Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-05-04 11:38:40 -0400 (Sat, 04 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4753 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 beta (2024-04-15 r86425 ucrt) -- "Puppy Cup" | 4486 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 beta (2024-04-14 r86421) -- "Puppy Cup" | 4519 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4479 |
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 2112/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
SVMDO 1.4.0 (landing page) Mustafa Erhan Ozer
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
kjohnson3 | macOS 13.6.5 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: 1.4.0 |
Command: F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz |
StartedAt: 2024-05-04 08:44:08 -0400 (Sat, 04 May 2024) |
EndedAt: 2024-05-04 08:49:29 -0400 (Sat, 04 May 2024) |
EllapsedTime: 321.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: SVMDO.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:SVMDO.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings SVMDO_1.4.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.19-bioc/meat/SVMDO.Rcheck' * using R version 4.4.0 beta (2024-04-15 r86425 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * 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 '1.4.0' * 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
SVMDO.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL SVMDO ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.19-bioc/R/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. Since you have a suitable version of DT (>= v0.32.1), shiny::dataTableOutput() will automatically use DT::DTOutput() under-the-hood. If this happens to break your app, set `options(shiny.legacy.datatable = TRUE)` to get the legacy datatable implementation (or `FALSE` to squelch this message). 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 4.4.0 beta (2024-04-15 r86425 ucrt) -- "Puppy Cup" Copyright (C) 2024 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: 121268,3280,177,2701,85479,51478 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 23365,6288,7032,340024,8818,4214 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7057,596,249,32,9692,26580 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6526,51300,1813,55829,4129,10279 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5465,3416,8682,821,7172,84705 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3315,2146,11222,1558,116150,435 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7431,3308,2952,4760,6583,8842 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3087,1371,4247,643181,384,6524 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 23474,10320,6521,3569,3242,145264 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 116085,55315,345,517,114814,11019 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 121268,7010,132158,632,3383,3113 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6199,54704,7078,6387,9076,2806 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6515,10845,79133,55340,27035,270 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2932,6999,3670,80347,7916,844 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 572,801,8029,3406,4650,1593 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 493856,4162,5257,9429,9479,1815 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 216,64788,6339,196385,6383,2937 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5406,7466,57061,2645,2244,1118 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 84684,4598,339,4094,50639,55283 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 100303755,1033,9388,9056,5444,3075 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 407004,50943,7421,2697,80267,3174 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6338,79585,10935,5447,51167,5293 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8803,64919,79572,5346,131118,92609 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1355,23118,116519,4792,4860,1185 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 11231,10999,3638,54,6834,8784 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2166,203,5631,10000,8560,4609 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 55858,6602,57264,650,1806,8722 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 54901,2653,1650,8932,3572,2786 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 51181,1524,55024,56718,347411,56606 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1491,7128,435,79644,7076,406922 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2629,4540,5565,2799,316,56052 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4099,388962,11096,5687,5798,4128 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 114548,4548,116085,64220,5368,5828 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1019,7384,54106,100128525,79585,5294 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2169,3690,3157,2717,9971,6929 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6722,1382,9054,479,81689,57016 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 10991,942,5589,3593,4285,5967 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5257,1146,84706,4057,10062,4668 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 644974,7345,10935,5116,2643,1806 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3062,8651,3930,3295,9572,7381 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 518,7082,2475,80142,23530,3667 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7389,2260,9409,1634,5449,57016 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 387787,10999,4358,5728,10457,5730 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 104,642489,5167,2852,4282,3500 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5891,3676,513,7350,2244,6392 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3995,2006,387,4826,22852,4694 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 268,1636,2847,160287,64432,53335 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 619373,4544,6427,51649,3952,3500 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4312,84062,57107,91574,10642,133 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 4790,84889,63931,29968,6941,26088 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7389,6097,1200,5068,4285,285362 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 356,3292,2167,8567,7525,3159 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8945,3683,3623,1965,4925,10165 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6446,51117,10845,136259,2314,3240 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3670,2632,4726,3939,7852,54414 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 7372,201595,10938,3284,1277,1186 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 85569,2203,2696,5207,5806,2180 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 57761,241,345,54822,1537,52 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5741,844,55858,57061,285848,5830 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 216,3418,29843,123,66036,4718 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 23516,3627,387787,388125,2155,3773 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 407009,11093,3401,4855,5230,145258 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1583,2645,3978,4915,30061,5116 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3406,81704,6288,50507,1606,3931 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 38,1641,7031,55805,55885,27089 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6620,1369,10549,43,246,7253 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6888,5584,60528,55699,2992,9572 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 3766,6526,9672,7480,4719,3640 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 54575,153,23516,1583,80207,7026 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6752,3690,6199,90070,5624,6275 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 2547,6786,8788,1565,1030,3658 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 5243,4323,5077,10842,10135,462 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 91869,4826,1813,57761,8764,2834 --> return NULL... No gene sets have size between 10 and 500 ... --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 8504,5105,7276,6521,3689,5293 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 121268,2280,516,51181,119559,6556 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 6007,1072,221895,3440,63892,123 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 91452,1182,1147,3329,56999,10019 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 55331,632,79587,80724,3315,5826 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 1869,8743,5787,9095,100133941,6248 --> return NULL... [ FAIL 0 | WARN 0 | SKIP 0 | PASS 4 ] > > proc.time() user system elapsed 60.35 1.85 62.28
SVMDO.Rcheck/SVMDO-Ex.timings
name | user | system | elapsed | |
runGUI | 0.61 | 0.06 | 0.75 | |