| Back to Mac ARM64 build report for BioC 3.18 |
|
This page was generated on 2024-04-18 11:32:20 -0400 (Thu, 18 Apr 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson1 | macOS 13.6.1 Ventura | arm64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4388 |
| 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
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | OK | OK | OK | NA | ||||||||
|
To the developers/maintainers of the SVMDO package: - 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: 2024-04-18 05:47:26 -0400 (Thu, 18 Apr 2024) |
| EndedAt: 2024-04-18 05:53:15 -0400 (Thu, 18 Apr 2024) |
| EllapsedTime: 348.6 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-mac-arm64/meat/SVMDO.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: aarch64-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 Ventura 13.6.1
* 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-arm64/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 4.3.3 (2024-02-29) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-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: 57085,55818,84334,685,5345,35
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10221,1435,10686,406991,332,3551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5264,595,2260,4843,4508,4982
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 26580,7852,1201,8772,1910,4099
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3638,122961,5071,821,3460,56999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5069,4319,57061,959,1232,10365
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 23474,6448,5589,1147,3426,2548
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7351,643387,8660,2181,7852,4143
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5255,9512,3283,4035,51103,28951
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8841,10891,7372,627,3645,5372
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64102,4162,3043,2643,467,3992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 409,6256,3759,64801,26227,2919
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7032,2878,2720,6258,6280,440138
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6348,818,51,4522,148713,23038
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4143,23600,7839,200205,387787,1347
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64805,493856,5245,4536,112817,1650
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2194,1471,966,81031,4567,1116
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2184,1056,3293,5660,632,3106
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 406991,2068,6287,3690,3932,3654
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51106,10365,10999,4843,2834,80201
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 64772,55858,4318,6182,275,5133
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 55805,54982,3690,4773,5294,3283
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10457,1497,6248,4321,2760,3418
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 7355,1992,7049,5373,29851,29881
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3303,80222,4779,3106,3074,5499
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 249,800,93587,6199,2642,57085
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5176,92483,64102,427,353,91574
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5641,1586,3394,4719,51601,55065
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 27089,6232,406,51204,57570,5350
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 790955,85476,1716,4091,6928,10845
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54704,836,5290,91647,37,1056
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 656,1051,51004,1345,5727,2950
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2308,3351,6510,26503,23576,5594
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3992,10886,2695,5080,7840,10999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 388753,2852,133396,164656,1376,2244
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8455,5971,4860,100125288,3034,6748
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3123,940,6868,8517,55768,25821
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6602,3091,3559,29928,5108,84701
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2643,6571,6469,958,387,63899
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5580,7082,3485,4718,152078,7128
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1588,4017,9692,5184,1557,9382
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9514,7076,563,3385,54106,551
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6555,10667,6891,1346,3688,8742
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6721,657,4537,55532,6387,3766
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 63899,5257,3553,23410,388962,6999
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5962,79644,5211,5029,1028,27429
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 8945,929,4790,3576,4351,1738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5428,3479,6908,1327,3605,55863
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51004,6615,5799,91869,664,197322
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 28957,27344,2885,3385,8772,4656
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3575,353500,109,3845,5499,5515
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 471,793,7321,7450,65080,92483
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6556,65080,5196,1072,7351,33
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5728,4729,339,4683,7100,23600
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 9445,4536,5451,844,285362,4700
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 2321,10874,2776,2643,111,117289
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 79689,7486,5054,8651,1889,6901
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 587,2113,219,3458,55967,60386
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10991,4879,4358,4508,7037,80724
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4595,6505,2475,958,10379,2717
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 30009,2752,26503,91452,8932,2992
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6786,22933,3062,2395,29078,728294
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6583,22926,3123,9388,5320,4718
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6932,87178,6383,102,3554,5184
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 1621,2946,885,5781,9409,4118
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 648998,3690,4656,353500,1052,5581
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 6714,50814,768239,80270,2643,3054
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 10316,23600,2693,25801,8743,10842
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3141,81034,51478,2559,10352,26088
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 100126861,6582,7852,2099,4536,7408
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 4668,959,189,593,1738,3700
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5255,10577,359,3356,2712,25974
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 3507,3654,664,7054,2934,5264
--> return NULL...
No gene sets have size between 10 and 500 ...
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 51106,26119,686,3304,23118,26060
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 284184,2053,3674,2646,10560,2998
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 257313,5306,85365,3875,8942,200186
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5328,388962,100128525,6554,7135,4094
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 5029,653509,5277,57761,84274,1738
--> return NULL...
--> No gene can be mapped....
--> Expected input gene ID: 54576,2495,388962,940,3065,1889
--> return NULL...
2024-04-18 05:53:04.201 R[46169:455021885] XType: Using static font registry.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
56.333 1.250 58.718
SVMDO.Rcheck/SVMDO-Ex.timings
| name | user | system | elapsed | |
| runGUI | 0.843 | 0.024 | 0.871 | |