Mustafa Erhan Ozer
| Snapshot Date: 2024-03-27 14:05:05 -0400 (Wed, 27 Mar 2024) |
| git_url: https://git.bioconductor.org/packages/SVMDO |
| git_branch: RELEASE_3_18 |
| git_last_commit: e42b83d |
| git_last_commit_date: 2024-01-08 13:29:46 -0400 (Mon, 08 Jan 2024) |
| Back to Multiple platform build/check report for BioC 3.18: simplified long |
|
This page was generated on 2024-03-29 11:38:19 -0400 (Fri, 29 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4669 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" | 4404 |
| merida1 | macOS 12.7.1 Monterey | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4427 |
| 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 2086/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SVMDO 1.2.8 (landing page) Mustafa Erhan Ozer
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
|
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: 1.2.8 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SVMDO_1.2.8.tar.gz |
| StartedAt: 2024-03-28 09:42:35 -0400 (Thu, 28 Mar 2024) |
| EndedAt: 2024-03-28 09:51:54 -0400 (Thu, 28 Mar 2024) |
| EllapsedTime: 559.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SVMDO.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SVMDO.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SVMDO_1.2.8.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/SVMDO.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SVMDO/DESCRIPTION’ ... OK
* this is package ‘SVMDO’ version ‘1.2.8’
* 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 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 ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/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. 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 4.3.3 (2024-02-29) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20 (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: 1803,1149,7274,540,5194,50943
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3833,3113,8835,10457,6522,4705
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7035,1135,54809,156,10295,640
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 112609,23178,3676,4478,5498,4143
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 729230,5788,6535,6891,2786,5294
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9868,6555,84868,3280,6620,6319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 133396,4319,1608,652,3406,4288
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6387,285,2158,2696,3032,3291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5595,2903,22845,7284,8398,123263
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8835,1435,186,3077,5274,10724
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5346,435,55970,11213,3625,4982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 30009,6464,80207,60412,1392,9122
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3350,5476,80331,5194,3762,23564
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4712,23474,5369,7471,2152,79587
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23062,656,132158,859,729238,7133
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6584,23436,8675,2203,4137,434
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1329,3569,3033,2639,5743,84342
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3685,1369,4914,4722,115286,1185
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5286,407007,3033,55343,6505,26227
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56259,9722,942,182,10857,22852
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 336,3290,51119,374291,4715,3356
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 654,2159,138050,8665,685,55937
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3284,513,3764,5191,10423,5506
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2885,187,6615,344,9968,3087
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 665,5920,2710,2180,728,5687
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5473,2006,4049,29968,2713,4627
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 140803,388753,8202,1043,9807,7408
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10165,6347,6093,6339,2488,5078
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7528,759,7422,112817,51422,54205
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6821,1629,2161,6427,2752,800
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5325,3251,5787,4321,91574,8604
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 367,10891,2673,581,51555,92667
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9382,124454,6476,351,6890,87178
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3929,10157,3123,150379,3988,5243
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5409,8802,2792,54896,57016,201595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 191,6447,100131801,4726,3572,5743
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7424,1650,6447,350,585,3728
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 196385,4695,6891,85365,3762,2752
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2582,6382,56848,63931,4854,6514
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 345,4285,149775,821,2184,2309
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2645,3932,55065,4149,1508,84701
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2932,8691,55283,5618,6616,2641
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6891,643394,4700,65018,768239,2992
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8675,2157,10643,409,3551,2593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10524,943,22877,4846,4580,5625
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7980,8195,6571,1365,2161,4860
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2052,2787,6288,3482,4060,518
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4149,6374,4313,10400,1649,149461
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 644974,6182,11019,6696,1327,3054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51422,160287,54982,10682,2786,8462
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1678,4288,5971,23586,479,23411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3615,1361,1890,200205,130120,84706
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7941,5631,11213,2495,2641,388753
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 790955,9619,3725,7018,8945,1203
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2820,43,4092,84239,6774,2890
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3990,79087,4683,10250,2517,551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6280,4826,64240,3664,1374,4594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 56244,5295,2571,6659,9575,3600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 169792,619373,26873,846,79783,4221
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3643,9180,5449,3382,4015,7372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 790,27089,4728,5860,653361,6337
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5593,84300,3552,55750,51649,5077
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 104,4886,9370,2647,335,5595
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 374291,407007,285,1175,5950,57505
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1621,2731,54539,107075310,3295,60412
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2946,26873,4729,55005,201305,104
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5087,115286,27232,5792,3803,9332
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2790,6492,5325,6566,55065,54704
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4688,196385,338557,1270,5506,4548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 462,54901,129787,3290,6095,347411
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26503,5697,5256,5641,999,6649
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1806,653509,6342,51117,3575,54915
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90624,1468,55270,3131,2203,5069
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1650,80331,151306,3598,1813,3934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10642,4598,3157,57817,54796,79934
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406,5188,3690,1444,857,5836
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7442,9518,5191,9241,6351,2063
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26762,2954,3606,6383,2118,4828
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6934,706,2052,3991,5824,6392
--> return NULL...
2024-03-28 09:51:39.448 R[4851:1971543325] XType: com.apple.fonts is not accessible.
2024-03-28 09:51:39.449 R[4851:1971543325] XType: XTFontStaticRegistry is enabled.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
89.378 2.129 96.192
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 1.256 | 0.040 | 1.354 | |