5563,2243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 32,26088,84705,558,590,2108
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200186,3081,50674,5741,5194,199
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 574447,8665,353,27344,4312,3159
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133396,2888,2593,2487,1281,1351
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1605,11222,6387,3155,81033,112817
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 217,23462,5789,406937,56999,6439
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3938,10159,5345,1392,5925,3685
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55630,285362,43,5625,4143,283120
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 514,150379,4594,10229,1347,92609
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7494,644096,407045,201305,5160,6462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29843,6571,5190,197131,3630,5728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 29928,593,56997,2784,4899,5192
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2689,1802,7879,55340,6720,2717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 160287,90480,3033,407006,51649,4125
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 84706,2118,2760,347411,23038,2590
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6715,1029,48,11213,3032,5329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9559,7424,7409,1646,3312,54600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10269,5372,54575,8471,407010,3117
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407024,8694,857,51660,2932,100303755
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4313,22796,5264,341,1374,10062
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 407021,5498,10352,5592,84334,2152
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83854,2767,801,7385,5972,10667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6576,133522,5950,2158,5286,64900
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5618,10019,2793,1356,4314,7220
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 25915,255231,6536,2592,130589,1717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 50814,2628,84649,6834,1234,2495
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26175,341,2572,493,2702,253943
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 153,91942,3630,5713,3242,6770
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 231,4337,26762,4846,124976,2030
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3990,2053,100131801,1493,5175,387082
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 120227,9512,825,6833,1769,7319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 293,130120,5293,650,2147,6550
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 57570,51085,2260,4915,3283,941
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3991,2113,51004,406922,3033,5080
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
65.794 1.036 66.963
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.695 | 0.113 | 3.494 | |