Mustafa Erhan Ozer
| Snapshot Date: 2024-03-03 14:05:05 -0500 (Sun, 03 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 -0500 (Mon, 08 Jan 2024) |
| Back to Multiple platform build/check report for BioC 3.18: simplified long |
|
This page was generated on 2024-03-04 11:37:56 -0500 (Mon, 04 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.2 Patched (2023-11-13 r85521) -- "Eye Holes" | 4692 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.2 (2023-10-31 ucrt) -- "Eye Holes" | 4445 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.3.2 Patched (2023-11-01 r85457) -- "Eye Holes" | 4466 |
| 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 | | ||||||||
| lconway | 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: 2024-03-03 23:49:52 -0500 (Sun, 03 Mar 2024) |
| EndedAt: 2024-03-03 23:55:18 -0500 (Sun, 03 Mar 2024) |
| EllapsedTime: 325.7 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 4.3.2 Patched (2023-11-01 r85457)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
Apple clang version 14.0.3 (clang-1403.0.22.14.1)
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 ** 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 4.3.2 Patched (2023-11-01 r85457) -- "Eye Holes"
Copyright (C) 2023 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: 5023,406913,3623,6382,2166,5116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3931,7466,6427,2026,6093,3091
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3816,7030,64122,81031,999,6387
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9369,6403,326625,55768,80201,410
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4744,56923,6524,2632,5296,1520
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 811,2335,7048,3309,3062,800
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3484,4627,100133941,1565,3293,7099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9968,10730,6009,6354,7430,28951
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 63899,5468,5328,3623,23516,6387
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4650,572,79001,7525,6289,22926
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4524,131118,686,23118,5406,121268
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51119,958,10243,10991,6476,35
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 48,80142,55270,3559,25805,788
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 116985,3570,2572,4760,643387,4724
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2222,3485,4149,4338,51141,1186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4855,4060,6383,1444,10008,10616
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4143,2936,7133,23586,4125,1593
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6329,84447,522,5195,5194,3717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 940,5193,2161,2314,6714,239
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 200810,9575,3099,1392,5190,4586
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 60684,2639,23516,9382,11222,9663
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2161,2710,104909134,3768,5321,10457
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3309,5740,293,6391,5592,215
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54896,9311,2064,3687,10999,22901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1056,55532,79689,7046,51181,23178
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4722,4125,4128,3123,401,54210
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7916,7442,7252,4828,909,3291
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3099,2720,3486,8659,3385,5467
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406991,2952,55768,1509,2745,2804
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8772,350,6279,5373,5286,941
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 83985,2159,18,10400,558,7350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3091,8772,11095,84735,3250,3329
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1634,5108,55005,5054,3280,169026
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2170,1201,2946,207,1968,5599
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406913,84340,9131,551,4879,64131
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2904,79191,2896,100126861,6901,6357
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4852,181,7839,5967,81704,6362
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 538,6690,7097,3600,4715,5162
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6718,11266,574447,4586,162417,4719
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 241,55343,80331,56999,148979,7157
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2118,5644,11019,3375,6447,3803
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1030,285848,6348,1185,51703,1175
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9817,3145,10102,7177,339,2678
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1601,4780,205327,56848,1116,9518
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 339,1393,4709,203859,85569,3105
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2713,94235,2006,2581,6814,3703
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 685,2395,10165,4144,3779,131669
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4878,25813,759,3636,5579,79944
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81570,1365,10935,2792,6834,10911
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 708,2984,3308,10965,367,151
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 411,51660,8856,1471,4276,1649
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8842,6097,2890,10423,5443,1490
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3596,6721,5091,19,5245,7407
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 81029,3554,65018,3351,80201,9382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 811,5294,3670,801,6722,4720
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 104909134,6319,654,6526,29079,150379
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 152078,7220,27247,148738,10935,885
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4041,7033,4790,3309,4232,8074
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2487,10165,23400,3115,7046,551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 211,216,1277,2152,583,4716
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2683,64900,4521,25915,467,1641
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3503,1582,6348,3932,712,3572
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6341,2673,8678,8722,150,6948
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6182,7494,10935,493927,4548,3949
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 255231,256297,10524,56945,1514,2629
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 66036,169792,3394,3558,55858,2100
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7099,231,5979,10060,5288,56848
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8604,27235,644974,23178,170302,22877
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2524,2194,4319,5236,6928,182
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2590,5919,4162,6236,170302,79068
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 90070,8694,3569,79087,338328,6786
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3159,3606,6287,148713,9180,5270
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4210,28234,6915,2266,4826,728
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5191,1444,2984,6774,11183,6324
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4536,55858,2308,4988,55748,5360
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1493,55600,1028,5744,112817,4319
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8799,2157,23706,84701,6280,1786
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55867,114884,6272,593,2184,80201
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5715,84447,266,5293,3570,6347
--> return NULL...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
53.687 1.509 55.508
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.760 | 0.029 | 0.796 | |